Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:1757122 original size:16 final size:16
Alignment explanation
Indices: 1757098--1757135 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1757088 AATTAATGTG
1757098 AATGCAAAAATATCTA
1 AATGCAAAAATATCTA
*
1757114 AATGTAAAAATATCTA
1 AATGCAAAAATATCTA
1757130 AATGCA
1 AATGCA
1757136 TGATGCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (16 bp):
AATGCAAAAATATCTA
Found at i:1760336 original size:8 final size:8
Alignment explanation
Indices: 1760325--1760386 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 8
1760315 ATAAACGAGT
1760325 AAATAAAA
1 AAATAAAA
1760333 AAATAAGAAGA
1 AAAT-A-AA-A
1760344 AAATAAAAA
1 AAAT-AAAA
1760353 AAATAAAA
1 AAATAAAA
1760361 ATATATAAAGA
1 A-A-ATAAA-A
*
1760372 AGATAAAA
1 AAATAAAA
1760380 AAATAAA
1 AAATAAA
1760387 GATAAGGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 16 0.35
9 12 0.26
10 9 0.20
11 9 0.20
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:1760348 original size:11 final size:9
Alignment explanation
Indices: 1760325--1760386 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
1760315 ATAAACGAGT
1760325 AAAT-AAAA
1 AAATAAAAA
1760333 AAATAAGAAGA
1 AAATAA-AA-A
1760344 AAATAAAAA
1 AAATAAAAA
1760353 AAATAAAAA
1 AAATAAAAA
* *
1760362 TATATAAAGA
1 -AAATAAAAA
*
1760372 AGAT-AAAA
1 AAATAAAAA
1760380 AAATAAA
1 AAATAAA
1760387 GATAAGGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
8 10 0.23
9 16 0.36
10 11 0.25
11 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (9 bp):
AAATAAAAA
Found at i:1760358 original size:28 final size:27
Alignment explanation
Indices: 1760325--1760386 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
1760315 ATAAACGAGT
1760325 AAATAAAAAAATA-AGAAGAAAATAAAAA
1 AAATAAAAAAATATA-AAGAAAAT-AAAA
* *
1760353 AAATAAAAATATATAAAGAAGATAAAA
1 AAATAAAAAAATATAAAGAAAATAAAA
1760380 AAATAAA
1 AAATAAA
1760387 GATAAGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 11 0.35
28 19 0.61
29 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (27 bp):
AAATAAAAAAATATAAAGAAAATAAAA
Found at i:1760426 original size:31 final size:30
Alignment explanation
Indices: 1760378--1760435 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
1760368 AAGAAGATAA
1760378 AAAAATAAAGATAAGGAATAAAAATAAAAAT
1 AAAAATAAAGATAAGGAA-AAAAATAAAAAT
* *
1760409 AAAAATGAA-ATAGAGGAAAAAAGTAAA
1 AAAAATAAAGATA-AGGAAAAAAATAAA
1760436 TAGAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (30 bp):
AAAAATAAAGATAAGGAAAAAAATAAAAAT
Found at i:1760845 original size:17 final size:20
Alignment explanation
Indices: 1760810--1760846 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
1760800 AAGTATATAT
1760810 AATAATAATAGTAAGAAAAA
1 AATAATAATAGTAAGAAAAA
1760830 AATAA-AATA-TAA-AAAAA
1 AATAATAATAGTAAGAAAAA
1760847 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 4 0.24
20 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AATAATAATAGTAAGAAAAA
Found at i:1761227 original size:36 final size:37
Alignment explanation
Indices: 1761180--1761286 Score: 162
Period size: 36 Copynumber: 2.9 Consensus size: 37
1761170 TTATGGATCC
* *
1761180 TATTTTTAGGAGCTTGAATCTTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
1761217 T-TTTTTAGGAGTTTGAATCATAGTAAAACTTTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
1761253 TATTTTTATGAGTTTGAATCATAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
1761287 ACGTTATGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 32 0.51
37 31 0.49
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:1761268 original size:37 final size:37
Alignment explanation
Indices: 1761176--1761286 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
1761166 ATGCTTATGG
* *
1761176 ATCCTATTTTTAGGAGCTTGAATCTTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
1761213 ATCAT-TTTTTAGGAGTTTGAATCATAGTAAAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
1761249 ATCCTATTTTTATGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1761286 A
1 A
1761287 ACGTTATGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 32 0.48
37 34 0.52
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:1761967 original size:84 final size:84
Alignment explanation
Indices: 1761866--1762725 Score: 824
Period size: 84 Copynumber: 10.4 Consensus size: 84
1761856 GTTTGCCTCT
* * * **
1761866 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAGCTTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
* *
1761931 CTGCAAATGATGTTCCTTG
66 CTGCAAATGATATGCCTTG
* * * * *
1761950 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACTCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* *
1762014 GCTGTAAATGATATGCCCTCG
65 GCTGCAAATGATATG-CCTTG
* * * * * *
1762035 AAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGACATATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
1762096 CTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * * *
1762115 GAGATGAGCGTAGTCGAACTCAAAGGTCTTTGGTTTG-CAGATAACCCATATCGACTTAAGTTAT
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-TTGACAGATAACCCTTCTCGACTTAAGTTAT
1762179 GCTGCAAATGATATGCCTTG
65 GCTGCAAATGATATGCCTTG
* * * * * * *
1762199 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTT-ACATATAACCTTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * * *
1762263 ACTGTAAATGATGTGCCCTCG
65 GCTGCAAATGATATG-CCTTG
* * * *
1762284 AAGCTGAGTGTAATCGAACTCG-AGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
* *
1762344 CTACAAATGATGTGCCTTG
66 CTGCAAATGATATGCCTTG
* * *
1762363 GAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
*
1762428 CTGCAAATGATATGCCTTA
66 CTGCAAATGATATGCCTTG
* * * * * *
1762447 GAGCTGAGCGTAATTGAACTCGAAGGGCTTTTGGTT-ATAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* ** * * **
1762511 GTTATAAATAATGTGCCCTCA
65 GCTGCAAATGATATG-CCTTG
* * ** *
1762532 AAACTGAGTATAATCGAACTCG-AGAGTCTTT-G--GA-AGATAGCCCTTCTCGACTTAA-TCTA
1 GAGCTGAGCGTAATCGAACTCGAAG-GTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT-TA
* *
1762591 TGCTCCAAATGATGTGCCTTG
64 TGCTGCAAATGATATGCCTTG
* * * * * *
1762612 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCATATAATCTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
1762677 CTG-ATAATGATATGCCTTG
66 CTGCA-AATGATATGCCTTG
* *
1762696 GAGCTGAGCGTAGTTGAACTCGAAGGTCTT
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTT
1762726 GGTGGGCACG
Statistics
Matches: 627, Mismatches: 120, Indels: 58
0.78 0.15 0.07
Matches are distributed among these distances:
79 23 0.04
80 92 0.15
81 72 0.11
82 4 0.01
83 7 0.01
84 336 0.54
85 93 0.15
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (84 bp):
GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATATGCCTTG
Found at i:1762187 original size:249 final size:248
Alignment explanation
Indices: 1761866--1762725 Score: 1249
Period size: 249 Copynumber: 3.5 Consensus size: 248
1761856 GTTTGCCTCT
* * * * * **
1761866 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAGCTTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
1761931 CTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACT
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAAC-
*
1761996 CTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
130 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* * *
1762061 TCTTTGACATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTG
195 TCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * * * *
1762115 GAGATGAGCGTAGTCGAACTCAAAGGTCTTTGGTTTGCAGATAACCCATATCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
1762180 CTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTTACATATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
*
1762245 TTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA-GG
131 -TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
*
1762309 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
195 TCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * *
1762363 GAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * * *
1762428 CTGCAAATGATATGCCTTAGAGCTGAGCGTAATTGAACTCGAAGGGCTTTTGGTTATAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAA-C
* * * * * * *
1762493 CTTCTAGCCTTGAGTTATGTTATAAATAATGTGCCCTCAAAACTGAGTATAATCGAACTCGAGAG
130 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* *
1762558 TCTTTGGA-AGATAGCCCTTCTCGACTTAATCTATGCTCCAAATGATGTGCCTTG
195 TCTTT-GACAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * * *
1762612 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCATATAATCTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
1762677 CTG-ATAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTT
66 CTGCA-AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1762726 GGTGGGCACG
Statistics
Matches: 547, Mismatches: 59, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
248 221 0.40
249 325 0.59
250 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (248 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT
CTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
Found at i:1763034 original size:110 final size:110
Alignment explanation
Indices: 1762853--1763134 Score: 396
Period size: 110 Copynumber: 2.6 Consensus size: 110
1762843 TTTCGAGGCC
* * * *
1762853 AATATCATT-CGCCGTGAAGTTGAAATTGACT-T---TAAAACTGGAAAGTTGTTTGTTGACAGC
1 AATATCATTAC-CTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGT
*
1762913 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCAAGTCT
65 CAGCCGCCCCTTCGCTGTGAAGTTCAGCTTGTGTTGTCTCAAGTCT
* *
1762959 AATATTC-TTCCCTGTGAAGTTGAAATTGTCTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGT
1 AATA-TCATTACCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGT
* * *
1763023 CAGTCGCCCCTTCGTTGTGAAGTTCAGCTTGTGTTGTCTCGAGTCT
65 CAGCCGCCCCTTCGCTGTGAAGTTCAGCTTGTGTTGTCTCAAGTCT
**
1763069 AATATCATTAGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTC
1 AATATCATTACCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTC
1763134 A
66 A
1763135 CCCATTCGTT
Statistics
Matches: 156, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
106 24 0.15
107 4 0.03
109 2 0.01
110 126 0.81
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (110 bp):
AATATCATTACCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTC
AGCCGCCCCTTCGCTGTGAAGTTCAGCTTGTGTTGTCTCAAGTCT
Found at i:1768246 original size:6 final size:6
Alignment explanation
Indices: 1768235--1768316 Score: 57
Period size: 6 Copynumber: 14.0 Consensus size: 6
1768225 GAGTAAATAA
** * *
1768235 AAAAAT AAAAAT -AAAAT AAAAAT AAATAA- AACAAAT GTAAA- GAAGAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AA-AAAT AAAAAT AAAAAT
*
1768282 AAAAAT --AAAT AAAGAT AAAGAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT
1768317 GAAATAGAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 40 0.67
7 8 0.13
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:1768253 original size:19 final size:19
Alignment explanation
Indices: 1768229--1768314 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 19
1768219 ATAAACGAGT
1768229 AAATAAAAAAATAAAAATA
1 AAATAAAAAAATAAAAATA
1768248 AAATAAAAATAAATAAAACA-A
1 AAAT-AAAA-AAATAAAA-ATA
** *
1768269 ATGTAAAGAAGATAAAAATA
1 AAATAAA-AAAATAAAAATA
*
1768289 AATAAAGATAAAGAATAAAAATA
1 AA-ATA-A-AAA-AATAAAAATA
1768312 AAA
1 AAA
1768315 ATGAAATAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
19 5 0.10
20 16 0.31
21 13 0.25
22 5 0.10
23 12 0.24
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (19 bp):
AAATAAAAAAATAAAAATA
Found at i:1768316 original size:25 final size:25
Alignment explanation
Indices: 1768218--1768316 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 25
1768208 ATATATACAT
*
1768218 AATAAACGAGTAAATAA-AAAAATAAA
1 AATAAA-GA-TAAAGAATAAAAATAAA
1768244 AATAAA-ATAAA-AAT--AAATAAA
1 AATAAAGATAAAGAATAAAAATAAA
*
1768265 ACA-AATG-TAAAGAAGATAAAAAT--A
1 A-ATAAAGATAAAG-A-ATAAAAATAAA
1768289 AATAAAGATAAAGAATAAAAATAAA
1 AATAAAGATAAAGAATAAAAATAAA
1768314 AAT
1 AAT
1768317 GAAATAGAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
21 14 0.24
22 3 0.05
23 14 0.24
24 9 0.15
25 9 0.15
26 10 0.17
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (25 bp):
AATAAAGATAAAGAATAAAAATAAA
Found at i:1768322 original size:30 final size:28
Alignment explanation
Indices: 1768229--1768322 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 28
1768219 ATAAACGAGT
1768229 AAATAAA-AAAATAAA-AAT-AAAATAA
1 AAATAAATAAAATAAAGAATAAAAATAA
* *
1768254 AAATAAATAAAACAAATGTAA-AGAAGATAA
1 AAATAAATAAAATAAA-G-AATA-AAAATAA
1768284 AAATAAATAAAGATAAAGAATAAAAATAA
1 AAATAAATAAA-ATAAAGAATAAAAATAA
1768313 AAATGAAATA
1 AAAT-AAATA
1768323 GAGGGGAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
25 7 0.12
26 7 0.12
29 14 0.25
30 24 0.43
31 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (28 bp):
AAATAAATAAAATAAAGAATAAAAATAA
Found at i:1768363 original size:3 final size:3
Alignment explanation
Indices: 1768355--1768386 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1768345 TAAAAAATAG
*
1768355 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1768387 AAACAATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1768394 original size:12 final size:12
Alignment explanation
Indices: 1768355--1768424 Score: 50
Period size: 12 Copynumber: 5.6 Consensus size: 12
1768345 TAAAAAATAG
*
1768355 AATAATAATAAT
1 AATAATAAAAAT
**
1768367 AATAATACTAAT
1 AATAATAAAAAT
*
1768379 AATAATAAAAAC
1 AATAATAAAAAT
*
1768391 AATAAGTAAAGAGT
1 AATAA-TAAA-AAT
*
1768405 AATAAAAGAAAAT
1 AATAATA-AAAAT
*
1768418 AAAAATA
1 AATAATA
1768425 GAAGGATATA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
12 25 0.56
13 12 0.27
14 8 0.18
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:1768447 original size:29 final size:30
Alignment explanation
Indices: 1768414--1768476 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
1768404 TAATAAAAGA
1768414 AAATAAAAATAGAAGGATATAAG-AATAAT
1 AAATAAAAATAGAAGGATATAAGTAATAAT
* * * *
1768443 AAAT-AAAATATATGTATATATGTAATAAT
1 AAATAAAAATAGAAGGATATAAGTAATAAT
1768472 AAATA
1 AAATA
1768477 TAATATTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (30 bp):
AAATAAAAATAGAAGGATATAAGTAATAAT
Found at i:1769124 original size:37 final size:37
Alignment explanation
Indices: 1769074--1769148 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
1769064 ATGTTTATAG
* *
1769074 ATCTTATTTTTAGGAGTTTGAATCTTATTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
1769111 ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAATTCT
1 ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1769148 A
1 A
1769149 ACGTTATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:1772326 original size:17 final size:17
Alignment explanation
Indices: 1772300--1772339 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1772290 AATAACTAGG
*
1772300 AGGTAGTTTAATGTAAT
1 AGGTATTTTAATGTAAT
1772317 AGGTATTTTAATGTAAT
1 AGGTATTTTAATGTAAT
1772334 AGGTAT
1 AGGTAT
1772340 CACCTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (17 bp):
AGGTATTTTAATGTAAT
Found at i:1772524 original size:13 final size:13
Alignment explanation
Indices: 1772506--1772531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1772496 TATTTCTATA
1772506 AATATCCATACTT
1 AATATCCATACTT
1772519 AATATCCATACTT
1 AATATCCATACTT
1772532 TTAGAGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATCCATACTT
Found at i:1773150 original size:3 final size:3
Alignment explanation
Indices: 1773142--1773175 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1773132 TTTGTCTCAA
1773142 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1773176 TTTTCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1776484 original size:13 final size:13
Alignment explanation
Indices: 1776466--1776495 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1776456 AACCCGACCC
1776466 GACCCGACCCGTT
1 GACCCGACCCGTT
1776479 GACCCGACCCGTT
1 GACCCGACCCGTT
1776492 GACC
1 GACC
1776496 GGCGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1779039 original size:48 final size:48
Alignment explanation
Indices: 1778978--1779069 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
1778968 TCCGACTTGA
*
1778978 ATTTTGTTATGATATATGACCTGAATTCTGTTTTGATTTCTGATCTGG
1 ATTTTATTATGATATATGACCTGAATTCTGTTTTGATTTCTGATCTGG
* * **
1779026 ATTTTATTCTGATATTTGTTCTGAATTCTGTTTTGATTTCTGAT
1 ATTTTATTATGATATATGACCTGAATTCTGTTTTGATTTCTGAT
1779070 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.54
Consensus pattern (48 bp):
ATTTTATTATGATATATGACCTGAATTCTGTTTTGATTTCTGATCTGG
Found at i:1779062 original size:24 final size:24
Alignment explanation
Indices: 1778975--1779062 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 24
1778965 ATTTCCGACT
* * * *
1778975 TGAATTTTGTTATGATATATGACC
1 TGAATTCTGTTTTGATATTTGATC
1778999 TGAATTCTGTTTTGAT-TTCTGATC
1 TGAATTCTGTTTTGATATT-TGATC
* * * * *
1779023 TGGATTTTATTCTGATATTTGTTC
1 TGAATTCTGTTTTGATATTTGATC
1779047 TGAATTCTGTTTTGAT
1 TGAATTCTGTTTTGAT
1779063 TTCTGATATC
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.02
24 46 0.94
25 2 0.04
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATATTTGATC
Found at i:1780198 original size:3 final size:3
Alignment explanation
Indices: 1780185--1780236 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
1780175 CCAGACGTTT
* *
1780185 TTA TATA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
1780232 TTA TT
1 TTA TT
1780237 TTGTTTTCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1780223 original size:25 final size:25
Alignment explanation
Indices: 1780185--1780232 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
1780175 CCAGACGTTT
1780185 TTATATATTATTATTATTATTATAA
1 TTATATATTATTATTATTATTATAA
1780210 TTATA-ATTATTTATTATTATTAT
1 TTATATATTA-TTATTATTATTAT
1780233 TATTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATATATTATTATTATTATTATAA
Found at i:1780292 original size:23 final size:23
Alignment explanation
Indices: 1780249--1780294 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1780239 GTTTTCAGGC
*
1780249 TTTACAAACCCAAACTGGGCCCA
1 TTTACAAACCCAAACTCGGCCCA
*
1780272 TTTAC-AACTCAACACTCGGCCCA
1 TTTACAAACCCAA-ACTCGGCCCA
1780295 ACTACTAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.37, G:0.11, T:0.20
Consensus pattern (23 bp):
TTTACAAACCCAAACTCGGCCCA
Found at i:1790822 original size:42 final size:41
Alignment explanation
Indices: 1790755--1790873 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 41
1790745 AATTGGTAAG
* *
1790755 TCCTTCGAGCCAT-CATTAAGTCTTTCGAGCATGATGAGTAAA
1 TCCTTCAAGCCATCCA-TAAGCCTTTCGAGCATGATGA-TAAA
* * * *
1790797 TCCTTCAAGTCATCTATAAGCCTTTCGAGCAAGATGATAAG
1 TCCTTCAAGCCATCCATAAGCCTTTCGAGCATGATGATAAA
* * *
1790838 TTCTTCGAGCCATCCATAAGACC-TTCGTGCATGATG
1 TCCTTCAAGCCATCCATAAG-CCTTTCGAGCATGATG
1790874 TTTTCACATA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 30 0.48
42 32 0.51
43 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (41 bp):
TCCTTCAAGCCATCCATAAGCCTTTCGAGCATGATGATAAA
Found at i:1791044 original size:245 final size:244
Alignment explanation
Indices: 1790264--1791796 Score: 2103
Period size: 243 Copynumber: 6.3 Consensus size: 244
1790254 TTCTTACTCA
* * * * * * *
1790264 GTAAGTCCTTTGGGCCATCAATAAATTTTTCGAGCATGATGATTAAATTCTTCGGGTCATCTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * ** * * * * *
1790329 AGTCTTTTGAATAATATGATAAGTCATTCGGGCCACCCATAATACCTTCGGGCATGATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* *
1790394 CATGTTTTTCGAAAAATGAGAAAAATTTCCCATTTAAATCTGAAAATTGAAA-TTTTTGAAAAGT
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATT-AAAGTTTTTGAAAAGT
* * *
1790458 AAGGAAACGATTTCCAAAGTTTCTTACCTAG-AAACTCTTTCCAAAATTG
195 AAGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
*
1790507 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTTGGGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * * * *
1790572 AGCCTTTGGAGCAAAATGATAAGTCATTCGGGACATCCATAAGACCTTCGAGCAGGATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* *
1790637 CAAGTTTTTCGAAAAATGAG-AAAGTTTCTCATTTAAAACTGAAAATTAAAGTTTTTGAAAAGTA
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
*
1790701 AGAAAATGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
196 AGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * **
1790750 GTAAGTCCTTCGAGCCATCATTAAGTCTTTCGAGCATGATGAGTAAATCCTTCAAGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * * *
1790815 AGCCTTTCGAGCAAGATGATAAGTTCTTCGAGCCATCCATAAGACCTTCGTGCATGATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* * *
1790880 CATATTTTTCAAAAAACGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
* *
1790945 AGAAAATGATTTTTCAAAGTTTCTTACCTATTAAACTATTTCCAAAATTG
196 AGAAAACGA-TTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * *
1790995 GTAAGTCATTTGGGTCATCAGTAAGTCTTTTGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * ** * *
1791060 AGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTCATGTAGGGTGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* * * *
1791125 CATGTTTTTTTGAAAAATGAGAATAGTTTCTCATTTAAATCTGAAAATTGAAAATTTTT-AACAG
131 CATG-TTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATT-AAAGTTTTTGAAAAG
* *
1791189 AAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
194 TAAGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* *
1791240 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCAGGTTATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * *
1791305 AGCCATTCAAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGCAGGATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
*** * *
1791370 CATGTTTTTC-AAAAATGAGAAAA-CAACTCATTTAAATTTGAAAATTGAAGTTTTTGAAAAGTA
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
* *
1791433 AGAAAGCGA-TTTCAAAAGTTTCTTACCTAGTAAACTATTCCCAAAATTG
196 AGAAAACGATTTTC-AAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * *
1791482 GTAAGTCCTTCGGGACATCAGTAAGTCTTTCGAGCATCATGAGTAAATCATTTGGGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
* * ** *
1791547 AGCCTTTCGACCAAGTTGATAAGTCCTTCCAGACATCCATAAGACCTTCGGGCAGGATGTTTTCA
66 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* *
1791612 CATGTTTTTCGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAGTTTTTGAAAAGTA
131 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
* * * *
1791677 AGAAAACAATTTGCAAAGTTTCTTACCTAGTAAACTACTTCCAAAATTA
196 AGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * * * * *
1791726 GTACA-TCCTTCAGGCCATCTGTTAGTCGTTCAAGCAAGATGA-TAAGTCCTTCGGGTCATCTAT
1 GTA-AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTAT
1791789 AAGACCTT
65 AAG-CCTT
1791797 CGGGTAAGAT
Statistics
Matches: 1143, Mismatches: 134, Indels: 25
0.88 0.10 0.02
Matches are distributed among these distances:
241 13 0.01
242 257 0.22
243 327 0.29
244 168 0.15
245 317 0.28
246 53 0.05
247 8 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (244 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTATA
AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAGTTTTTGAAAAGTA
AGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:1791102 original size:41 final size:42
Alignment explanation
Indices: 1790995--1791102 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
1790985 TCCAAAATTG
* * *
1790995 GTAAGTCATTTGGGTCAT-CAGTAAGTCTTTTGAGCATGATGA
1 GTAAGTCCTTTGGGTCATCCA-TAAGTCTTTCGAGCAAGATGA
* * *
1791037 GTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGA
1 GTAAGTCCTTTGGGTCATCCATAAGTCTTTCGAGCAAGATGA
*
1791079 -TAAGTCCTTTGGGCCATCCATAAG
1 GTAAGTCCTTTGGGTCATCCATAAG
1791103 ACCTTCATGT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 20 0.36
42 34 0.62
43 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
GTAAGTCCTTTGGGTCATCCATAAGTCTTTCGAGCAAGATGA
Found at i:1792089 original size:13 final size:13
Alignment explanation
Indices: 1792063--1792097 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1792053 GATGTTTTTA
*
1792063 TATT-ATTATTAT
1 TATTAATTATAAT
1792075 TATTAATTATAAT
1 TATTAATTATAAT
1792088 TATTAATTAT
1 TATTAATTAT
1792098 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAATTATAAT
Found at i:1796460 original size:59 final size:59
Alignment explanation
Indices: 1796395--1796529 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 59
1796385 ATAGTCGGGT
* * *
1796395 GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAATAACGC-CTTATAGTC-AGA
1 GACCATTTTGTAACTTTTAATAGTCG-GGGACTCAACAAAACAACACTC-TATAATCGAGA
* *
1796454 GACCATTTTGTAACCTTTAATAGTCGGGGAGTCAACAAAACAACACTCTATAATCGAGA
1 GACCATTTTGTAACTTTTAATAGTCGGGGACTCAACAAAACAACACTCTATAATCGAGA
1796513 GACCATTTATGT-ACTTT
1 GACCATTT-TGTAACTTT
1796530 ACCTTTTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
58 23 0.34
59 41 0.61
60 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATAGTCGGGGACTCAACAAAACAACACTCTATAATCGAGA
Found at i:1798085 original size:19 final size:20
Alignment explanation
Indices: 1798058--1798101 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1798048 AAACCTCTAG
* *
1798058 AACTAACAACA-ATTCATTT
1 AACTTACAACATAATCATTT
*
1798077 AACTTACAATATAATCATTT
1 AACTTACAACATAATCATTT
1798097 AACTT
1 AACTT
1798102 TCAAAACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
AACTTACAACATAATCATTT
Found at i:1801649 original size:33 final size:33
Alignment explanation
Indices: 1801607--1801674 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1801597 TTAGTATCCA
1801607 TTATCTTTCACCACCAATCGTCTTCCATATACC
1 TTATCTTTCACCACCAATCGTCTTCCATATACC
1801640 TTATCTTTCACCACCAATCGTCTTCCATATACC
1 TTATCTTTCACCACCAATCGTCTTCCATATACC
1801673 TT
1 TT
1801675 TAAAATGAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.35, G:0.03, T:0.38
Consensus pattern (33 bp):
TTATCTTTCACCACCAATCGTCTTCCATATACC
Found at i:1802226 original size:21 final size:21
Alignment explanation
Indices: 1802201--1802286 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
1802191 GGTTTAGGGT
*
1802201 TTAGGATTTTGGGTTTATGTG
1 TTAGGATTTAGGGTTTATGTG
* * *
1802222 ATAGGATTTAAGGTTTAAAGT-
1 TTAGGATTTAGGGTTT-ATGTG
1802243 TTA-GAGTTTAGGGTTTATGTG
1 TTAGGA-TTTAGGGTTTATGTG
*
1802264 TTAAGATTTAGGGTTTATGTG
1 TTAGGATTTAGGGTTTATGTG
1802285 TT
1 TT
1802287 GGGGTTTAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.09
21 44 0.81
22 5 0.09
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTAGGATTTAGGGTTTATGTG
Found at i:1802294 original size:42 final size:42
Alignment explanation
Indices: 1802188--1802280 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
1802178 AATTATGTGA
** * *
1802188 TAAGGTTTAGGGTTTAG-GATTTTGGGTTTATGTGATAGGATT
1 TAAGGTTTAAAGTTTAGAG-TTTAGGGTTTATGTGATAAGATT
*
1802230 TAAGGTTTAAAGTTTAGAGTTTAGGGTTTATGTGTTAAGATT
1 TAAGGTTTAAAGTTTAGAGTTTAGGGTTTATGTGATAAGATT
*
1802272 TAGGGTTTA
1 TAAGGTTTA
1802281 TGTGTTGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGAGTTTAGGGTTTATGTGATAAGATT
Found at i:1802596 original size:17 final size:17
Alignment explanation
Indices: 1802574--1802610 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1802564 ATTCGAGTTT
*
1802574 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
1802591 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
1802608 GAG
1 GAG
1802611 CTTGAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:1802632 original size:12 final size:12
Alignment explanation
Indices: 1802615--1802659 Score: 90
Period size: 12 Copynumber: 3.8 Consensus size: 12
1802605 ATCGAGCTTG
1802615 AATCGAGCTCAA
1 AATCGAGCTCAA
1802627 AATCGAGCTCAA
1 AATCGAGCTCAA
1802639 AATCGAGCTCAA
1 AATCGAGCTCAA
1802651 AATCGAGCT
1 AATCGAGCT
1802660 TCAATCGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:1802647 original size:24 final size:22
Alignment explanation
Indices: 1802604--1802682 Score: 90
Period size: 24 Copynumber: 3.5 Consensus size: 22
1802594 TTCGAGCTTG
*
1802604 AATCGAGCTTGAATCGAGCTCAA
1 AATCGAGC-TCAATCGAGCTCAA
1802627 AATCGAGCTCAAAATCGAGCTCAA
1 AATCGAGCTC--AATCGAGCTCAA
1802651 AATCGAGCTTCAATCGAGCTTC--
1 AATCGAGC-TCAATCGAGC-TCAA
1802673 AATCGAGCTC
1 AATCGAGCTC
1802683 GAGTCTCGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
21 2 0.04
22 9 0.18
23 16 0.31
24 22 0.43
25 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (22 bp):
AATCGAGCTCAATCGAGCTCAA
Found at i:1802704 original size:11 final size:11
Alignment explanation
Indices: 1802595--1802705 Score: 86
Period size: 11 Copynumber: 9.6 Consensus size: 11
1802585 TTAATCGAGT
*
1802595 TCGAGCTTGAA
1 TCGAGCTTCAA
*
1802606 TCGAGCTTGAA
1 TCGAGCTTCAA
1802617 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
1802629 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
1802641 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
1802653 TCGAGCTTCAA
1 TCGAGCTTCAA
1802664 TCGAGCTTCAA
1 TCGAGCTTCAA
*
1802675 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
1802688 TCGAGCTTCAA
1 TCGAGCTTCAA
1802699 TCGAGCT
1 TCGAGCT
1802706 CTTGATTTTT
Statistics
Matches: 90, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
10 3 0.03
11 44 0.49
12 32 0.36
13 9 0.10
14 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:1803250 original size:28 final size:28
Alignment explanation
Indices: 1803218--1803274 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1803208 CCATTATTGC
* *
1803218 TTTCAAACAGTGGCTCAACAACATAATA
1 TTTCAAACACTGACTCAACAACATAATA
* * *
1803246 TTTCAAGCACTGACTCGACGACATAATA
1 TTTCAAACACTGACTCAACAACATAATA
1803274 T
1 T
1803275 AAACAGAGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (28 bp):
TTTCAAACACTGACTCAACAACATAATA
Found at i:1809798 original size:23 final size:21
Alignment explanation
Indices: 1809772--1809825 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
1809762 ATAAATAAAC
1809772 AAATAAAAAAATGAACCAAAAT
1 AAATAAAAAAAT-AACCAAAAT
* *
1809794 GAAATAATAATAATAAGCAAAAT
1 -AAATAA-AAAAATAACCAAAAT
1809817 AAAGTAAAA
1 AAA-TAAAA
1809826 TAAAATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 17 0.63
24 5 0.19
ACGTcount: A:0.70, C:0.06, G:0.07, T:0.17
Consensus pattern (21 bp):
AAATAAAAAAATAACCAAAAT
Found at i:1810518 original size:29 final size:29
Alignment explanation
Indices: 1810471--1810526 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1810461 AAATAAGAGT
1810471 TGGAAACTGAAAGGACTAAAATAAAAGAC
1 TGGAAACTGAAAGGACTAAAATAAAAGAC
*
1810500 TGGAAACT-AAAGGGGCTAAAATAAAAG
1 TGGAAACTGAAA-GGACTAAAATAAAAG
1810527 TACTAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (29 bp):
TGGAAACTGAAAGGACTAAAATAAAAGAC
Found at i:1810765 original size:33 final size:33
Alignment explanation
Indices: 1810728--1810791 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
1810718 GGTGTTAGCG
*
1810728 GGTTAGTTCGGACAATAAAATAAAAAGTTAGTA
1 GGTTAGTTCGAACAATAAAATAAAAAGTTAGTA
1810761 GGTTAGTTCGAACAATAAAATAAAAAGTTAG
1 GGTTAGTTCGAACAATAAAATAAAAAGTTAG
1810792 CGAGCTAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (33 bp):
GGTTAGTTCGAACAATAAAATAAAAAGTTAGTA
Found at i:1812988 original size:67 final size:65
Alignment explanation
Indices: 1812832--1812988 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
1812822 TCAAAAATCA
* * * *
1812832 TATTCCAAGAGAAAATATCCCAAGTGAGATAAAAATTTGTCTTGAGAGAAATAATTTCAAAATTG
1 TATTTCAAGAGAAAATATCTCAAGTGAGATAAAAACTTGTCTTGAGAGAAACAATTTCAAAATTG
* *
1812897 TATTTCAAGAGAAAATATCTCAAGTGAGATAAAAACTT-TCTTTAGATTGAAACAATTTCTAAAC
1 TATTTCAAGAGAAAATATCTCAAGTGAGATAAAAACTTGTCTTGAGA--GAAACAATTTC-AAAA
1812961 TTG
63 TTG
* *
1812964 TGTTTCAAG-GAAAACTGTCTCAAGT
1 TATTTCAAGAGAAAA-TATCTCAAGT
1812989 AAGACGAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 7 0.09
65 35 0.44
66 15 0.19
67 23 0.29
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (65 bp):
TATTTCAAGAGAAAATATCTCAAGTGAGATAAAAACTTGTCTTGAGAGAAACAATTTCAAAATTG
Found at i:1823358 original size:41 final size:40
Alignment explanation
Indices: 1823297--1823412 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 40
1823287 TGATTATGAC
*
1823297 AAGACTCATACTTTAGTGGCATTTTTATATAAACACCACTT
1 AAGACTCGTACTTTAGTGGCATTTTTATATAAACACCAC-T
* * * *
1823338 AAGACTCGTACTTTAATGGCATTTTTTTATAAAAAACCGCT
1 AAGACTCGTACTTTAGTGGCATTTTTATAT-AAACACCACT
* *
1823379 ATAGACTTGT--TTTAGTGGCATTTTTATACAAACA
1 A-AGACTCGTACTTTAGTGGCATTTTTATATAAACA
1823413 TCGTAAATAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
39 4 0.06
40 16 0.25
41 29 0.46
42 14 0.22
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (40 bp):
AAGACTCGTACTTTAGTGGCATTTTTATATAAACACCACT
Found at i:1829601 original size:21 final size:21
Alignment explanation
Indices: 1829575--1829618 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1829565 TCAAATTTTC
1829575 TTTTCTATATT-TTTATCTCTT
1 TTTTCTATATTCTTTAT-TCTT
* *
1829596 TTTTCTTTTTTCTTTATTCTT
1 TTTTCTATATTCTTTATTCTT
1829617 TT
1 TT
1829619 ATCTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTATATTCTTTATTCTT
Found at i:1829623 original size:21 final size:22
Alignment explanation
Indices: 1829586--1829627 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1829576 TTTCTATATT
*
1829586 TTTATCTCTTTTTTCTTTTTTC
1 TTTATCTCTTTTATCTTTTTTC
1829608 TTTAT-TCTTTTATCTTTTTT
1 TTTATCTCTTTTATCTTTTTT
1829628 TTCTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATCTCTTTTATCTTTTTTC
Found at i:1829634 original size:28 final size:27
Alignment explanation
Indices: 1829570--1829634 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
1829560 CCTTTTCAAA
1829570 TTTTCTTTTCTATATTTTTATCTCTTT
1 TTTTCTTTTCTATATTTTTATCTCTTT
* *
1829597 TTTCTTTTTTCTTTATTCTTTTATCT-TTT
1 TTT-TCTTTTCTATA-T-TTTTATCTCTTT
1829626 TTTTCTTTT
1 TTTTCTTTT
1829635 TCAAGTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.09
28 14 0.44
29 7 0.22
30 8 0.25
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTCTTTTCTATATTTTTATCTCTTT
Found at i:1829635 original size:7 final size:7
Alignment explanation
Indices: 1829592--1829627 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
1829582 TATTTTTATC
1829592 TCTTTTT
1 TCTTTTT
1829599 TCTTTTT
1 TCTTTTT
*
1829606 TCTTTAT
1 TCTTTTT
*
1829613 TCTTTTA
1 TCTTTTT
1829620 TCTTTTT
1 TCTTTTT
1829627 T
1 T
1829628 TTCTTTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (7 bp):
TCTTTTT
Found at i:1837527 original size:26 final size:26
Alignment explanation
Indices: 1837498--1837562 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 26
1837488 AATTTCTAAA
1837498 AAATTTTAGACTACTTTGGTTTATAT
1 AAATTTTAGACTACTTTGGTTTATAT
* *
1837524 AAA---T-GAGTACTTTGGTTTCTAT
1 AAATTTTAGACTACTTTGGTTTATAT
* *
1837546 TATTTTTAGACTACTTT
1 AAATTTTAGACTACTTT
1837563 AGCCCCTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
22 17 0.57
23 1 0.03
25 1 0.03
26 11 0.37
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (26 bp):
AAATTTTAGACTACTTTGGTTTATAT
Found at i:1839950 original size:34 final size:34
Alignment explanation
Indices: 1839913--1839976 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
1839903 ATTTTTTTAA
*
1839913 AAAAAAACCCAACCCG-ACCCGAATATCAAACTT
1 AAAAAAACCCAACCCGAACCCGAATACCAAACTT
* *
1839946 AAAAAAGCCCGACCCGAACCCGAATACCAAA
1 AAAAAAACCCAACCCGAACCCGAATACCAAA
1839977 AGATTGATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 14 0.52
34 13 0.48
ACGTcount: A:0.48, C:0.34, G:0.09, T:0.08
Consensus pattern (34 bp):
AAAAAAACCCAACCCGAACCCGAATACCAAACTT
Found at i:1840289 original size:17 final size:18
Alignment explanation
Indices: 1840250--1840296 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
1840240 TGTTTCTGAG
1840250 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
1840268 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
1840285 GGAATTGGAATC
1 GGAATTGGAATC
1840297 CAATTTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:1840954 original size:29 final size:29
Alignment explanation
Indices: 1840919--1840976 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1840909 AAGTTTCACC
* *
1840919 CGACCCGACCTGAAATAATAAGAGAAATA
1 CGACCCGACCCGAAATAATAAAAGAAATA
1840948 CGACCCGACCCGAAATAATAAAAGAAATA
1 CGACCCGACCCGAAATAATAAAAGAAATA
1840977 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (29 bp):
CGACCCGACCCGAAATAATAAAAGAAATA
Found at i:1841155 original size:254 final size:245
Alignment explanation
Indices: 1840641--1841156 Score: 521
Period size: 254 Copynumber: 2.1 Consensus size: 245
1840631 TCCATCCGAG
* *
1840641 ACCCGACCCGACCAAAATAAAGTTTCACCCGACTCGACCCGAATATATGAATTAGAAATCCGACC
1 ACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATGAGAAATCCGACC
*
1840706 CGAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAATATAGAGA
66 CGAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGAC-TAATTGAAAAAAATATAGAGA
*
1840771 TGTGTATTATTATAATTATTCCTAAATATATAAAGTAAAATTATATTTTTTTTGGGTCGGGTCGG
130 TGTGTATTATTATAATTATTCCTAAATATATAAAGTAAAATTATATTATTTTTGGGTCGGGT--G
*** ** * * *
1840836 GTCGGGTATTTTTCACCCTAAACCCGACCCGAATATCACATTAAAAAAAAAACG
193 GTCGGGTACCCTAAACCCAAAACCCAACCCGAATATCACATT-AAAAAAAAACA
* *
1840890 ACCCAACCCGACCAAAATAAAGTTTCACCCGACCCGACCTGAA-ATAAT-AA-GAGAAATACGAC
1 ACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATAT-ATGAATGAGAAAT-----
* * *
1840952 CCGACCCGAAATAATAAAAGAAATATTTTTTATTTAAT-AAAATAGTGAC-AATTGAAAACAAAT
60 CCGACCCGAAATAATAAAAAAAATA-TTTTTATTCAATAAAAACAGTGACTAATTG--AA-AAA-
* * *
1841015 TATATATAGAGA-G-GTATTATTGTAATTATTCCTAAATATATAAGGTAATATTATATATATTTT
120 -A-ATATAGAGATGTGTATTATTATAATTATTCCTAAATATATAAAGTAAAATTATAT-TATTTT
* *** *
1841078 TGGGTTGGGT-GT-TTTTACCCTAAACCCAAACTCGACCCAACCCGAATATCACACTT-AAAGAA
182 TGGGTCGGGTGGTCGGGTACCCTAAACCCAAA----ACCCAACCCGAATATCACA-TTAAAAAAA
*
1841140 ACCA
242 AACA
1841144 ACCCGACCCGACC
1 ACCCGACCCGACC
1841157 TGAATATATG
Statistics
Matches: 221, Mismatches: 27, Indels: 33
0.79 0.10 0.12
Matches are distributed among these distances:
247 6 0.03
248 4 0.02
249 42 0.19
250 5 0.02
251 9 0.04
252 37 0.17
253 14 0.06
254 59 0.27
255 34 0.15
256 11 0.05
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (245 bp):
ACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATGAGAAATCCGACC
CGAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTAATTGAAAAAAATATAGAGAT
GTGTATTATTATAATTATTCCTAAATATATAAAGTAAAATTATATTATTTTTGGGTCGGGTGGTC
GGGTACCCTAAACCCAAAACCCAACCCGAATATCACATTAAAAAAAAACA
Found at i:1845736 original size:15 final size:15
Alignment explanation
Indices: 1845712--1845746 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1845702 TTGAGACATT
*
1845712 ACCCGCCCCGCATCC
1 ACCCGACCCGCATCC
1845727 ACCCGACCCGCATCC
1 ACCCGACCCGCATCC
*
1845742 GCCCG
1 ACCCG
1845747 CCCAGTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.63, G:0.17, T:0.06
Consensus pattern (15 bp):
ACCCGACCCGCATCC
Found at i:1862310 original size:36 final size:36
Alignment explanation
Indices: 1862263--1862335 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1862253 ATACATCATG
*
1862263 TAAGTTCATCAGCGTTCCCAGACTCATCCAAATCAC
1 TAAGTTCATCAGCATTCCCAGACTCATCCAAATCAC
1862299 TAAGTTCATCAGCATTCCCAGACTCATCCAAATCAC
1 TAAGTTCATCAGCATTCCCAGACTCATCCAAATCAC
1862335 T
1 T
1862336 TACTTAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.33, G:0.10, T:0.26
Consensus pattern (36 bp):
TAAGTTCATCAGCATTCCCAGACTCATCCAAATCAC
Found at i:1862610 original size:18 final size:18
Alignment explanation
Indices: 1862560--1862600 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1862550 GCTTAGTGGT
*
1862560 ACTTTA-GGCCATTTTAC
1 ACTTTAGGGTCATTTTAC
1862577 ACTTTAGGGTCATTTTAC
1 ACTTTAGGGTCATTTTAC
1862595 ACTTTA
1 ACTTTA
1862601 TTGGCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (18 bp):
ACTTTAGGGTCATTTTAC
Found at i:1866673 original size:27 final size:27
Alignment explanation
Indices: 1866643--1866711 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
1866633 AGATACTTTA
*
1866643 GGTCATTTTACACTTTAGGGGTATTTT
1 GGTCATTTTACACTTTAGGGGCATTTT
*
1866670 GGTCATATTACACTTTAGGGGCATTTT
1 GGTCATTTTACACTTTAGGGGCATTTT
1866697 GGTCATTTTACACTT
1 GGTCATTTTACACTT
1866712 CAAAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
GGTCATTTTACACTTTAGGGGCATTTT
Found at i:1870798 original size:18 final size:18
Alignment explanation
Indices: 1870771--1870817 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1870761 ATTCCTCGGA
*
1870771 TACA-TAGAAACTGAATT
1 TACATTAGAAACTGAACT
1870788 TACATTAGAAACTGAACT
1 TACATTAGAAACTGAACT
1870806 TA-ATTGAGAAAC
1 TACATT-AGAAAC
1870818 CAAATTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
TACATTAGAAACTGAACT
Found at i:1874363 original size:21 final size:19
Alignment explanation
Indices: 1874335--1874380 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1874325 TCATTGAATC
1874335 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1874355 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1874374 ACTTAGT
1 A-TTAGT
1874381 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1883988 original size:16 final size:14
Alignment explanation
Indices: 1883969--1884007 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
1883959 TACAGATCCT
1883969 TTTTAAAACAGTATCA
1 TTTTAAAAC-GTAT-A
1883985 TTTTAAAACGTATA
1 TTTTAAAACGTATA
*
1883999 TTTAAAAAC
1 TTTTAAAAC
1884008 CATAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (14 bp):
TTTTAAAACGTATA
Found at i:1886180 original size:19 final size:19
Alignment explanation
Indices: 1886156--1886205 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1886146 CTAAGTTAAT
1886156 AGTCAACGGGT-GAGGTCAA
1 AGTCAACGGGTCG-GGTCAA
*
1886175 AGTCAATGGGTCGGGTCAA
1 AGTCAACGGGTCGGGTCAA
*
1886194 AGTCAACAGGTC
1 AGTCAACGGGTC
1886206 TGGTTGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.34, T:0.18
Consensus pattern (19 bp):
AGTCAACGGGTCGGGTCAA
Found at i:1888495 original size:288 final size:288
Alignment explanation
Indices: 1887979--1888557 Score: 1086
Period size: 288 Copynumber: 2.0 Consensus size: 288
1887969 GTCTTCATGA
* *
1887979 TGCCCTTTTGATCTTCTTCCTTTGCTCAGTAGATGTGGACTGATTTGGGATTTGGGTAGTTATTG
1 TGCCCTTTTGATCTTCTTCATTTGCTCAGTAGATGTGGACTGACTTGGGATTTGGGTAGTTATTG
*
1888044 TAAGTTAAATACTCATAGGGAGTTTTGGTACTCTAGCAGCTGATGGATATAGAGTTGCATGTGGT
66 TAAGTTAAATACTCATAGGGAGTTTTGGTACTCTAGCAACTGATGGATATAGAGTTGCATGTGGT
1888109 GATGGATGTGCACAAGTTGAAGATGATCGATGTGATGAACCAAATGCACCAGATGAAGATGATCG
131 GATGGATGTGCACAAGTTGAAGATGATCGATGTGATGAACCAAATGCACCAGATGAAGATGATCG
*
1888174 AAACCCTAGAGGTGTACCAATTAAAGATGATCAAAACCTTGGAGGTGCTAAATTTGAAGTTGCTC
196 AAACCCTAGAGGTGTACCAATTAAAGATGATCAAAACATTGGAGGTGCTAAATTTGAAGTTGCTC
1888239 GATGTGTTGTTGTTGAATGTGCTGGTGG
261 GATGTGTTGTTGTTGAATGTGCTGGTGG
* *
1888267 TGCCCTTTTTATCTTCTTCATTTGCTCAGTAGATGTGGACTGACTTGGGATTTGGGTAGTTGTTG
1 TGCCCTTTTGATCTTCTTCATTTGCTCAGTAGATGTGGACTGACTTGGGATTTGGGTAGTTATTG
1888332 TAAGTTAAATACTCATAGGGAGTTTTGGTACTCTAGCAACTGATGGATATAGAGTTGCATGTGGT
66 TAAGTTAAATACTCATAGGGAGTTTTGGTACTCTAGCAACTGATGGATATAGAGTTGCATGTGGT
*
1888397 GATGGATGTGCACAAGTTGAAGATGATCGATGTGATGAACCAAATGCACTAGATGAAGATGATCG
131 GATGGATGTGCACAAGTTGAAGATGATCGATGTGATGAACCAAATGCACCAGATGAAGATGATCG
*
1888462 AAACCCTAGAGGTGTACCAATTAAAGATGATCAAAATATTGGAGGTGCTAAATTTGAAGTTGCTC
196 AAACCCTAGAGGTGTACCAATTAAAGATGATCAAAACATTGGAGGTGCTAAATTTGAAGTTGCTC
1888527 GATGTGTTGTTGTTGAATGTGCTGGTGG
261 GATGTGTTGTTGTTGAATGTGCTGGTGG
1888555 TGC
1 TGC
1888558 ACTTGTTTCA
Statistics
Matches: 283, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
288 283 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (288 bp):
TGCCCTTTTGATCTTCTTCATTTGCTCAGTAGATGTGGACTGACTTGGGATTTGGGTAGTTATTG
TAAGTTAAATACTCATAGGGAGTTTTGGTACTCTAGCAACTGATGGATATAGAGTTGCATGTGGT
GATGGATGTGCACAAGTTGAAGATGATCGATGTGATGAACCAAATGCACCAGATGAAGATGATCG
AAACCCTAGAGGTGTACCAATTAAAGATGATCAAAACATTGGAGGTGCTAAATTTGAAGTTGCTC
GATGTGTTGTTGTTGAATGTGCTGGTGG
Found at i:1891427 original size:4 final size:4
Alignment explanation
Indices: 1891418--1893478 Score: 3551
Period size: 4 Copynumber: 528.0 Consensus size: 4
1891408 TATGTTATAA
1891418 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891466 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891514 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T-TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891561 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891607 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891655 TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891702 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891750 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891798 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1891846 TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891893 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891941 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1891986 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892034 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892081 TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATAG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG
*
1892128 TATG TAGG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892175 TATG TATG TATG TATG -ATG TATG TATG TATG TATG T-TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892221 TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG -ATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892266 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892314 TATG TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892361 TATG TATG TATG TATG TATG -ATG TATG --TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892406 TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1892452 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAGGG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG TATG
1892500 TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG TA-- TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892544 TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892590 --TG TATG TATG TATG TATG TAT- T-TG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892634 TATG TATG TA-G TATG TATG TA-G TATG TATG TATG TATG TAT- TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892679 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATGG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG
1892728 TATG TATG T-TG TATG TATG TAT- TATG TATG TATG TAATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T-ATG TATG TATG
1892775 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG
1892824 TATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG T-TG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892868 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892914 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1892962 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893010 TATG TATG TATG TATG TATG TATG TATG TATG TATTG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG TATG TATG
1893059 TATG T-TG TATG TATG TAATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG TATG
1893107 T-TG TATG TAGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TA-TG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893155 TATTG TATG TATG TATG TTATG TA-G TATG TATG TATG TATG TATG TATG
1 TA-TG TATG TATG TATG -TATG TATG TATG TATG TATG TATG TATG TATG
*
1893204 TATG TATG TATG TCTG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893251 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893298 TATG T-TG TAT- TATG TATG --TG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1893342 TA-G TATG TATG TATG TGTG TATG T-TG TATG TTTG TATG -ATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893387 --TG TATG TAT- TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893432 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1893479 AACTTGAAAT
Statistics
Matches: 1974, Mismatches: 12, Indels: 142
0.93 0.01 0.07
Matches are distributed among these distances:
2 27 0.01
3 101 0.05
4 1807 0.92
5 39 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1893786 original size:21 final size:20
Alignment explanation
Indices: 1893757--1893796 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1893747 GAATATCCCC
1893757 TAATAAATAATTCAAAAAAAA
1 TAATAAAT-ATTCAAAAAAAA
*
1893778 TAATCAATATTCAATAAAA
1 TAATAAATATTCAA-AAAA
1893797 TGGATCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
TAATAAATATTCAAAAAAAA
Found at i:1895338 original size:36 final size:36
Alignment explanation
Indices: 1895298--1895370 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
1895288 AAAACGTACA
*
1895298 CTTAAATAAAATAAATTGCATTAAAATATATAAAAT
1 CTTAAATAAAATAAATTACATTAAAATATATAAAAT
** * *
1895334 CTTAAATAAAATGCATTACTTTAAAATATATATAAT
1 CTTAAATAAAATAAATTACATTAAAATATATAAAAT
1895370 C
1 C
1895371 GTGTATCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (36 bp):
CTTAAATAAAATAAATTACATTAAAATATATAAAAT
Found at i:1901691 original size:10 final size:10
Alignment explanation
Indices: 1901676--1901700 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1901666 TGATTATATG
1901676 TATGTTCATT
1 TATGTTCATT
1901686 TATGTTCATT
1 TATGTTCATT
1901696 TATGT
1 TATGT
1901701 CCGTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.60
Consensus pattern (10 bp):
TATGTTCATT
Found at i:1902005 original size:23 final size:23
Alignment explanation
Indices: 1901979--1902093 Score: 113
Period size: 24 Copynumber: 4.9 Consensus size: 23
1901969 GTGTTTGTGT
* *
1901979 TGTTCATTTATATTTGTTTATTG
1 TGTTCGTTTATGTTTGTTTATTG
** *
1902002 TGTTCGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTTGTTTATTG
**
1902025 TGTTCGTTTATGTTTGTTCGCTTG
1 TGTTCGTTTATGTTTGTT-TATTG
**
1902049 TGTTCGTTTATGTTTGTTCGCTTG
1 TGTTCGTTTATGTTTGTT-TATTG
* *
1902073 TGTTCGTTTACGTTCGTTTAT
1 TGTTCGTTTATGTTTGTTTAT
1902094 GTTTGTTTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
23 35 0.45
24 42 0.55
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATGTTTGTTTATTG
Found at i:1902057 original size:24 final size:24
Alignment explanation
Indices: 1901999--1902082 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
1901989 TATTTGTTTA
** **
1901999 TTGTGTTCGTTTATGTTCATT-TA
1 TTGTGTTCGTTTATGTTTGTTCGC
*
1902022 TTATGTTCGTTTATGTTTGTTCGC
1 TTGTGTTCGTTTATGTTTGTTCGC
1902046 TTGTGTTCGTTTATGTTTGTTCGC
1 TTGTGTTCGTTTATGTTTGTTCGC
1902070 TTGTGTTCGTTTA
1 TTGTGTTCGTTTA
1902083 CGTTCGTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
23 18 0.33
24 36 0.67
ACGTcount: A:0.08, C:0.11, G:0.21, T:0.60
Consensus pattern (24 bp):
TTGTGTTCGTTTATGTTTGTTCGC
Found at i:1902122 original size:10 final size:10
Alignment explanation
Indices: 1902109--1902135 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1902099 TTTATCATTT
1902109 CATGAACGAA
1 CATGAACGAA
1902119 CATGAACGAA
1 CATGAACGAA
1902129 CATGAAC
1 CATGAAC
1902136 AAGCTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (10 bp):
CATGAACGAA
Found at i:1902199 original size:16 final size:16
Alignment explanation
Indices: 1902178--1902210 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1902168 AAAAACAATT
1902178 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1902194 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1902210 T
1 T
1902211 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1902852 original size:20 final size:19
Alignment explanation
Indices: 1902829--1902874 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
1902819 CGATATAACA
1902829 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1902849 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1902869 GGTAAA
1 GGTAAA
1902875 GCGCTACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1904722 original size:19 final size:22
Alignment explanation
Indices: 1904674--1904728 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
1904664 TTTTTTGTGT
1904674 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
1904697 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
1904717 TTTTATTATAAA
1 TTTTA-TATAAA
1904729 TGCAGGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:1905136 original size:21 final size:21
Alignment explanation
Indices: 1905107--1905169 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1905097 GAAAATCAAA
* *
1905107 AGTCAAAGAGAAACTTGAGAG
1 AGTCGAAGACAAACTTGAGAG
1905128 AGTCGAAGACAAACTTGAGAG
1 AGTCGAAGACAAACTTGAGAG
* *
1905149 AGTCGAAGATACACTTGAGAG
1 AGTCGAAGACAAACTTGAGAG
1905170 GCATAAGGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.29, T:0.16
Consensus pattern (21 bp):
AGTCGAAGACAAACTTGAGAG
Found at i:1905240 original size:33 final size:33
Alignment explanation
Indices: 1905203--1905268 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1905193 AAATAGATGG
*
1905203 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1905236 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1905269 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1907040 original size:29 final size:29
Alignment explanation
Indices: 1906986--1907041 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1906976 ATCAACTAAG
* * *
1906986 ACAAGAGATAACAAAAGCTGTCATGATAC
1 ACAAGAGACAACAAAAGATGTAATGATAC
1907015 ACAAGA-ACAACAAAAGGATGTAATGAT
1 ACAAGAGACAACAAAA-GATGTAATGAT
1907042 GTAAATGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (29 bp):
ACAAGAGACAACAAAAGATGTAATGATAC
Found at i:1907082 original size:19 final size:19
Alignment explanation
Indices: 1907055--1907103 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1907045 AATGTAGGGT
*
1907055 TAATGTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1907074 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1907093 TAATTTTGTAT
1 TAATTTTGTAT
1907104 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1907687 original size:198 final size:199
Alignment explanation
Indices: 1907326--1907883 Score: 920
Period size: 199 Copynumber: 2.8 Consensus size: 199
1907316 GTAAGCATAT
* * * *
1907326 GTGTCGATCCATATATAAAAAGTATCGATCGCAAAAACATCCAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* * *
1907391 GGTAATTTTTCAATGTAACCGGTATAAATTTACCAGTTTTAAGAGAGAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACTGGTATAAATATACC-GTTTTAAGAGAGAATAGGTCTACAACATGT
*
1907456 ATCGACACTTTTTAATTTTGTGTTGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
130 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
1907521 ATAAA
195 ATAAA
* ** *
1907526 GTGTTGATTTATTTATAAAAA-TATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* * *
1907590 GGTAAATTTTCAATGTCACTGGTATCAATATACCGTTTTACGAGAGAATAGGTCTACAACATGTA
66 GGTAAATTTTCAATGTAACTGGTATAAATATACCGTTTTAAGAGAGAATAGGTCTACAACATGTA
*
1907655 TCGACACTTATTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCA
131 TCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCA
1907720 TAAA
196 TAAA
*
1907724 GTGTCGATCCATTTATAAAAATTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* *
1907789 GGTAAATTTTCAATGTAACTTGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACTGGTATAAATATACCG-TTTTAAGAGAGAATAGGTCTACAACATGT
1907854 ATCGACACTTTTTAATTTTGTGTCGATACT
130 ATCGACACTTTTTAATTTTGTGTCGATACT
1907884 AATTTAAATA
Statistics
Matches: 332, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
198 115 0.35
199 143 0.43
200 74 0.22
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
GGTAAATTTTCAATGTAACTGGTATAAATATACCGTTTTAAGAGAGAATAGGTCTACAACATGTA
TCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCA
TAAA
Found at i:1911648 original size:64 final size:62
Alignment explanation
Indices: 1911425--1911648 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 62
1911415 TGTTTGAATG
* ** *
1911425 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTC
1 TGCACCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AA-ACATCGAATGC-ATTT
1911488 A
62 A
* * * *
1911489 TGCATCGATGCATATGTAGTGCATCCATGCATCCCATTAATAATGAAACATCGAATGCAATTA
1 TGCACCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAT-AAACATCGAATGCATTTA
* * * * * *
1911552 GTGTATCAATGCATAAGGCA-TGCATCGATGCATCCCAGTGATAATACAACATCGAATGCATTTT
1 -TGCACCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATA-AACATCGAATGCA-TTT
1911616 A
62 A
1911617 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCACCGATGCAT-AGGTAGTGCATCGATGCAT
1911649 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 22, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
63 6 0.05
64 113 0.86
65 12 0.09
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (62 bp):
TGCACCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAACATCGAATGCATTTA
Found at i:1912520 original size:32 final size:31
Alignment explanation
Indices: 1912462--1912595 Score: 130
Period size: 32 Copynumber: 4.3 Consensus size: 31
1912452 AGTCGAGGGT
* *
1912462 ATACCTATGT-TGTACGAAACATATGGACAGA
1 ATACCTATGTCT-TTCGAGACATATGGACAGA
* *
1912493 ATTACCTATGTCTTTCGAGACAAATGGACAGT
1 A-TACCTATGTCTTTCGAGACATATGGACAGA
* *
1912525 ATACCTATGT-TCTACG-GAACATATGGAAAGA
1 ATACCTATGTCT-TTCGAG-ACATATGGACAGA
* *
1912556 ATTACCTATGTCTTTCGAGACATATAGACAGT
1 A-TACCTATGTCTTTCGAGACATATGGACAGA
1912588 ATACCTAT
1 ATACCTAT
1912596 ATTCTAAGGA
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.02
31 31 0.37
32 48 0.57
33 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
ATACCTATGTCTTTCGAGACATATGGACAGA
Found at i:1912533 original size:31 final size:31
Alignment explanation
Indices: 1912460--1912630 Score: 143
Period size: 31 Copynumber: 5.5 Consensus size: 31
1912450 AGAGTCGAGG
* *
1912460 GTATACCTATGTTGTACGAAACATATGGACA
1 GTATACCTATGTTCTACGAGACATATGGACA
* * *
1912491 GAATTACCTATG-TCTTTCGAGACAAATGGACA
1 GTA-TACCTATGTTC-TACGAGACATATGGACA
*
1912523 GTATACCTATGTTCTACG-GAACATATGGAAA
1 GTATACCTATGTTCTACGAG-ACATATGGACA
* * *
1912554 GAATTACCTATG-TCTTTCGAGACATATAGACA
1 GTA-TACCTATGTTC-TACGAGACATATGGACA
* *
1912586 GTATACCTATATTCTAAG-GAACATATGGACA
1 GTATACCTATGTTCTACGAG-ACATATGGACA
* *
1912617 GTTTACCTAGGTTC
1 GTATACCTATGTTC
1912631 ATCGGAACCT
Statistics
Matches: 110, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
30 2 0.02
31 57 0.52
32 50 0.45
33 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
GTATACCTATGTTCTACGAGACATATGGACA
Found at i:1912559 original size:63 final size:63
Alignment explanation
Indices: 1912460--1912614 Score: 247
Period size: 63 Copynumber: 2.5 Consensus size: 63
1912450 AGAGTCGAGG
* * * *
1912460 GTATACCTATGTTGTACGAAACATATGGACAGAATTACCTATGTCTTTCGAGACAAATGGACA
1 GTATACCTATGTTCTACGGAACATATGGAAAGAATTACCTATGTCTTTCGAGACAAATAGACA
*
1912523 GTATACCTATGTTCTACGGAACATATGGAAAGAATTACCTATGTCTTTCGAGACATATAGACA
1 GTATACCTATGTTCTACGGAACATATGGAAAGAATTACCTATGTCTTTCGAGACAAATAGACA
* *
1912586 GTATACCTATATTCTAAGGAACATATGGA
1 GTATACCTATGTTCTACGGAACATATGGA
1912615 CAGTTTACCT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGAAAGAATTACCTATGTCTTTCGAGACAAATAGACA
Found at i:1912638 original size:31 final size:31
Alignment explanation
Indices: 1912463--1912650 Score: 134
Period size: 31 Copynumber: 6.0 Consensus size: 31
1912453 GTCGAGGGTA
* * *
1912463 TACCTATGTTGTACGAAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* * *
1912495 TACCTATG-TCTTTC-GAGACAAATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
* *
1912526 TACCTATGTTCTACGGAACATATGGAAAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* * *
1912558 TACCTATG-TCTTTC-GAGACATATAGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
* *
1912589 TACCTATATTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * *
1912620 TACCTAGGTTC-ATCGGAACCTATAGACAGTT
1 TACCTATGTTCTA-CGGAACATATGGACAGTT
1912651 ACCGAGGATC
Statistics
Matches: 120, Mismatches: 26, Indels: 21
0.72 0.16 0.13
Matches are distributed among these distances:
30 1 0.01
31 70 0.58
32 49 0.41
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:1916353 original size:64 final size:64
Alignment explanation
Indices: 1916279--1916503 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 64
1916269 TTGTTTGAAT
* ** * * *
1916279 GTGCACCGATGCATTGGTAGTACATCGATGCA-CTCTTTTAAAATAAATACATCGAATGCAATTC
1 GTGCATCGATGCATAAGTAGTACATCGATGCATCCCATTAAAAATAAA-ACATCGAATGCAATT-
1916343 A
64 A
* ** *
1916344 -TGCGTCGATGCATAAGTAGTGTATCGATGCATCCCATTAAAAATGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAAGTAGTACATCGATGCATCCCATTAAAAATAAAACATCGAATGCAATTA
* * * * * * *
1916407 GTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTGATAATACAACATCGAATGCATTTT
1 GTGCATCGATGCATAA-GTAGTACATCGATGCATCCCATTAAAAATAAAACATCGAATGCA-ATT
1916471 A
64 A
* * *
1916472 -TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTACATCGATGCAT
1916504 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
63 3 0.02
64 114 0.86
65 16 0.12
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTACATCGATGCATCCCATTAAAAATAAAACATCGAATGCAATTA
Found at i:1917388 original size:31 final size:32
Alignment explanation
Indices: 1917335--1917452 Score: 136
Period size: 32 Copynumber: 3.8 Consensus size: 32
1917325 GTTCTACGGA
1917335 ACATATGGACAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGAATTACCTATGTCTTTCGAG
** *
1917367 ACATATGGACATTA-TACCTATGT-TCTACG-G
1 ACATATGGACAGAATTACCTATGTCT-TTCGAG
*
1917397 AACATATGGAAAGAATTACCTATGTCTTTCGAG
1 -ACATATGGACAGAATTACCTATGTCTTTCGAG
* *
1917430 ACATATAGACAGTA-TACCTATGT
1 ACATATGGACAGAATTACCTATGT
1917453 TCTAAGGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
30 2 0.03
31 32 0.45
32 35 0.49
33 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
ACATATGGACAGAATTACCTATGTCTTTCGAG
Found at i:1917394 original size:63 final size:63
Alignment explanation
Indices: 1917315--1917480 Score: 280
Period size: 63 Copynumber: 2.7 Consensus size: 63
1917305 AGAGTCGAGG
*
1917315 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
* *
1917378 TTATACCTATGTTCTACGGAACATATGGAAAGAATTACCTATGTCTTTCGAGACATATAGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
* *
1917441 GTATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
1917481 GGTTTATCGG
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 7 0.07
63 89 0.93
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
Found at i:1917465 original size:31 final size:31
Alignment explanation
Indices: 1917315--1917508 Score: 175
Period size: 31 Copynumber: 6.2 Consensus size: 31
1917305 AGAGTCGAGG
1917315 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
1917346 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
* *
1917378 TTATACCTATGTTCTACGGAACATATGGAAA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * *
1917409 GAATTACCTATG-TCTTTC-GAGACATATAGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
*
1917441 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
1917472 GTTTACCTAGGTT-TATCGGAACCTATAGACA
1 GTATACCTATGTTCTA-CGGAACATATGGACA
1917503 GT-TACC
1 GTATACC
1917509 GAGGATCTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
30 6 0.05
31 75 0.57
32 51 0.39
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:1918637 original size:250 final size:249
Alignment explanation
Indices: 1918198--1918671 Score: 711
Period size: 250 Copynumber: 1.9 Consensus size: 249
1918188 TAAAGTTTCC
* * *
1918198 CATAAAGTGTCGATCCATATATTAAAAGTAACGACCCCAAAAGCATCAAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATATATTAAAAGTAACGACCCCAAAAACATCAAAACCCATAATTATAAT
* ** *
1918263 GTAATGGATAATTTTTCAATGTAGTCGGTATAAATATACCGGTTTTATGAAAAATAGGTCTACAA
66 GTAATGGATAATTTTTCAATATAACCGATATAAATATACCGGTTTTATGAAAAATAGGTCTACAA
* *
1918328 CATGTATCGACACTTATCAGTATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTG
131 CATGTATCGACACTTATCAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAGGGTG
1918393 AACAGACAAAG-GTCGATACATTTTCAAAGAGTTCGATCTAAAAGGGTTGCACG
196 AACAGACAAAGTGTCGATACATTTTCAAAGAGTTCGATCTAAAAGGGTTGCACG
* * * * *
1918446 CATAAAGTTTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCCATAATTATAA
1 CATAAAGTGTCGATACATATATTAAAAGTAACGACCCCAAAAACATC-AAAACCCATAATTATAA
* *
1918511 TGTAATAGG-TAATTTTGT-AATATAACCGATATACATATACCGGTTTTATGAGAGAATAGGTCT
65 TGTAAT-GGATAATTTT-TCAATATAACCGATATAAATATACCGGTTTTATGA-AAAATAGGTCT
* * *
1918574 ATAACATGTATCGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAG
127 ACAACATGTATCGACACTTATCAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAG
*
1918639 GGTGAACAGATAAAGTGTCGATACATTTTCAAA
192 GGTGAACAGACAAAGTGTCGATACATTTTCAAA
1918672 AAATGTCGAT
Statistics
Matches: 201, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
248 41 0.20
249 56 0.28
250 87 0.43
251 17 0.08
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (249 bp):
CATAAAGTGTCGATACATATATTAAAAGTAACGACCCCAAAAACATCAAAACCCATAATTATAAT
GTAATGGATAATTTTTCAATATAACCGATATAAATATACCGGTTTTATGAAAAATAGGTCTACAA
CATGTATCGACACTTATCAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAGGGTG
AACAGACAAAGTGTCGATACATTTTCAAAGAGTTCGATCTAAAAGGGTTGCACG
Found at i:1918842 original size:177 final size:177
Alignment explanation
Indices: 1918545--1918900 Score: 572
Period size: 177 Copynumber: 2.0 Consensus size: 177
1918535 ACCGATATAC
* *
1918545 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACTTCTTAATATTGTGTCGAT
1 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACTTATAAATATTGTGTCGAT
* * *
1918610 AATTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACAGATAAAGTGTCGATACATTTTCAAAAAA
66 AATTTATGTCCAGAATGGATGCCAAAAAGGGTGAACAGACAAAGTGTCAATACATTTTCAAAAAA
* * * *
1918675 TGTCGATCTCGAAAACATTGAAACCCATAATTATAATGTAATAGGTA
131 TGTAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
1918722 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAAAT-TTGTGTCGA
1 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACT-TATAAATATTGTGTCGA
* *
1918786 TACTTTATGTCCATAATGGATGCCAAAAAGGGTGAAC-GCACAAAGTGTCAATACATTTTCAAAA
65 TAATTTATGTCCAGAATGGATGCCAAAAAGGGTGAACAG-ACAAAGTGTCAATACATTTTCAAAA
*
1918850 AGTGTAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
129 AATGTAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
1918899 AT
1 AT
1918901 TTTTTAATAT
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
176 1 0.01
177 159 0.96
178 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (177 bp):
ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACTTATAAATATTGTGTCGAT
AATTTATGTCCAGAATGGATGCCAAAAAGGGTGAACAGACAAAGTGTCAATACATTTTCAAAAAA
TGTAGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
Found at i:1921763 original size:200 final size:199
Alignment explanation
Indices: 1921365--1922063 Score: 606
Period size: 200 Copynumber: 3.5 Consensus size: 199
1921355 TAAATATGTG
* * *
1921365 TCGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAATAG
1 TCGATACATTTAT-TAAAAGTATCGATCCC-AAAAATATCGAAACCAATAATTATAATGTAATAG
* * * * *
1921428 GTATATTAACAATGTAACCGGTATAAATATACTGG-TTAATTAGAAAATAGGTCAACATAATGTA
64 GTAAATTTACAATGTAACTGGTATAAATATA-TGGTTTTATGAGAAAATAGGTC-ACATAATGTA
** * * * * *
1921492 TCGATTCTTGTGGAATTTATGTCGATACTTATTGTCCAGGATGAATGCACAAACGAGGTGCACAT
127 TCGACACTTGTGAAATTTATGTCGATACTTATTGTCCAGAATGAATCCACAAAAGAGGTGCACAC
1921557 ATAAAGTAT
192 ATAAAGT-T
* *
1921566 T-GATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTATTAGGT
1 TCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCAATAATTATAATGTAATAGGT
* * *
1921630 AAATTTACAATGTAACTGATATAAATATATAGGTTTTATGATAAAATAGGTCAGCATAAAGTATC
66 AAATTTACAATGTAACTGGTATAAATATAT-GGTTTTATGAGAAAATAGGTCA-CATAATGTATC
*
1921695 GACACTTGCT-AAATTTTTGTCGATACTT-TTGGTCCAGAATGAATTCCA-AAAAG-GGTGCA-A
129 GACACTTG-TGAAATTTATGTCGATACTTATT-GTCCAGAATGAA-TCCACAAAAGAGGTGCACA
1921755 CCATAAAGTT
191 -CATAAAGTT
* * * *
1921765 TCAATACATTTA-TAAAATGTATCGATCCC-GAAATCATCGAAACCCATAAGTATAATGTAATAG
1 TCGATACATTTATTAAAA-GTATCGATCCCAAAAAT-ATCGAAACCAATAATTATAATGTAATAG
* * * *
1921828 GTAAATTTTCAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTA
64 GTAAATTTACAATGTAACTGGTATAAATATA-TGGTTTTATGAGAAAATAGGTC-ACATAATGTA
*** * * * **
1921893 TCGACACTT-TGTTTGTTTGTGTCAATACTT-TTTTCCATAATGAAATATGAATGCC-C-AACCA
127 TCGACACTTGTG-AAATTTATGTCGATACTTATTGTCC---A-G--A-ATGAAT-CCACAAAAGA
*
1921954 GGTGCA-AGCATAAAGTG
183 GGTGCACA-CATAAAGTT
* * ** * * *
1921971 TCGATACATTTA--AAATTGCATCGATCTAAAAAACATCGAAACCGATAATAATAATGTAATAGG
1 TCGATACATTTATTAAA-AGTATCGATCCCAAAAATATCGAAACCAATAATTATAATGTAATAGG
* * *
1922034 TAAATTTGCAATGTTACCGGTATAAATATA
65 TAAATTTACAATGTAACTGGTATAAATATA
1922064 CCGGTTTACT
Statistics
Matches: 414, Mismatches: 56, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
198 1 0.00
199 16 0.04
200 219 0.53
201 68 0.16
202 5 0.01
203 1 0.00
205 68 0.16
206 36 0.09
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
TCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCAATAATTATAATGTAATAGGT
AAATTTACAATGTAACTGGTATAAATATATGGTTTTATGAGAAAATAGGTCACATAATGTATCGA
CACTTGTGAAATTTATGTCGATACTTATTGTCCAGAATGAATCCACAAAAGAGGTGCACACATAA
AGTT
Found at i:1922181 original size:64 final size:64
Alignment explanation
Indices: 1922108--1922229 Score: 226
Period size: 64 Copynumber: 1.9 Consensus size: 64
1922098 TACCTATTAC
*
1922108 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGATTATTTT
1 ATTATATAAGAGCTACCTAATAAGTTATTGTACTTGATAATATTTCCGGTTAAATGATTATTTT
*
1922172 ATTATATAAGCGCTACCTAATAAGTTATTGTACTTGATAATATTTCCGGTTAAATGAT
1 ATTATATAAGAGCTACCTAATAAGTTATTGTACTTGATAATATTTCCGGTTAAATGAT
1922230 ATAACATTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (64 bp):
ATTATATAAGAGCTACCTAATAAGTTATTGTACTTGATAATATTTCCGGTTAAATGATTATTTT
Found at i:1923201 original size:42 final size:42
Alignment explanation
Indices: 1923131--1923219 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
1923121 TATTTTGAAA
* * * *
1923131 ATGATTTTGGAATTTGGGTTTTAACATGTAATTGAAGTGTTT
1 ATGAATTTGGAATTTGGGGTTTAACATGTAATTAAAATGTTT
* *
1923173 ATGAATTTGGAATTTGGGGTTTAGCATGTAATTAAAATTTTT
1 ATGAATTTGGAATTTGGGGTTTAACATGTAATTAAAATGTTT
1923215 ATGAA
1 ATGAA
1923220 CATGAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.45
Consensus pattern (42 bp):
ATGAATTTGGAATTTGGGGTTTAACATGTAATTAAAATGTTT
Found at i:1925308 original size:33 final size:33
Alignment explanation
Indices: 1925253--1925315 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1925243 CTGTTACATT
* * *
1925253 AGAGTACAAACAATATCCAATAATTATCAATTA
1 AGAGAACAAACAATATCAAATAAATATCAATTA
1925286 AGAGAACAAACAA-ATACAAATAAATATCAA
1 AGAGAACAAACAATAT-CAAATAAATATCAA
1925316 AATTAGCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.08
33 24 0.92
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (33 bp):
AGAGAACAAACAATATCAAATAAATATCAATTA
Found at i:1929091 original size:19 final size:18
Alignment explanation
Indices: 1929067--1929120 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
1929057 GGGGCCTGTA
*
1929067 AAATAATAAAAGTATTAAT
1 AAATAATAAAA-TAATAAT
1929086 AAATAATAATAATAATAAT
1 AAATAATAA-AATAATAAT
1929105 AAATAA-ATAAATAATA
1 AAATAATA-AAATAATA
1929121 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 22 0.69
20 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATAATAAAATAATAAT
Found at i:1952365 original size:20 final size:20
Alignment explanation
Indices: 1952336--1952406 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
1952326 CAAAATTTAG
*
1952336 AAGTCCTTCGGGCCATCAGT
1 AAGTCTTTCGGGCCATCAGT
* *
1952356 AAGTCTTTCGAG-CATGATGAT
1 AAGTCTTTCGGGCCATCA-G-T
* *
1952377 AAGTCCTTT-GGTCCATCTGT
1 AAGT-CTTTCGGGCCATCAGT
1952397 AAGTCTTTCG
1 AAGTCTTTCG
1952407 AGCAAGATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 8 0.21
20 17 0.44
21 7 0.18
22 7 0.18
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (20 bp):
AAGTCTTTCGGGCCATCAGT
Found at i:1952380 original size:21 final size:21
Alignment explanation
Indices: 1952355--1952427 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
1952345 GGGCCATCAG
1952355 TAAGTCTTTCGAGCATGATGA
1 TAAGTCTTTCGAGCATGATGA
* ** *
1952376 TAAGTCCTTTGGTCCAT-CTG-
1 TAAGT-CTTTCGAGCATGATGA
*
1952396 TAAGTCTTTCGAGCAAGATGA
1 TAAGTCTTTCGAGCATGATGA
1952417 TAAGTCTTTCG
1 TAAGTCTTTCG
1952428 GTCCATCTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 18 0.45
22 8 0.20
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (21 bp):
TAAGTCTTTCGAGCATGATGA
Found at i:1952382 original size:41 final size:41
Alignment explanation
Indices: 1952336--1952434 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
1952326 CAAAATTTAG
* *
1952336 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
1 AAGTCCTTCGGTCCATCAGTAAGTCTTTCGAGCAAGATGAT
* *
1952377 AAGTCCTTTGGTCCATCTGTAAGTCTTTCGAGCAAGATGAT
1 AAGTCCTTCGGTCCATCAGTAAGTCTTTCGAGCAAGATGAT
*
1952418 AAGTCTTTCGGTCCATC
1 AAGTCCTTCGGTCCATC
1952435 TATAAGACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
AAGTCCTTCGGTCCATCAGTAAGTCTTTCGAGCAAGATGAT
Found at i:1952809 original size:6 final size:6
Alignment explanation
Indices: 1952787--1952847 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
1952777 TTCAGGTTAT
*
1952787 TATTAA TATT-- TAATAA TATTAA TATTAA TATT-A T-TT-A TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
*
1952830 TA-TAA TA-TAA TAATAA TA
1 TATTAA TATTAA TATTAA TA
1952848 AATAATAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 7 0.15
5 14 0.29
6 27 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TATTAA
Found at i:1952832 original size:15 final size:15
Alignment explanation
Indices: 1952784--1952847 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
1952774 TTGTTCAGGT
1952784 TATTATTAATATTTAA
1 TATTATTAATA-TTAA
*
1952800 TAATATTAATATTAA
1 TATTATTAATATTAA
*
1952815 TATTATTTATATTAA
1 TATTATTAATATTAA
* *
1952830 TATAATATAATAATAA
1 TATTAT-TAATATTAA
1952846 TA
1 TA
1952848 AATAATAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 22 0.54
16 19 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATATTAA
Found at i:1952858 original size:10 final size:10
Alignment explanation
Indices: 1952831--1952860 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
1952821 TTATATTAAT
1952831 ATAATATAATA
1 ATAATA-AATA
1952842 ATAATAAATA
1 ATAATAAATA
1952852 ATAATAAAT
1 ATAATAAAT
1952861 TTTATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
ATAATAAATA
Found at i:1952858 original size:13 final size:14
Alignment explanation
Indices: 1952822--1952858 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1952812 TAATATTATT
*
1952822 TATATTAAT-ATAA
1 TATAATAATAATAA
1952835 TATAATAATAATAA
1 TATAATAATAATAA
1952849 -ATAATAATAA
1 TATAATAATAA
1952859 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:1956796 original size:223 final size:223
Alignment explanation
Indices: 1956403--1957967 Score: 1653
Period size: 223 Copynumber: 7.0 Consensus size: 223
1956393 GGTTAAGCTT
* * * * * *
1956403 AATTATATAAAGAAAATTTTCAATGGCCTATTAACCCTGTTGGTGAAAA-TGCCAAACTGATAAA
1 AATTATATAAAGAAAATTTTCAATGGCATATTAGCACAGTTGGT-AAAAGTGTCAAACTGA-CAA
* * * * * * * *
1956467 TATTGGTTGGAGCTTAAAGTTCAAATTAGCTGGAATAGCTCAGTTGGTTAGAGCGTTTGGATGTT
64 TACTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTT
* * * *
1956532 AACAACAAGGTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTCAGATTGTTCATTTCCC
129 AACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCC
* *
1956597 ATTTACTTTCAAAATAATATCAATTTATAC
194 ATTTACTTTCAAAATATTACCAATTTATAC
*
1956627 AATTATATAAAGAAAATTTTCAATGGCATATTAGCACATTTGGTAAAAGTGTCAAACTGACAATA
1 AATTATATAAAGAAAATTTTCAATGGCATATTAGCACAGTTGGTAAAAGTGTCAAACTGACAATA
* * * ** *
1956692 CTGGTTGGAGCTTGAAGATCCAACCAGCTGGAATAGCTCAGTTGGTTAGTTCGTGTGGTTGTTAA
66 CTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAA
* * * * * * * *
1956757 CCATAAGGTCGGAGGTTAAAGCCCTCCTTCTAACGTTGTTTTAGCTCATATTATCAATTTCACAT
131 CCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCCAT
* * *
1956822 TTAATTTCAAAATATTATCAATTTATTC
196 TTACTTTCAAAATATTACCAATTTATAC
* * * * *
1956850 AGTTATATAAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAAGTGTCAAACTTACAAAA
1 AATTATATAAAGAAAATTTTCAATGGCATATTAGCACAGTTGGTAAAAGTGTCAAACTGACAATA
* * * * * *
1956915 CTGGTTGGAGCTTGATGGTCCAACTAGCTGGAATAACTTAGTTAGTTAGAGTGTGTGGCTGTTAA
66 CTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAA
* *** * * * * ** *
1956980 ACATTTGGTCAGAGGTTCAAGCCCACCTTATTGCGTTGTTTTAACTTGGATTGTCCATTTCACAT
131 CCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCCAT
*
1957045 TTGCTTTCAAAATATTACCAATTTATAC
196 TTACTTTCAAAATATTACCAATTTATAC
* * * *
1957073 AATTATAT-AA-AAAA--TTCAATGGCCA-AGTAGAACAGTTGATAAAAGTGTAAAAGCTGACAA
1 AATTATATAAAGAAAATTTTCAATGG-CATATTAGCACAGTTGGTAAAAGTGTCAAA-CTGACAA
* * * * * *
1957133 TATTGGCTGGAGCTTAAAGGTTCAACTAGATGGAATAGCTTAGTTGGTTAGAGCGTGTGGCTATT
64 TACTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTT
* * * * * *
1957198 AACCACAATGTTGGAGGTTCAAGCCCTCCTTATAGCATTGTTTGAACTCAAATTGTCCATTT-CC
129 AACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCC
1957262 ATTTACTTTCAAAATATTACCAATTTATAC
194 ATTTACTTTCAAAATATTACCAATTTATAC
* * * * * *
1957292 AATAATATAAAGAAAATTTTCAAT-GTACTATTAGCTCAGTTGGTAAAAATATTAAACTGACAAT
1 AATTATATAAAGAAAATTTTCAATGGCA-TATTAGCACAGTTGGTAAAAGTGTCAAACTGACAAT
* * * * *
1957356 ACTGGTCGGAGCTTGAAGGTCCAATTAGTTGGAATAGCTCAATTGGTTAGAGTGTGTGGCTTTTA
65 ACTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGC---T-
* *** *
1957421 ACCACAAGGTTAGAACCACAAGATCGGAGGTTCAAAGTTATTCTTCTAGCGTTGTTTTAACTCTA
126 --------GTT--AACCACAAGGTCGGAGGTTC-AAGCCCTCCTTCTAGCGTTGTTTTAACTC-A
* * *
1957486 -ACTGTCCAGTTT-CCATTTACTTTC-AAATAATATCAATTTATA-
179 GATTGTCCA-TTTCCCATTTACTTTCAAAATATTACCAATTTATAC
** *
1957528 AATTTATATAAAGAAAA-TTTCAATGGCATATTAGTGCATTTGGTAAAAGTGTCAAACTGACAAT
1 AA-TTATATAAAGAAAATTTTCAATGGCATATTAGCACAGTTGGTAAAAGTGTCAAACTGACAAT
* *
1957592 ACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGCTA
65 ACTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTA
* * * * *
1957657 GCCACAAGGTCGAAGGTTCAAGCCCTCCTTCTAGTGTTGTTTTAAAT-TGAATTGTCCATTTCCC
130 ACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAG-ATTGTCCATTTCCC
1957721 ATTT-CATTTCAAAATATTACCAATTTATAC
194 ATTTAC-TTTCAAAATATTACCAATTTATAC
* * *
1957751 AGTTATATAAA-AAAA-ATTCAATGGTCA-ATTAGCACAG-TGGTAAAACTGTCAAACTGACAAT
1 AATTATATAAAGAAAATTTTCAATGG-CATATTAGCACAGTTGGTAAAAGTGTCAAACTGACAAT
* * * * * *
1957812 ACTGGTTGGAGCTTAAATGTTCAACTAGATGGAATAGCTCAGTTAGTTAGAGCGTGTAGCT-ATA
65 ACTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTA
* * * * *
1957876 ACCACAAGGTCGGAGGTTCAA-CCCTCCTTCCA-TGTTGTTTTAGCTCGGATTGTCCATTTCGCA
130 ACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCCA
*
1957939 TTTAATTTCAAAATATTACCAATTTATAC
195 TTTACTTTCAAAATATTACCAATTTATAC
1957968 TGACAAAACT
Statistics
Matches: 1124, Mismatches: 180, Indels: 81
0.81 0.13 0.06
Matches are distributed among these distances:
217 52 0.05
218 11 0.01
219 88 0.08
220 193 0.17
221 67 0.06
222 105 0.09
223 365 0.32
224 51 0.05
225 1 0.00
233 1 0.00
234 2 0.00
236 112 0.10
237 60 0.05
238 16 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (223 bp):
AATTATATAAAGAAAATTTTCAATGGCATATTAGCACAGTTGGTAAAAGTGTCAAACTGACAATA
CTGGTTGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAA
CCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTCAGATTGTCCATTTCCCAT
TTACTTTCAAAATATTACCAATTTATAC
Found at i:1957611 original size:236 final size:237
Alignment explanation
Indices: 1957230--1957885 Score: 651
Period size: 236 Copynumber: 2.8 Consensus size: 237
1957220 GCCCTCCTTA
* *
1957230 TAGCATTGTTTGAACTCAAATTGTCCATTTCCATTTACTTTCAAAATATTACCAATTTATACAAT
1 TAGCATTGTTTGAACTCAAACTGTCCATTTCCATTTACTTTCAAAATAATACCAATTTATACAAT
* *
1957295 AATATAAAGAAAATTTTCAATGTACTATTAGCTCAGTTGGTAAAAATATTAAACTGACAATACTG
66 AATATAAAGAAAATTTTCAATGCACTATTAGCTCAGTTGGTAAAAATATCAAACTGACAATACTG
* * * **
1957360 GTCGGAGCTTGAAGGTCCAATTAGTTGGAATAGCTCAATTGGTTAGAGTGTGTGGCTTTTAACCA
131 GTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAATTGGTTAGAGCGTGTGGCTGCTAACCA
1957425 CAAGGTTAGAACCACAAGATCGGAGGTTCAAAGTTATTCTTC
196 CAAGGTTAGAACCACAAGATCGGAGGTTCAAAGTTATTCTTC
* * * *
1957467 TAGCGTTGTTTTAACTCTAACTGTCCAGTTTCCATTTACTTTC-AAATAATATCAATTTATA-AA
1 TAGCATTGTTTGAACTCAAACTGTCCA-TTTCCATTTACTTTCAAAATAATACCAATTTATACAA
* * * *
1957530 TTTATATAAAGAAAA-TTTCAATGGCA-TATTAG-TGCATTTGGTAAAAGTGTCAAACTGACAAT
65 -TAATATAAAGAAAATTTTCAAT-GCACTATTAGCT-CAGTTGGTAAAAATATCAAACTGACAAT
*
1957592 ACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGCTA
127 ACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAATTGGTTAGAGCGTGTGGCTGCTA
* *** *
1957657 GCCACAAGG-T-------C--GA----AGGTTC-AAGCCCTCCTTC
192 ACCACAAGGTTAGAACCACAAGATCGGAGGTTCAAAGTTATTCTTC
** * * ** * *
1957688 TAGTGTTGTTTTAAATTGAATTGTCCATTTCCCATTT-CATTTCAAAATATTACCAATTTATACA
1 TAGCATTGTTTGAACTCAAACTGTCCATTT-CCATTTAC-TTTCAAAATAATACCAATTTATACA
* * * ** * * * *
1957752 GTTATATAAA-AAAA-ATTCAATGGTCAATTAGCACAG-TGGTAAAACTGTCAAACTGACAATAC
64 ATAATATAAAGAAAATTTTCAATGCACTATTAGCTCAGTTGGTAAAAATATCAAACTGACAATAC
* * * * * * * *
1957814 TGGTTGGAGCTTAAATGTTCAACTAGATGGAATAGCTCAGTTAGTTAGAGCGTGTAGCT-ATAAC
129 TGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAATTGGTTAGAGCGTGTGGCTGCTAAC
1957878 CACAAGGT
194 CACAAGGT
1957886 CGGAGGTTCA
Statistics
Matches: 362, Mismatches: 46, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
219 10 0.03
220 83 0.23
221 57 0.16
222 31 0.09
223 1 0.00
226 2 0.01
228 1 0.00
235 2 0.01
236 106 0.29
237 54 0.15
238 15 0.04
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (237 bp):
TAGCATTGTTTGAACTCAAACTGTCCATTTCCATTTACTTTCAAAATAATACCAATTTATACAAT
AATATAAAGAAAATTTTCAATGCACTATTAGCTCAGTTGGTAAAAATATCAAACTGACAATACTG
GTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAATTGGTTAGAGCGTGTGGCTGCTAACCA
CAAGGTTAGAACCACAAGATCGGAGGTTCAAAGTTATTCTTC
Found at i:1957743 original size:678 final size:662
Alignment explanation
Indices: 1956456--1957967 Score: 1846
Period size: 678 Copynumber: 2.3 Consensus size: 662
1956446 TGAAAATGCC
* * *
1956456 AAACTGATAAATATTGGTTGGAGCTTAAAGTTCAAATTAGCTGGAATAGCTCAGTTGGTTAGAGC
1 AAACTGA-CAATATTGGTTGGAGCTTAAAGTTC-AACTAGATGGAATAGCTCAGTTGGTTAGAGC
* * * * * *
1956521 GTTTGGATGTTAACAACAAGGTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTCAGATT
64 GTGTGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTATAGC-TTGTTTTAGCTCAGATT
* * * *
1956586 GTTCATTTCCCATTTACTTTCAAAATAATATCAATTTATACAATTATATAAAGAAAATTTTCAAT
128 GTCCATTT-CCATTTACTTTCAAAATATTACCAATTTATACAATAATATAAAGAAAATTTTCAAT
* * * * *
1956651 GGCATATTAGCACATTTGGTAAAAGTGTCAAACTGACAATACTGGTTGGAGCTTGAAGATCCAAC
192 GACATATTAGCACAGTTGGTAAAAATATCAAACTGACAATACTGGTCGGAGCTTGAAGATCCAAC
* * * * *
1956716 CAGCTGGAATAGCTCAGTTGGTTAGTTCGTGTGGTTGTTAACCATAAGGTCGGAGGTTAAAGCCC
257 CAGCTGGAATAGCTCAATTGGTTAGGTCGTGTGGTTGTTAACCACAAGATCGGAGGTTAAAGCCA
* * *
1956781 TCCTTCTAACGTTGTTTTAGCTCATATTATCAATTTCACATTTAATTTCAAAATATTATCAATTT
322 TCCTTCTAACGTTGTTTTAACTCATACTATCAATTTCACATTTAATTTCAAAATAATATCAATTT
** * *
1956846 ATTCAGTTATATAAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAAGTGTCAAACTTAC
387 ATAAAGTTATATAAAGAAAATTTTCAATGGCATATTAGCTCAGTTGGTAAAAGTGTCAAACTGAC
* * * * *
1956911 AAAACTGGTTGGAGCTTGATGGTCCAACTAGCTGGAATAACTTAGTTAGTTAGAGTGTGTGGCTG
452 AAAACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAACTCAGTTAGTTAGAGCGTGTGGCTG
* *** * * *
1956976 TTAAACATTTGGTCAGAGGTTCAAGCCCACCTTATTGCGTTGTTTTAACTTGGATTGTCCATTTC
517 CTAAACACAAGGTCAGAGGTTCAAGCCCACCTTATAGCGTTGTTTTAAATTGAATTGTCCATTTC
1957041 ACATTTGCTTTCAAAATATTACCAATTTATACAATTATAT-AAAAAATTCAATGGCCAAGTAGAA
582 ACATTTGCTTTCAAAATATTACCAATTTATACAATTATATAAAAAAATTCAATGGCCAAGTAGAA
*
1957105 CAGTTGATAAAAGTGTA
647 CAG-TGATAAAACTGTA
* *
1957122 AAAGCTGACAATATTGGCTGGAGCTTAAAGGTTCAACTAGATGGAATAGCTTAGTTGGTTAGAGC
1 AAA-CTGACAATATTGGTTGGAGCTTAAA-GTTCAACTAGATGGAATAGCTCAGTTGGTTAGAGC
* * * * *
1957187 GTGTGGCTATTAACCACAATGTTGGAGGTTCAAGCCCTCCTTATAGCATTGTTTGAACTCAAATT
64 GTGTGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTATAGC-TTGTTTTAGCTCAGATT
1957252 GTCCATTTCCATTTACTTTCAAAATATTACCAATTTATACAATAATATAAAGAAAATTTTCAATG
128 GTCCATTTCCATTTACTTTCAAAATATTACCAATTTATACAATAATATAAAGAAAATTTTCAATG
* * * *
1957317 TAC-TATTAGCTCAGTTGGTAAAAATATTAAACTGACAATACTGGTCGGAGCTTGAAGGTCCAAT
193 -ACATATTAGCACAGTTGGTAAAAATATCAAACTGACAATACTGGTCGGAGCTTGAAGATCCAAC
* *
1957381 TAGTTGGAATAGCTCAATTGGTTAGAGT-GTGTGGCTTTTAACCACAAGGTTAGAACCACAAGAT
257 CAGCTGGAATAGCTCAATTGGTTAG-GTCGTGTGG---TT---------GTT--AACCACAAGAT
** * * * * *
1957445 CGGAGGTTCAAAGTTATTCTTCTAGCGTTGTTTTAACTC-TAACTGTCCAGTTTC-CATTTACTT
307 CGGAGGTT-AAAGCCATCCTTCTAACGTTGTTTTAACTCAT-ACTAT-CAATTTCACATTTAATT
* *
1957508 TC-AAATAATATCAATTTATAAATTTATATAAAGAAAA-TTTCAATGGCATATTAG-TGCATTTG
369 TCAAAATAATATCAATTTATAAAGTTATATAAAGAAAATTTTCAATGGCATATTAGCT-CAGTTG
* *
1957570 GTAAAAGTGTCAAACTGACAATACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAGCTCAGT
433 GTAAAAGTGTCAAACTGACAAAACTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAACTCAGT
* ** * * *
1957635 TGGTTAGAGCGTGTGGCTGCTAGCCACAAGGTC-GAAGGTTCAAGCCCTCCTTCTAGTGTTGTTT
498 TAGTTAGAGCGTGTGGCTGCTAAACACAAGGTCAG-AGGTTCAAGCCCACCTTATAGCGTTGTTT
* *
1957699 TAAATTGAATTGTCCATTTCCCATTT-CATTTCAAAATATTACCAATTTATACAGTTATATAAAA
562 TAAATTGAATTGTCCATTTCACATTTGC-TTTCAAAATATTACCAATTTATACAATTATAT-AAA
* * * * *
1957763 AAAATTCAATGGTCAATTAGCACAGTGGTAAAACTGTC
625 AAAATTCAATGGCCAAGTAGAACAGTGATAAAACTGTA
* *
1957801 AAACTGACAATACTGGTTGGAGCTTAAATGTTCAACTAGATGGAATAGCTCAGTTAGTTAGAGCG
1 AAACTGACAATATTGGTTGGAGCTTAAA-GTTCAACTAGATGGAATAGCTCAGTTGGTTAGAGCG
* *
1957866 TGTAGCTA-TAACCACAAGGTCGGAGGTTCAA-CCCTCCTTCCAT-G-TTGTTTTAGCTCGGATT
65 TGTGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTT--ATAGCTTGTTTTAGCTCAGATT
*
1957927 GTCCATTTCGCATTTAATTTCAAAATATTACCAATTTATAC
128 GTCCATTTC-CATTTACTTTCAAAATATTACCAATTTATAC
1957968 TGACAAAACT
Statistics
Matches: 723, Mismatches: 94, Indels: 48
0.84 0.11 0.06
Matches are distributed among these distances:
665 135 0.19
666 112 0.15
667 8 0.01
668 2 0.00
675 22 0.03
676 38 0.05
677 28 0.04
678 249 0.34
679 62 0.09
680 61 0.08
681 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (662 bp):
AAACTGACAATATTGGTTGGAGCTTAAAGTTCAACTAGATGGAATAGCTCAGTTGGTTAGAGCGT
GTGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTATAGCTTGTTTTAGCTCAGATTGTC
CATTTCCATTTACTTTCAAAATATTACCAATTTATACAATAATATAAAGAAAATTTTCAATGACA
TATTAGCACAGTTGGTAAAAATATCAAACTGACAATACTGGTCGGAGCTTGAAGATCCAACCAGC
TGGAATAGCTCAATTGGTTAGGTCGTGTGGTTGTTAACCACAAGATCGGAGGTTAAAGCCATCCT
TCTAACGTTGTTTTAACTCATACTATCAATTTCACATTTAATTTCAAAATAATATCAATTTATAA
AGTTATATAAAGAAAATTTTCAATGGCATATTAGCTCAGTTGGTAAAAGTGTCAAACTGACAAAA
CTGGTCGGAGCTTGAAGGTCCAACTAGATGGAATAACTCAGTTAGTTAGAGCGTGTGGCTGCTAA
ACACAAGGTCAGAGGTTCAAGCCCACCTTATAGCGTTGTTTTAAATTGAATTGTCCATTTCACAT
TTGCTTTCAAAATATTACCAATTTATACAATTATATAAAAAAATTCAATGGCCAAGTAGAACAGT
GATAAAACTGTA
Found at i:1958357 original size:220 final size:222
Alignment explanation
Indices: 1957966--1958441 Score: 593
Period size: 220 Copynumber: 2.1 Consensus size: 222
1957956 ACCAATTTAT
* * *
1957966 ACTGACAAA-ACTGGTTGGAGTTTGAAGGTCCAACTAGCTAGAAAAGCTCAGTTACTTAGAGCGT
1 ACTGA-AAATACTGGTTGGAGATTGAAGGTCCAACTAGATAGAAAAGCTCAGTTACTTAGAGCGA
* * * *
1958030 GTGGCTGTTAACCACATGGTCAAAGGTTCAAGCCCACCTTATAGCGTTATTTTAACTTGGATTGT
65 GTGGCTATTAACCACATGGTCAAAGGTTCAAGCCCACCTTATAGCGTTATTTGAACTCGAATTGT
* *
1958095 CCATTTCCCATTTACTTTCAAAATATTACCAAATTATACAATTATATAAA-AAAA-TTCAATGGA
130 CCATTTCCAATTTACATTCAAAATATTACCAAATTATACAATTATATAAAGAAAATTTCAAT-GA
* *
1958158 -CAATTAGCAT-AGTTGGTAAAAGTGTCAA
194 CCAATTAGC-TCAGCTGGTAAAAATGTCAA
* * * * * * ** *
1958186 ACTGAAAATACTGGTTGGAGCTTAAAGGTTCGACTAGATGGAATAGCTCAGTTGGTTAGTGCGAG
1 ACTGAAAATACTGGTTGGAGATTGAAGGTCCAACTAGATAGAAAAGCTCAGTTACTTAGAGCGAG
* *** * * *
1958251 TGGGTATTAACCACATGGTTGGAGGTTCAAGCCCACCTTCTAGCTTTGTTTGAACTCGAATTGTC
66 TGGCTATTAACCACATGGTCAAAGGTTCAAGCCCACCTTATAGCGTTATTTGAACTCGAATTGTC
*
1958316 CATTTCCAATTTACATTCAAAATATTACCAATTTATACAATTATATAAAGAAAATTTTCAATGAC
131 CATTTCCAATTTACATTCAAAATATTACCAAATTATACAATTATATAAAGAAAA-TTTCAATGAC
* *
1958381 CTATTAGCTCAGCTGGTAAAAATGTTAA
195 CAATTAGCTCAGCTGGTAAAAATGTCAA
* *
1958409 ACTGACAATATTGGTTGGAGATTGAAGGTCCAA
1 ACTGAAAATACTGGTTGGAGATTGAAGGTCCAA
1958442 TTAGTTTGAA
Statistics
Matches: 215, Mismatches: 35, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
219 3 0.01
220 150 0.70
221 4 0.02
222 3 0.01
223 55 0.26
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (222 bp):
ACTGAAAATACTGGTTGGAGATTGAAGGTCCAACTAGATAGAAAAGCTCAGTTACTTAGAGCGAG
TGGCTATTAACCACATGGTCAAAGGTTCAAGCCCACCTTATAGCGTTATTTGAACTCGAATTGTC
CATTTCCAATTTACATTCAAAATATTACCAAATTATACAATTATATAAAGAAAATTTCAATGACC
AATTAGCTCAGCTGGTAAAAATGTCAA
Found at i:1958647 original size:192 final size:193
Alignment explanation
Indices: 1958291--1958648 Score: 524
Period size: 192 Copynumber: 1.9 Consensus size: 193
1958281 GCCCACCTTC
* *
1958291 TAGCTTTGTTTGAACTCGAATTGTCCATTTCCAATTTACATTCAAAATATTACCAATTTATACAA
1 TAGCGTTGTTTGAACTCGAATTGTCCATTTCCAATTTACATTCAAAATAATACCAATTTATACAA
* * * *
1958356 TTATATAAAGAAAATTTTCAATGACCTATTAGCTCAGCTGGTAAAAATGTTAAACTGACAATATT
66 TTATATAAAGAAAATTTTCAATGACCTATTAGCACAGCTGGTAAAAATATCAAACGGACAATATT
* * *
1958421 GGTTGGAGATTGAAGGTCCAATTAGTTTGAATAGCTAAATTGTTAGAGCGTTGGCTCTTATTT
131 GGTTGGAGATTGAAGGTCCAACTAGCTAGAATAGCTAAATTGTTAGAGCGTTGGCTCTTATTT
* * *
1958484 TAGCGTTGTTTTAACTCTG-ATTGTCCATTTCTC-ATTTACTTTCAAAATAATATCAATTTATA-
1 TAGCGTTGTTTGAACTC-GAATTGTCCATTTC-CAATTTACATTCAAAATAATACCAATTTATAC
* ** *
1958546 AATTATATAAAGAAAATTTTCAATGGCCTATTAGCACATTTGGTAAAAGTATCAAACGGACAATA
64 AATTATATAAAGAAAATTTTCAATGACCTATTAGCACAGCTGGTAAAAATATCAAACGGACAATA
*
1958611 TTGGTTGGAGCTTGAAGGTCCAACTAGCTAGAATAGCT
129 TTGGTTGGAGATTGAAGGTCCAACTAGCTAGAATAGCT
1958649 CAGTTGGTTA
Statistics
Matches: 146, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
192 91 0.62
193 53 0.36
194 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (193 bp):
TAGCGTTGTTTGAACTCGAATTGTCCATTTCCAATTTACATTCAAAATAATACCAATTTATACAA
TTATATAAAGAAAATTTTCAATGACCTATTAGCACAGCTGGTAAAAATATCAAACGGACAATATT
GGTTGGAGATTGAAGGTCCAACTAGCTAGAATAGCTAAATTGTTAGAGCGTTGGCTCTTATTT
Found at i:1959106 original size:182 final size:182
Alignment explanation
Indices: 1958796--1959123 Score: 486
Period size: 182 Copynumber: 1.8 Consensus size: 182
1958786 TTTCAAAGTC
*
1958796 CTATTAGCTCTATTGGTAAAAGTGTCAAATTGATAATACTGGTTTGAGCTTAAAGTTACAATTAA
1 CTATTAGCTCTATTGGTAAAAGTGTCAAACTGATAATACTGGTTTGAGCTTAAAGTTACAATTAA
** *
1958861 GTGGAATAGCTCAGTTGGTTAGAGTGTATGGCTGTTAACCACATGGTTAGAGGTTCAAGCCCT-C
66 GTGGAATAGCTCAGTTGGTTAGAGCCTATGGCTGTTAACCACAAGGTTAGAGGTTCAAGCCCTCC
*
1958925 TTTCTAGCGTTGTTTTAGATCAGATTATCCATTTCCCATCTAATTTCAATGGG
131 TTT-TAGCGTTATTTTAGATCAGATTATCCATTTCCCATCTAATTTCAATGGG
* * *
1958978 CTATTAGCTCTTTTGGTAAAATTTTCAAACTGATAATACTGG-TTGAAGCTTAAAGGTT-CAATT
1 CTATTAGCTCTATTGGTAAAAGTGTCAAACTGATAATACTGGTTTG-AGCTTAAA-GTTACAATT
* *
1959041 -AGATGGAATAGCTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTTGGAGGTT-ACAGCC
64 AAG-TGGAATAGCTCAGTTGGTTAGAGCCTATGGCTGTTAACCACAAGGTTAGAGGTTCA-AGCC
1959104 CTCCTTTTAGCGTTATTTTA
127 CTCCTTTTAGCGTTATTTTA
1959124 TTTTAAATTG
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
181 6 0.05
182 118 0.90
183 7 0.05
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (182 bp):
CTATTAGCTCTATTGGTAAAAGTGTCAAACTGATAATACTGGTTTGAGCTTAAAGTTACAATTAA
GTGGAATAGCTCAGTTGGTTAGAGCCTATGGCTGTTAACCACAAGGTTAGAGGTTCAAGCCCTCC
TTTTAGCGTTATTTTAGATCAGATTATCCATTTCCCATCTAATTTCAATGGG
Found at i:1960464 original size:219 final size:218
Alignment explanation
Indices: 1960005--1961102 Score: 1189
Period size: 219 Copynumber: 5.0 Consensus size: 218
1959995 TAGTTGGTAA
* * * * * *
1960005 AAAGGTTCCAATTAGCTGGAATAACTTAG-TGGTTAGAGGGTTGTAGCTATTAACCACAAGATCA
1 AAAGG-TCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCG-TGTAGCTATTAACCACAAGGTCA
* * * * *
1960069 GAGGTTCAAGCCCTCCTTCTAGAGTTGTTTTA-ATTTGAATGTCCATTTCCATTAACTTTCAAAA
64 GAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTTCCATTTACTTTCAAAA
* * * * *
1960133 TATTACCAATTTATACAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCTA--ATGGTAAAAT
129 TAATACCAATTTATATAATTATAT-AA-AAAATTTTCAAT-GCCTATTAGCTATGTTGGTAAAAT
*
1960196 TTCAAACTGATAATGCTGGTTGGAGCTT
191 TTCAAACTGATAATACTGGTTGGAGCTT
* * * *
1960224 AAAGGTTCAACTAGTTAGAATAGCTCAGTTGGTTAGAGCGTTTAGCTATTAACCACAAGTTCAGA
1 AAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCAGA
* * *
1960289 GGTTCAATCCCTCCTTCTAGCGTTGTTTTAGCTCGGATAGTCCATTTCTCATTTACTTTCAAAAT
66 GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTTC-CATTTACTTTCAAAAT
* * *
1960354 AATACCAATTTATATAATTATAT-AAAAATATTTCAATG-TTATTAGCTCTGTTGATAAAAGTTT
130 AATACCAATTTATATAATTATATAAAAAAT-TTTCAATGCCTATTAGCTATGTTGGTAAAA-TTT
* *
1960417 CAAACTGACAACACTGGTTGGAGCTT
193 CAAACTGATAATACTGGTTGGAGCTT
* *
1960443 AAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGA
1 AAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCAGA
* *
1960508 GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAACTTGGATTGTCCA-TTCCATTTACTTTAAAAATA
66 GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTTCCATTTACTTTCAAAATA
* *
1960572 TTACCAA-TT-TATAATTATATAAAGAAAATTTTCAATGGCCTACTAGCTAT-TTGGTAAAATTT
131 ATACCAATTTATATAATTATAT-AA-AAAATTTTCAAT-GCCTATTAGCTATGTTGGTAAAATTT
**
1960634 CAAACTGATAATGTTGGTTGGAGCTT
193 CAAACTGATAATACTGGTTGGAGCTT
* ** * * * *
1960660 AAATGTTTAGCTAGTTTGAATAGCTCAGTTGGTTAGAGC-TGT-GCTATTAACCACAAGTTCAGA
1 AAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCAGA
1960723 GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCA-TTCTCATTTACTTT-AAAAT
66 GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTTC-CATTTACTTTCAAAAT
* * * *
1960786 AATACCAA-TTATACAATTATA-AAAAAA--TTCAATGTTCTGTTAGCTTTGTTGGTAAAATTTT
130 AATACCAATTTATATAATTATATAAAAAATTTTCAATG-CCTATTAGCTATGTTGGTAAAA-TTT
*
1960847 CCAACTGATAATACTGGTTGGAGCTT
193 CAAACTGATAATACTGGTTGGAGCTT
* * * * * * * *
1960873 AAAGAT-CAATTAGCTTGAATAGCTTATAGATGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCG
1 AAAGGTCCAACTAGCTAGAATAGC-T-CAGTTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCA
* ** * * * * *
1960937 GAGGTTTAAGAACTCCTTATAGCGTTG-TTTAGCTCGAATTGACCATTTCCCA-TTAATTTCAAA
64 GAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTT-CCATTTACTTTCAAA
* * *
1961000 ATAATTCCAATTTAT-TAGTTATATTAAGAAAATTTTCAATTGCCTATTAGCTCA-ATTGGTAAA
128 ATAATACCAATTTATATAATTATA-TAA-AAAATTTTCAA-TGCCTATTAGCT-ATGTTGGTAAA
* *
1961063 AGTGTCAAACTGACAATACTGGTTGGAGCTT
189 A-TTTCAAACTGATAATACTGGTTGGAGCTT
* *
1961094 GAAGATCCA
1 AAAGGTCCA
1961103 TTTAGTTTTG
Statistics
Matches: 749, Mismatches: 97, Indels: 63
0.82 0.11 0.07
Matches are distributed among these distances:
210 1 0.00
211 14 0.02
212 22 0.03
213 35 0.05
214 14 0.02
215 114 0.15
216 92 0.12
217 99 0.13
218 102 0.14
219 164 0.22
220 35 0.05
221 53 0.07
222 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (218 bp):
AAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCAGA
GGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCATTTCCATTTACTTTCAAAATA
ATACCAATTTATATAATTATATAAAAAATTTTCAATGCCTATTAGCTATGTTGGTAAAATTTCAA
ACTGATAATACTGGTTGGAGCTT
Found at i:1961073 original size:434 final size:436
Alignment explanation
Indices: 1960011--1961093 Score: 1494
Period size: 437 Copynumber: 2.5 Consensus size: 436
1960001 GTAAAAAGGT
* * * * * *
1960011 TCCAATTAGCTGGAATAACTTAGTGGTTAGAGGGTTGTAGCTATTAACCACAAGATCAGAGGTTC
1 TCCAATTAGCTAGAATAGCTTAGTGGTTAGAGCG-TGTGGCTGTTAACCACAAGGTCAGAGGTTC
* *
1960076 AAGCCCTCCTTCTAGAGTTGTTTTAATTTGAA-TGTCCATTTCCATTAACTTTCAAAATATTACC
65 AAGCCCTCCTTCTAGCGTTGTTTTAACTTGAATTGTCCATTTCCATTAA-TTTCAAAATATTACC
*
1960140 AATTTATACAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCTAA-TGGTAAAATTTCAAACT
129 AATTTAT-TAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCTAATTGGTAAAATTTCAAACT
*
1960204 GATAATGCTGGTTGGAGCTTAAAGGTTCAACTAGTTAGAATAGCTCAGTTGGTTAGAGCGTTTAG
193 GATAATGCTGGTTGGAGCTTAAAGGTTCAACTAGTTAGAATAGCTCAGTTGGTTAGAGCGTGTAG
*
1960269 CTATTAACCACAAGTTCAGAGGTTCAATCCCTCCTTCTAGCGTTGTTTTAGCTCGGATAGTCCAT
258 CTATTAACCACAAGTTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTCGGATAGTCCAT
*
1960334 TTCTCATTTACTTTCAAAATAATACCAATTTATATAATTATATAAAAATATTTCAATGTTATTAG
323 TTCTCATTTACTTTCAAAATAATACCAATTTATACAATTATATAAAAATATTTCAATGTTATTAG
*
1960399 CTCTGTTGATAAAAGTTTCAAACTGACAACACTGGTTGGAGCTTAAAGG
388 CTCTGTTGATAAAAGTTTCAAACTGACAACACTGGTTGGAGCTTAAAGA
* *
1960448 TCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTC
1 TCCAATTAGCTAGAATAGCTTAG-TGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTC
* * *
1960513 AAGCCCTCCTTCTAGCGTTGTTTTAACTTGGATTGTCCA-TTCCATTTACTTTAAAAATATTACC
65 AAGCCCTCCTTCTAGCGTTGTTTTAACTTGAATTGTCCATTTCCA-TTAATTTCAAAATATTACC
* *
1960577 AATTTA-TAATTATATAAAGAAAATTTTCAATGGCCTACTAGCTATTTGGTAAAATTTCAAACTG
129 AATTTATTAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCTAATTGGTAAAATTTCAAACTG
* * * * *
1960641 ATAATGTTGGTTGGAGCTTAAATGTTTAGCTAGTTTGAATAGCTCAGTTGGTTAGAGC-TGT-GC
194 ATAATGCTGGTTGGAGCTTAAAGGTTCAACTAGTTAGAATAGCTCAGTTGGTTAGAGCGTGTAGC
* *
1960704 TATTAACCACAAGTTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTTGGATTGTCCA-T
259 TATTAACCACAAGTTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTCGGATAGTCCATT
*
1960768 TCTCATTTACTTT-AAAATAATACCAA-TTATACAATTATA-AAAAA-A-TTCAATGTTCTGTTA
324 TCTCATTTACTTTCAAAATAATACCAATTTATACAATTATATAAAAATATTTCAATG-T-TATTA
* * * * * *
1960828 GCTTTGTTGGTAAAATTTTCCAACTGATAATACTGGTTGGAGCTTAAAGA
387 GCTCTGTTGATAAAAGTTTCAAACTGACAACACTGGTTGGAGCTTAAAGA
* *
1960878 T-CAATTAGCTTGAATAGCTTATAGATGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCGGAGGT
1 TCCAATTAGCTAGAATAGC-T-TAG-TGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGT
* ** * * * *
1960942 TTAAGAACTCCTTATAGCGTTG-TTTAGCTCGAATTGACCATTTCCCATTAATTTCAAAATAATT
63 TCAAGCCCTCCTTCTAGCGTTGTTTTAACTTGAATTGTCCATTT-CCATTAATTTCAAAAT-ATT
* * * *
1961006 -CCAATTTATTAGTTATATTAAGAAAATTTTCAATTGCCTATTAGCTCAATTGGTAAAAGTGTCA
126 ACCAATTTATTAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCT-AATTGGTAAAA-TTTCA
* *
1961070 AACTGACAATACTGGTTGGAGCTT
189 AACTGATAATGCTGGTTGGAGCTT
1961094 GAAGATCCAT
Statistics
Matches: 574, Mismatches: 58, Indels: 31
0.87 0.09 0.05
Matches are distributed among these distances:
428 7 0.01
429 17 0.03
430 68 0.12
431 91 0.16
432 52 0.09
433 24 0.04
434 87 0.15
435 38 0.07
436 71 0.12
437 100 0.17
438 19 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (436 bp):
TCCAATTAGCTAGAATAGCTTAGTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCA
AGCCCTCCTTCTAGCGTTGTTTTAACTTGAATTGTCCATTTCCATTAATTTCAAAATATTACCAA
TTTATTAGTTATATAAAGAAAATTTTCAATGGCCTACTAGCTAATTGGTAAAATTTCAAACTGAT
AATGCTGGTTGGAGCTTAAAGGTTCAACTAGTTAGAATAGCTCAGTTGGTTAGAGCGTGTAGCTA
TTAACCACAAGTTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAGCTCGGATAGTCCATTTC
TCATTTACTTTCAAAATAATACCAATTTATACAATTATATAAAAATATTTCAATGTTATTAGCTC
TGTTGATAAAAGTTTCAAACTGACAACACTGGTTGGAGCTTAAAGA
Found at i:1961708 original size:221 final size:222
Alignment explanation
Indices: 1961167--1962793 Score: 1595
Period size: 221 Copynumber: 7.4 Consensus size: 222
1961157 TCTTAAATTT
* * * * * * *
1961167 GATTATCCGTTTCCAATTTACTTTCAAAACAATACCAATTTATACAGTTATATAAAGAAAATTTG
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAATTTG
* * * * * *
1961232 AA-AGACCTATTAGCACAT-TT-GTTAAAGTGTCAAACTAACAATACTGGTTTGAGCTT-AAGGT
66 AATAG-CCTATTAGCTC-TGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGT
*
1961293 CCAACTAGCTGGAATAGCTCAGTTGGTTAGAGCGTGTGGC-ATTAACCACAAGGTC-AGAGGTTC
129 CCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGA-AGGTTC
*
1961356 AAG-CCTTCTTCTAGTGTTGTTTTAA-TATG
193 AAGCCCTCCTTCTAGTGTTGTTTTAACT-TG
* * *
1961385 AATTGTCCATTTCCCACTTACTTTCAAAATATTACCAATTTATACAATTATATAAAGAAAATTTT
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAA-TTT
* * *
1961450 CAATGGCCTAATAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTC
65 GAATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTC
* * * * * *
1961515 CAACTAGTTAGAATAGCTCAGTTGTTTAGACCGTGTGGCTGTTAACCACATGTTCGAAGGTTCAA
130 CAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGAAGGTTCAA
* *
1961580 GCCCTCCTTCTAGTATTGTTTTAGCTTG
195 GCCCTCCTTCTAGTGTTGTTTTAACTTG
* * *
1961608 GATTGTTCATTTCTCATTTACTTTCAAAATATTAACAATTTATATAATTATATAAA-AAAATTAT
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAATT-T
* * * * *
1961672 -AATAGACTATTAACTCTGTTAGTAAAATTTTCAAACTGATAATAATGGTTGGAGCTTAAAGGTC
65 GAATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTC
* * * * * *
1961736 CAACTAGCTGGAATAACTCAGATGGTTAGAGCGTGTGCCTGTTAACCACAAGGTCTG-AGGTTCT
130 CAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTC-GAAGGTTCA
** * *
1961800 AGCCCTCCTTCTAGCATTGATTTAACTCG
194 AGCCCTCCTTCTAGTGTTGTTTTAACTTG
* * **
1961829 GATTGACCATTTCCCATTTACTTTCAAAATAATT-TCAATTTATACAGGTATATAAAGAAAAGTT
1 GATTGTCCATTTCCCATTTACTTTCAAAAT-ATTAACAATTTATACAATTATATAAAGAAAA-TT
* * ** * * * * * *
1961893 TCAATTGCCTATTAGCTCAATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAGAGCTTGATGT
64 TGAATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACT-GGTTGGAGCTTAAAGG
* * * * * **
1961958 TCCAACTAG-TAGGAATAGGTCCAATTTGTT--AGCATTTGGCT-TTAACCGTAAGGTTCG-AGG
128 TCCAACTAGCTA-GAATAGCT-CAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGG-TCGAAGG
* ***
1962018 TTCAAATCCCTCCTTCTAGCAATG-TTTAACTCT-
190 TTC-AAGCCCTCCTTCTAGTGTTGTTTTAACT-TG
* * * *
1962051 GATTGTGCATTTCCCATTTACTTTC-AAATAAT-ACCATTTATAC-AGT-TATAAAGAAAATTTT
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAA-TTT
* * * * *
1962112 GAA-AGGCCTATTAGCACAT-TTGTTAAAAGTGTTAAACTGACAATACTGGTTGGAGCTTAAAGG
65 GAATA-GCCTATTAGCTC-TGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGG
* * *
1962175 TCCAACTAGCTAGAATAGCTTAGTTGGTTAGAGCGTGCGAC-ATTAACCACAAGGTC-AGAGGTT
128 TCCAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGA-AGGTT
* * * * *
1962238 TAAGCCCTTCTTCGAGTGTTATTTTAATTTG
192 CAAGCCCTCCTTCTAGTGTTGTTTTAACTTG
* * * *
1962269 AATTGTCCATTTCCCATTTACTTTCAAAATATT-ACCATTTATAAAATTTTATAAAGCAAAATTT
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAG-AAAATTT
* *
1962333 GAATGGCCTATTAGTTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTC
65 GAATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTC
* * * * * *
1962398 CAACTAGTTAGACTAGCTTAGTTGGTTAGAACTTGTGGCTATTAACCACAAGGTCGGAGGTTCAA
130 CAACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGAAGGTTCAA
* **
1962463 GCCCTCCTTCTAGTGTTGTTTTAGCTCA
195 GCCCTCCTTCTAGTGTTGTTTTAACTTG
* * * * * * * *
1962491 GATTGACCATTTCTCTTTTACTTTCAAAATAATATCAATTTATATAATTATATAAA-AAAA-ATA
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAATTTG
* * * * * * *
1962554 AATGGGCTATTAGCTCTTTTGGTAAAATTTTCAAACTGATAATACTGGTTGAAGTTTAAAGGTCA
66 AATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCC
** * * * * *
1962619 AAGAAGCTGGAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGTTCAAG
131 AACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGAAGGTTCAAG
* * **
1962684 CCCTCCTTTTAGCGTTGTTTTATTTTG
196 CCCTCCTTCTAGTGTTGTTTTAACTTG
* ** * * * *
1962711 AATTGTCTGTTTCCCATTTGCTTTCAAAATATTACCAATTTATACAATTGTATAATGAAAATTTT
1 GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAA-TTT
* * *
1962776 CAATGGCCTATTGGCTCT
65 GAATAGCCTATTAGCTCT
1962794 TAACCCCAAG
Statistics
Matches: 1163, Mismatches: 203, Indels: 81
0.80 0.14 0.06
Matches are distributed among these distances:
216 6 0.01
217 44 0.04
218 159 0.14
219 34 0.03
220 225 0.19
221 332 0.29
222 157 0.13
223 172 0.15
224 28 0.02
225 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (222 bp):
GATTGTCCATTTCCCATTTACTTTCAAAATATTAACAATTTATACAATTATATAAAGAAAATTTG
AATAGCCTATTAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCC
AACTAGCTAGAATAGCTCAGTTGGTTAGAGCGTGTGGCTATTAACCACAAGGTCGAAGGTTCAAG
CCCTCCTTCTAGTGTTGTTTTAACTTG
Found at i:1962445 original size:662 final size:662
Alignment explanation
Indices: 1961176--1962785 Score: 1793
Period size: 662 Copynumber: 2.4 Consensus size: 662
1961166 TGATTATCCG
* * * *
1961176 TTTCCAATTTACTTTCAAAACAATACCAATTTATACAGTTATATAAAGAAAATTTGAA-AGACCT
1 TTTCCCATTTACTTTCAAAATAATATCAATTTATACAGTTATATAAAGAAAATTTAAATAG-CCT
* * * * *
1961240 ATTAGCACATTTGTTAAAGTGTCAAACTAACAATACT-GGTTTGAGCTTAAGGTCCAACTAGCTG
65 ATTAGCTCATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAGAGCTTAAGGTCCAACTAGCTG
* * * *
1961304 GAATAGCTCAGTTGGTTAGAGCGTGTGGCATTAACCACAAGGTCAGAGGTTCAAGCCTTCTTCTA
130 GAATAGCTCAATTGGTTA-AGCATGTGGCATTAACCACAAGGTCAGAGGTTCAACCCTCCTTCTA
*** * *
1961369 GTGTTGTTTTAATATGAATTGTCCATTTCCCACTTACTTTCAAAATATTACCAATTTATACAATT
194 GCAATGTTTTAATATGAATTGTCCATTTCCCACTTACTTTCAAAATAATACCAATTTATACAAGT
* * * *
1961434 ATATAAAGAAAATTTTCAATGGCCTAATAGCTCTGTTGGTAAAATTGTCAAACTGATAATACTGG
259 ATATAAAGAAAATTTTCAAAGGCCTAATAGCACTGTTGGTAAAAGTGTCAAACTGACAATACTGG
* * * * *
1961499 TTGGAGCTTAAAGGTCCAACTAGTTAGAATAGCTCAGTTGTTTAGACCGTGTGGCTGTTAACCAC
324 TTGGAGCTTAAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGACCGTGCGACTATTAACCAC
* * * * * * * *
1961564 ATGTTCGAAGGTTCAAGCCCTCCTTCTAGTATTGTTTTAGCTTGGATTGTTCATTTCTCATTTAC
389 AAGGTCGAAGGTTCAAGCCCTCCTTCGAGTATTATTTTAACTTGAATTGTCCATTTCCCATTTAC
*
1961629 TTTCAAAATATTAACAATTTATATAATTATATAAAAAAATTATAATAGACTATTAACTCTGTTAG
454 TTTCAAAATATTAACAATTTATAAAATTATATAAAAAAATTATAATAGACTATTAACTCTGTTAG
* *
1961694 TAAAATTTTCAAACTGATAATAATGGTTGGAGCTTAAAGGTCCAACTAGCTGGAATAACTCAGAT
519 TAAAATTGTCAAACTGATAATAATGGTTGGAGCTTAAAGGTCCAACTAGCTAGAATAACTCAGAT
* * * *
1961759 GGTTAGAGCGTGTGCCTGTTAACCACAAGGTCTGAGGTTCTAGCCCTCCTTCTAGCATTGATTTA
584 GGTTAGAACGTGTGCCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCATTGATTTA
*
1961824 ACTCGGATTGACCA
649 ACTCAGATTGACCA
* * * *
1961838 TTTCCCATTTACTTTCAAAATAATTTCAATTTATACAGGTATATAAAGAAAAGTTTCAATTGCCT
1 TTTCCCATTTACTTTCAAAATAATATCAATTTATACAGTTATATAAAGAAAA-TTTAAATAGCCT
* *
1961903 ATTAGCTCAATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAGAGCTTGATGTTCCAACTAG-
65 ATTAGCTC-ATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAGAGCTT-AAGGTCCAACTAGC
* * * * **
1961967 TAGGAATAGGTCCAATTTGTT-AGCATTTGGCTTTAACCGTAAGGTTC-GAGGTTCAAATCCCTC
128 T-GGAATAGCT-CAATTGGTTAAGCATGTGGCATTAACCACAAGG-TCAGAGGTTC-AA-CCCTC
* * *
1962030 CTTCTAGCAATG-TTTAACTCTG-ATTGTGCATTTCCCATTTACTTTC-AAATAATACC-ATTTA
188 CTTCTAGCAATGTTTTAA-TATGAATTGTCCATTTCCCACTTACTTTCAAAATAATACCAATTTA
* * * *
1962091 TAC-AGT-TATAAAGAAAATTTTGAAAGGCCTATTAGCACAT-TTGTTAAAAGTGTTAAACTGAC
252 TACAAGTATATAAAGAAAATTTTCAAAGGCCTAATAGCAC-TGTTGGTAAAAGTGTCAAACTGAC
* *
1962153 AATACTGGTTGGAGCTTAAAGGTCCAACTAGCTAGAATAGCTTAGTTGGTTAGAGCGTGCGAC-A
316 AATACTGGTTGGAGCTTAAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGACCGTGCGACTA
* * * *
1962217 TTAACCACAAGGTC-AGAGGTTTAAGCCCTTCTTCGAGTGTTATTTTAATTTGAATTGTCCATTT
381 TTAACCACAAGGTCGA-AGGTTCAAGCCCTCCTTCGAGTATTATTTTAACTTGAATTGTCCATTT
* * * *
1962281 CCCATTTACTTTCAAAATATT-ACCATTTATAAAATTTTATAAAGCAAAATT-TGAATGGCCTAT
445 CCCATTTACTTTCAAAATATTAACAATTTATAAAATTATATAAA--AAAATTAT-AATAGACTAT
** * * *
1962344 TAGTTCTGTTGGTAAAATTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCCAACTAGTTAG
507 TAACTCTGTTAGTAAAATTGTCAAACTGATAATAATGGTTGGAGCTTAAAGGTCCAACTAGCTAG
* * * * * *
1962409 ACTAGCTTAGTTGGTTAGAACTTGTGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCT
572 AATAACTCAGATGGTTAGAACGTGTGCCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCT
** * *
1962474 AGTGTTGTTTTAGCTCAGATTGACCA
637 AGCATTGATTTAACTCAGATTGACCA
* * * * * * *
1962500 TTTCTCTTTTACTTTCAAAATAATATCAATTTATATAATTATATAAA-AAAA-ATAAATGGGCTA
1 TTTCCCATTTACTTTCAAAATAATATCAATTTATACAGTTATATAAAGAAAATTTAAATAGCCTA
* * * * * * **
1962563 TTAGCTCTTTTGGTAAAATTTTCAAACTGATAATACT-GGTT-GAAGTTTAAAGGTCAAAGAAGC
66 TTAGCTC-ATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAG-AGCTT-AAGGTCCAACTAGC
* * * * *
1962626 TGGAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGTTCAAGCCCTCCT
128 TGGAATAGCTCAATTGGTTA-AGCATGTGGC-ATTAACCACAAGGTCAGAGGTTCAA-CCCTCCT
* ** * * ** * * *
1962691 TTTAGCGTTGTTTTATTTTGAATTGTCTGTTTCCCATTTGCTTTCAAAATATTACCAATTTATAC
190 TCTAGCAATGTTTTAATATGAATTGTCCATTTCCCACTTACTTTCAAAATAATACCAATTTATAC
* * * *
1962756 AATTGTATAATGAAAATTTTCAATGGCCTA
255 AAGTATATAAAGAAAATTTTCAAAGGCCTA
1962786 TTGGCTCTTA
Statistics
Matches: 788, Mismatches: 132, Indels: 54
0.81 0.14 0.06
Matches are distributed among these distances:
657 8 0.01
658 23 0.03
659 70 0.09
660 61 0.08
661 85 0.11
662 347 0.44
663 20 0.03
664 57 0.07
665 45 0.06
666 50 0.06
667 22 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (662 bp):
TTTCCCATTTACTTTCAAAATAATATCAATTTATACAGTTATATAAAGAAAATTTAAATAGCCTA
TTAGCTCATTGGTAAAAGTGTCAAACTGACAATACTGGGTTAGAGCTTAAGGTCCAACTAGCTGG
AATAGCTCAATTGGTTAAGCATGTGGCATTAACCACAAGGTCAGAGGTTCAACCCTCCTTCTAGC
AATGTTTTAATATGAATTGTCCATTTCCCACTTACTTTCAAAATAATACCAATTTATACAAGTAT
ATAAAGAAAATTTTCAAAGGCCTAATAGCACTGTTGGTAAAAGTGTCAAACTGACAATACTGGTT
GGAGCTTAAAGGTCCAACTAGCTAGAATAGCTCAGTTGGTTAGACCGTGCGACTATTAACCACAA
GGTCGAAGGTTCAAGCCCTCCTTCGAGTATTATTTTAACTTGAATTGTCCATTTCCCATTTACTT
TCAAAATATTAACAATTTATAAAATTATATAAAAAAATTATAATAGACTATTAACTCTGTTAGTA
AAATTGTCAAACTGATAATAATGGTTGGAGCTTAAAGGTCCAACTAGCTAGAATAACTCAGATGG
TTAGAACGTGTGCCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGCATTGATTTAAC
TCAGATTGACCA
Found at i:1962921 original size:134 final size:134
Alignment explanation
Indices: 1962653--1962913 Score: 355
Period size: 134 Copynumber: 1.9 Consensus size: 134
1962643 TTAGAGCCTG
* * * * ** *
1962653 TGGCTGTTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTTTAGCGTTGTTTTATTTTGAATTGTC
1 TGGCTCTTAACCACAAGGTCGGAAGTTCAAGACCTCCTTCTAGCGTTGTTTTAGCTCGAATTGTC
** *
1962718 TGTTTCCCATTTGCTTTCAAAATATTACCAATTTATACAATTGTATAATGAAAATTTTCAATGGC
66 CATTTCCCATTTGCTTTCAAAATATTACCAATTTATACAATTATATAATGAAAATTTTCAATGGC
1962783 CTAT
131 CTAT
* * *
1962787 TGGCTCTTAACCCCAAGGTCGGAAGTTCAAGACCT-CTTGCTAGTGTTGTTTTAGCTCGGATTGT
1 TGGCTCTTAACCACAAGGTCGGAAGTTCAAGACCTCCTT-CTAGCGTTGTTTTAGCTCGAATTGT
* *
1962851 CCATTTCCCATTTTCTTTCAACATATTACCAATTTATACAATTATATAAAT-AAAATTTTCAAT
65 CCATTTCCCATTTGCTTTCAAAATATTACCAATTTATACAATTATAT-AATGAAAATTTTCAAT
1962914 TGTCTATTAG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
133 3 0.03
134 104 0.95
135 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (134 bp):
TGGCTCTTAACCACAAGGTCGGAAGTTCAAGACCTCCTTCTAGCGTTGTTTTAGCTCGAATTGTC
CATTTCCCATTTGCTTTCAAAATATTACCAATTTATACAATTATATAATGAAAATTTTCAATGGC
CTAT
Found at i:1963101 original size:357 final size:354
Alignment explanation
Indices: 1962433--1963144 Score: 935
Period size: 357 Copynumber: 2.0 Consensus size: 354
1962423 TTAGAACTTG
* *
1962433 TGGCTATTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGTGTTGTTTTAGCTCAGATTGAC
1 TGGCTATTAACCACAAGGTCGGAAGTTCAAGACCTCCTTCTAGTGTTGTTTTAGCTCAGATTGAC
* * *
1962498 CATTTCTCTTTTACTTTCAAAATAATATCAATTTATATAATTATATAAAAAAAATAAATGGGCTA
66 CATTTCCCTTTTACTTTCAAAATAATACCAATTTATACAATTATATAAAAAAAATAAATGGGCTA
** * * * *
1962563 TTAGCTCTTTTGGTAAAATTTTCAAACTGATAATACTGGTTGAAGTTTAAAGGTCAAAGAAGCTG
131 TTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGAAGCTTAAAGGTCAAACAAGCTG
* *
1962628 GAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTT
196 GAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGCTCAAGCCCTCCTTC
** ** *
1962693 TAGCGTTGTTTTATTTTGAATTGTCTGTTTCCCATTTGCTTTCAAAATATTACCAATTTATACAA
261 TAGCGTTGTTTTAACTTGAATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAA
* *
1962758 TTGTATAATGAAA-ATTTTCAATGGCCTAT
326 TTATATAAAGAAACA-TTTCAATGGCCTAT
* * * *
1962787 TGGCTCTTAACCCCAAGGTCGGAAGTTCAAGACCT-CTTGCTAGTGTTGTTTTAGCTCGGATTGT
1 TGGCTATTAACCACAAGGTCGGAAGTTCAAGACCTCCTT-CTAGTGTTGTTTTAGCTCAGATTGA
* * * * *
1962851 CCATTTCCCATTTT-CTTTCAACATATTACCAATTTATACAATTATATAAATAAAATTTTCAATT
65 CCATTTCCC-TTTTACTTTCAAAATAATACCAATTTATACAATTATATAAA-AAAA--ATAAATG
* * * * *
1962915 GTCTATTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGGAGCTTGAAGGTCCAACT
126 GGCTATTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGAAGCTTAAAGGTCAAACA
* * * * * * * *
1962980 AGTTGGAATAGCTTAGTTGGTTAGAGCGTTTGGTTGTTAACCACATGGTTGGAGGCTCAAGCCCT
191 AGCTGGAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGCTCAAGCCCT
* * *
1963045 CCTTCTAGTGTTGTTTTAACTTGGATTGTCCATTTCCCATTTACTTTCAGAATATTACCAATTTA
256 CCTTCTAGCGTTGTTTTAACTTGAATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTA
*
1963110 TACAATTATGTAAAGAAACATTTCAATGGCCTAT
321 TACAATTATATAAAGAAACATTTCAATGGCCTAT
1963144 T
1 T
1963145 ATCTCTATTG
Statistics
Matches: 306, Mismatches: 46, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
353 3 0.01
354 94 0.31
355 8 0.03
357 200 0.65
358 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (354 bp):
TGGCTATTAACCACAAGGTCGGAAGTTCAAGACCTCCTTCTAGTGTTGTTTTAGCTCAGATTGAC
CATTTCCCTTTTACTTTCAAAATAATACCAATTTATACAATTATATAAAAAAAATAAATGGGCTA
TTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGAAGCTTAAAGGTCAAACAAGCTG
GAATAACTCAGTTGGTTAGAGCCTGTGGCTGTTAACCACAAGGTCGGAGGCTCAAGCCCTCCTTC
TAGCGTTGTTTTAACTTGAATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAA
TTATATAAAGAAACATTTCAATGGCCTAT
Found at i:1963366 original size:224 final size:223
Alignment explanation
Indices: 1962787--1963380 Score: 766
Period size: 223 Copynumber: 2.7 Consensus size: 223
1962777 AATGGCCTAT
* * * * * *
1962787 TGGCTCTTAACCCCAAGGTCGGAAGTTCAAGACCT-CTTGCTAGTGTTGTTTTAGCTCGGATTGT
1 TGGCTTTTAACCACAAGGTCGGAGGTTCAAGCCCTCCTT-CTAGTGTTGTTTTAACTTGGATTGT
* * *
1962851 CCATTTCCCATTTTCTTTCAACATATTACCAATTTATACAATTATATAAAT-AAAATTTTCAATT
65 CCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAATTATAT-AATGAAAATTTTCAATG
* * * *
1962915 GTCTATTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGGAGCTTGAAGGTCCAACT
129 GCCTATTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCAAACA
* * * *
1962980 AGTTGGAATAGCTTAGTTGGTTAGAGCGTT
194 AGCTAGAATAACTTAGTTGGTTAGAGCGTC
* * *
1963010 TGG-TTGTTAACCACATGGTTGGAGGCTCAAGCCCTCCTTCTAGTGTTGTTTTAACTTGGATTGT
1 TGGCTT-TTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGTGTTGTTTTAACTTGGATTGT
* * *
1963074 CCATTTCCCATTTACTTTCAGAATATTACCAATTTATACAATTATGTAAAGAAACA-TTTCAATG
65 CCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAATTATATAATGAAA-ATTTTCAATG
* * * * *
1963138 GCCTATTATCTCTA-TTGGTAAAATTGTTAAACTGATAATATTGGTTGGAGCTTAAAGGTCAAAG
129 GCCTATTAGCTC-AGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCAAAC
1963202 AAGCTAGAATAACTTAGTTGGTTAGAGCGTC
193 AAGCTAGAATAACTTAGTTGGTTAGAGCGTC
* * ** *
1963233 TGGCTTTTAACCACAAGGTCGGGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTAAATTGC
1 TGGCTTTTAACCACAAGGTC-GGAGGTTCAAGCCCTCCTTCTAGTGTTGTTTTAACTTGGATTGT
* * * *
1963298 CCATTTCCCATTTACTTTCAAAATATTGCTAATTTAAACAGTTATATAATGAAAATTTTCAATGG
65 CCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAATTATATAATGAAAATTTTCAATGG
1963363 CCTATTAGCTCAGTTGGT
130 CCTATTAGCTCAGTTGGT
1963381 TAGAGCGTGT
Statistics
Matches: 318, Mismatches: 44, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
222 3 0.01
223 199 0.63
224 116 0.36
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (223 bp):
TGGCTTTTAACCACAAGGTCGGAGGTTCAAGCCCTCCTTCTAGTGTTGTTTTAACTTGGATTGTC
CATTTCCCATTTACTTTCAAAATATTACCAATTTATACAATTATATAATGAAAATTTTCAATGGC
CTATTAGCTCAGTTGGTAAAAGTGTCAAACTGATAATACTGGTTGGAGCTTAAAGGTCAAACAAG
CTAGAATAACTTAGTTGGTTAGAGCGTC
Found at i:1963536 original size:156 final size:157
Alignment explanation
Indices: 1963217--1963524 Score: 440
Period size: 156 Copynumber: 2.0 Consensus size: 157
1963207 AGAATAACTT
*
1963217 AGTTGGTTAGAGCGTCTGGCTTTTAACCACAAGGTCGGGAGGTTCAAGCCCTCCTTCTAGCGTTG
1 AGTTGGTTAGAGCGTCTGGCTTTTAACCACAAGGTCAGGAGGTTCAAGCCCTCCTTCTAGCGTTG
* * * *
1963282 TTTTAATTTAAATTGCCCATTTCCCATTTACTTTCAAAATATTGCTAATTTAAACAGTTATATAA
66 TTTTAAATTAAATTGCCCATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAGTTATATAA
*
1963347 TGAAAATTTTCAATGGCCTATTAGCTC
131 TGAAAATTTTCAACGGCCTATTAGCTC
* * * * *
1963374 AGTTGGTTAGAGCGTGTGG-TTGTTAGCCACAAGGT-AGGAGGTTTAAGCCCTCCTTTTAGTGTT
1 AGTTGGTTAGAGCGTCTGGCTT-TTAACCACAAGGTCAGGAGGTTCAAGCCCTCCTTCTAGCGTT
* ** * **
1963437 GTTTTAAATTGAATTGTTCATTTCCCATTAACTTTCAAAATATTACCAATTTATATGGTTATATA
65 GTTTTAAATTAAATTGCCCATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAGTTATATA
1963502 ATGAAAATTTTCAACGGCCTATT
130 ATGAAAATTTTCAACGGCCTATT
1963525 CACTGAGTTG
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
156 103 0.77
157 30 0.23
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (157 bp):
AGTTGGTTAGAGCGTCTGGCTTTTAACCACAAGGTCAGGAGGTTCAAGCCCTCCTTCTAGCGTTG
TTTTAAATTAAATTGCCCATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAGTTATATAA
TGAAAATTTTCAACGGCCTATTAGCTC
Found at i:1963764 original size:223 final size:221
Alignment explanation
Indices: 1963368--1964646 Score: 1333
Period size: 223 Copynumber: 5.8 Consensus size: 221
1963358 AATGGCCTAT
* * * *
1963368 TAGCTC-AGTTGGTTAGAGCGTGTGGTTGTTAGCCACAAGGT-AGGAGGTTTAAGCCCTCCTTTT
1 TAGCTCTA-TTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCA-GAGGTTCAAGCCCTCCTTCT
** * * * * * **
1963431 AGTGTTGTTTTAAATTGAATTGTTCATTTCCCATTAACTTTCAAAATATTACCAATTTATATGGT
64 AGCATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGT
* * * * *
1963496 TATATAATGAAAATTTTCAACGGCCTATTCA-CTGAGTTGGTAAAAGTGTCAAACTAACAATACA
129 TATATAA-GAAAATTTTCAATGGCCTATT-AGCTCAGTTGGTAAAA-TTTCAAACTGATAATAC-
* **
1963560 T-GTTAGAGCTTAAAACTCCAATTAGCTGGAA
190 TGGTTGGAGCTTAAAGGTCCAATTAGCTGGAA
* * * *
1963591 TAACTCTATTGGTTAGAGCGTGTAGCTATTAACCACAAGGTCATAGGTTCAAGCCCTCCTTCTAG
1 TAGCTCTATTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTAG
* * * *
1963656 CATTGTTTTAATTTGAATTGTCCATTTCCCATTAACTTTCAAAATATTACCAATTTATACAGTTA
66 CATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGTTA
* * * * * *
1963721 TATAATGAAAATTTTCAACGGCCTATTAGCTCAGTTGGTAAAAGTGTCAAACTAACAATATTTGT
131 TATAA-GAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAA-TTTCAAACTGATAATACTGGT
* * * * *
1963786 TGGACCTTAAAGTTTCAACTAGCTAGAA
194 TGGAGCTTAAAGGTCCAATTAGCTGGAA
* * * * *
1963814 TAGCTC-ATTTGGTTAGACCGTGTGGCTATTAACCACTAGGTCAGAGGTTTAAGCCCTTCTTCTA
1 TAGCTCTA-TTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTA
* * * *
1963878 GCATTGTTTTAGCTCGGATTGACCATTTCTCATTTACTTTCAAAATAATACCAATTTATACAGTT
65 GCATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGTT
** * * * **
1963943 ATATAA-AAAAAATTCAATAGACTATTAGCACTTTTGGTAAAATCTTCAAACTGATAATACTGGT
130 ATATAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAAT-TTCAAACTGATAATACTGGT
* * *
1964007 TGAAGCTCAAAGGTCCAATTAGTTGGAA
194 TGGAGCTTAAAGGTCCAATTAGCTGGAA
* ** * *
1964035 TAGCTCTGTTGAATAAAGCGTGTGCCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTAG
1 TAGCTCTATTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTAG
* * * * *
1964100 CGTTGTTTTAATTTGGATTGTCCATTTCCCATTTACTTTAAAAATATTACCAATTTATACAATTA
66 CATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGTTA
* * **
1964165 TATAAAGAAAATTTTCAATGACCTACTAGCT-A-TTGGTAAAATTTCAAACTGATAATGTTGGTT
131 TAT-AAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAATTTCAAACTGATAATACTGGTT
* *
1964228 GGAGCTTAAAGGTTCAACTAGCTGGAA
195 GGAGCTTAAAGGTCCAATTAGCTGGAA
* * *
1964255 TAGCTC-AGTTGGTTAGAGCGTGTGGCTTTTAACCACAAGTTCAGAGGTTCAAGCCCTCATTCTA
1 TAGCTCTA-TTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTA
* * ** * * *
1964319 GCATTGTTTTAGCTCGGGTTGTCCATTTCTTATTGACTTTCAAAATAATACCAATTTATACAATT
65 GCATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGTT
** *** * *
1964384 ATATAA-AAAAAATTCAATATTCTATTAGCTCTGTTGGTAAAATTTTCCAACTGATAATACTGGT
130 ATATAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAA-TTTCAAACTGATAATACTGGT
* *
1964448 TGGAGCTTAAAGATCAAATTAGCTGGAA
194 TGGAGCTTAAAGGTCCAATTAGCTGGAA
* * * *
1964476 TAGCT-TATAGATGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCGGAGGTTTAAGCACTCCTTA
1 TAGCTCTAT---TGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTC
* * * ** * *
1964540 TAG-AGTTATTTTAGCTCGGATTGACCATTTCCCATTTAGATTCAAAATAATT-CCACTTTATTC
63 TAGCA-TTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAAT-ATTACCAATTTATAC
* *
1964603 AGTTATATTAAGAAAATTTTCAATTGCCTATTAGCTCAATTGGT
126 AGTTATA-TAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGT
1964647 TAGAGGATTT
Statistics
Matches: 884, Mismatches: 151, Indels: 40
0.82 0.14 0.04
Matches are distributed among these distances:
218 18 0.02
219 2 0.00
220 166 0.19
221 234 0.26
222 6 0.01
223 426 0.48
224 7 0.01
225 25 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (221 bp):
TAGCTCTATTGGTTAGAGCGTGTGGCTGTTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTAG
CATTGTTTTAACTCGGATTGTCCATTTCCCATTTACTTTCAAAATATTACCAATTTATACAGTTA
TATAAGAAAATTTTCAATGGCCTATTAGCTCAGTTGGTAAAATTTCAAACTGATAATACTGGTTG
GAGCTTAAAGGTCCAATTAGCTGGAA
Found at i:1964394 original size:441 final size:443
Alignment explanation
Indices: 1963368--1964646 Score: 1459
Period size: 441 Copynumber: 2.9 Consensus size: 443
1963358 AATGGCCTAT
* * * * * * *
1963368 TAGCTCAGTTGGTTAGAGCGTGTGGTTGTTAGCCACAAGGT-AGGAGGTTTAAGCCCTCCTTTTA
1 TAGCTCAGTTGGTTAGACCGTGTGGCTATTAACCACAAGGTCA-GAGGTTCAAGCCCTTCTTCTA
** ** * * ** * * * ***
1963432 GTGTTGTTTTAAATTGAATTGTTCATTTCCCATTAACTTTCAAAATATTACCAATTTATATGGTT
65 GCATTGTTTTAGCTCGGATTGACCATTTCTCATTGACTTTCAAAATAATACCAATTTATACAATT
** ** * * * *
1963497 ATATAATGAAAATTTTCAACGGCCTATT--CACTGAGTTGGTAAAAGT-GTCAAACTAACAATAC
130 ATATAA--AAAAAATTCAATAGACTATTAGCACT--GTTGGTAAAA-TCTTCAAACTGATAATAC
* * * *
1963559 AT-GTT-AGAGCTTAAA-ACTCCAATTAGCTGGAATAACTCTATTGGTTAGAGCGTGTAGCTATT
190 -TGGTTGA-AGCTCAAAGA-TCCAATTAGCTGGAATAGCTCTGTTGGTTAGAGCGTGT-GCTGTT
* * *
1963621 AACCACAAGGTCATAGGTTCAAGCCCTCCTTCTAGCATTGTTTTAATTTGAATTGTCCATTTCCC
251 AACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTGGATTGTCCATTTCCC
* * * * *
1963686 ATTAACTTTCAAAATATTACCAATTTATACAGTTATATAATGAAAATTTTCAACGGCCTATTAGC
316 ATTTACTTTCAAAATATTACCAATTTATACAGTTATATAAAGAAAATTTTCAATGACCTACTAGC
* *
1963751 TCAGTTGGTAAAAGTGTCAAACTAACAATATTTGTTGGACCTTAAAGTTTCAACTAGCTAGAA
381 TCAGTTGGTAAAAGTGTCAAACTAACAATATTGGTTGGACCTTAAAGGTTCAACTAGCTAGAA
* * *
1963814 TAGCTCATTTGGTTAGACCGTGTGGCTATTAACCACTAGGTCAGAGGTTTAAGCCCTTCTTCTAG
1 TAGCTCAGTTGGTTAGACCGTGTGGCTATTAACCACAAGGTCAGAGGTTCAAGCCCTTCTTCTAG
* *
1963879 CATTGTTTTAGCTCGGATTGACCATTTCTCATTTACTTTCAAAATAATACCAATTTATACAGTTA
66 CATTGTTTTAGCTCGGATTGACCATTTCTCATTGACTTTCAAAATAATACCAATTTATACAATTA
*
1963944 TATAAAAAAAATTCAATAGACTATTAGCACTTTTGGTAAAATCTTCAAACTGATAATACTGGTTG
131 TATAAAAAAAATTCAATAGACTATTAGCACTGTTGGTAAAATCTTCAAACTGATAATACTGGTTG
* * ** *
1964009 AAGCTCAAAGGTCCAATTAGTTGGAATAGCTCTGTTGAATAAAGCGTGTGCCTGTTAACCACAAG
196 AAGCTCAAAGATCCAATTAGCTGGAATAGCTCTGTTGGTTAGAGCGTGTG-CTGTTAACCACAAG
1964074 GTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTGGATTGTCCATTTCCCATTTACTTT
260 GTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTGGATTGTCCATTTCCCATTTACTTT
* *
1964139 AAAAATATTACCAATTTATACAATTATATAAAGAAAATTTTCAATGACCTACTAGCT-A-TTGGT
325 CAAAATATTACCAATTTATACAGTTATATAAAGAAAATTTTCAATGACCTACTAGCTCAGTTGGT
* * * * * *
1964202 AAAA-TTTCAAACTGATAATGTTGGTTGGAGCTTAAAGGTTCAACTAGCTGGAA
390 AAAAGTGTCAAACTAACAATATTGGTTGGACCTTAAAGGTTCAACTAGCTAGAA
* * *
1964255 TAGCTCAGTTGGTTAGAGCGTGTGGCTTTTAACCACAAGTTCAGAGGTTCAAGCCC-TCATTCTA
1 TAGCTCAGTTGGTTAGACCGTGTGGCTATTAACCACAAGGTCAGAGGTTCAAGCCCTTC-TTCTA
* * *
1964319 GCATTGTTTTAGCTCGGGTTGTCCATTTCTTATTGACTTTCAAAATAATACCAATTTATACAATT
65 GCATTGTTTTAGCTCGGATTGACCATTTCTCATTGACTTTCAAAATAATACCAATTTATACAATT
** * * *
1964384 ATATAAAAAAAATTCAATATTCTATTAGCTCTGTTGGTAAAATTTTCCAACTGATAATACTGGTT
130 ATATAAAAAAAATTCAATAGACTATTAGCACTGTTGGTAAAATCTTCAAACTGATAATACTGGTT
* * * * *
1964449 GGAGCTTAAAGATCAAATTAGCTGGAATAGCTTATAGATGGTTAGAGCGTGTGGCTGTTAACCAC
195 GAAGCTCAAAGATCCAATTAGCTGGAATAGC-TCT-GTTGGTTAGAGCGTGT-GCTGTTAACCAC
* * * * * * ** * * *
1964514 AAGGTCGGAGGTTTAAGCACTCCTTATAGAGTTATTTTAGCTCGGATTGACCATTTCCCATTTAG
257 AAGGTCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTGGATTGTCCATTTCCCATTTAC
* * * * * *
1964579 ATTCAAAATAATT-CCACTTTATTCAGTTATATTAAGAAAATTTTCAATTG-CCTATTAGCTCAA
322 TTTCAAAAT-ATTACCAATTTATACAGTTATATAAAGAAAATTTTCAA-TGACCTACTAGCTCAG
1964642 TTGGT
385 TTGGT
1964647 TAGAGGATTT
Statistics
Matches: 715, Mismatches: 102, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
440 2 0.00
441 241 0.34
442 11 0.02
443 127 0.18
444 211 0.30
445 6 0.01
446 116 0.16
447 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (443 bp):
TAGCTCAGTTGGTTAGACCGTGTGGCTATTAACCACAAGGTCAGAGGTTCAAGCCCTTCTTCTAG
CATTGTTTTAGCTCGGATTGACCATTTCTCATTGACTTTCAAAATAATACCAATTTATACAATTA
TATAAAAAAAATTCAATAGACTATTAGCACTGTTGGTAAAATCTTCAAACTGATAATACTGGTTG
AAGCTCAAAGATCCAATTAGCTGGAATAGCTCTGTTGGTTAGAGCGTGTGCTGTTAACCACAAGG
TCAGAGGTTCAAGCCCTCCTTCTAGCGTTGTTTTAATTTGGATTGTCCATTTCCCATTTACTTTC
AAAATATTACCAATTTATACAGTTATATAAAGAAAATTTTCAATGACCTACTAGCTCAGTTGGTA
AAAGTGTCAAACTAACAATATTGGTTGGACCTTAAAGGTTCAACTAGCTAGAA
Found at i:1965182 original size:158 final size:155
Alignment explanation
Indices: 1964857--1965170 Score: 441
Period size: 158 Copynumber: 2.0 Consensus size: 155
1964847 CTAGCTGGAA
*
1964857 TAGCTCAGTTGGTTAGAGCGTGTGGCATTAACCACAAGGTCAGAGGTTCAAGCCCTCCTTCTATC
1 TAGCTCAGTTGGTTAGAGCGTGTGGCATTAACCACAAGGTCAGAGGTTCAAGCCCACCTTCTATC
* *
1964922 GTTGTTTTAATTTGAATTGCACATTTCCCATTTACTTTCAAAATATTACTAATTTAAACAGTTAT
66 GTTGTTTTAATTTGAATTGCACATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAGTTAT
* *
1964987 ATAATGAAAATTTTTAATGGCCTAT
131 ATAATGAAAATTTTCAACGGCCTAT
* * * * ** *
1965012 TAGCTCAGTTGGTTAGAGCGTGTGGCTGTTAGCCACAAGGTCGGAGGTTTAAGCCCAGTTTTTAG
1 TAGCTCAGTTGGTTAGAGCGTGTGGC-ATTAACCACAAGGTCAGAGGTTCAAGCCCACCTTCTA-
** * *
1965077 T-GTTTTGTTTTAATTTGAATTGTTCATTTCCCATTAACTTTCAAAATATTACCAATTTATACGG
64 TCG--TTGTTTTAATTTGAATTGCACATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAG
1965141 TTATATAATGAAAATTTTCAACGGCCTAT
127 TTATATAATGAAAATTTTCAACGGCCTAT
1965170 T
1 T
1965171 CACTGAGTTG
Statistics
Matches: 139, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
155 26 0.19
156 30 0.22
157 1 0.01
158 82 0.59
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (155 bp):
TAGCTCAGTTGGTTAGAGCGTGTGGCATTAACCACAAGGTCAGAGGTTCAAGCCCACCTTCTATC
GTTGTTTTAATTTGAATTGCACATTTCCCATTAACTTTCAAAATATTACCAATTTAAACAGTTAT
ATAATGAAAATTTTCAACGGCCTAT
Done.