Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 18
Found at i:1112938 original size:21 final size:19
Alignment explanation
Indices: 1112909--1113133 Score: 171
Period size: 21 Copynumber: 10.8 Consensus size: 19
1112899 TGCGATTTTG
*
1112909 GACTATCGCAACGAACTTG
1 GACTATCGCAACGAACTTC
*
1112928 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAA--CGAACTTC
*
1112951 GACTATCGCAACGAACTTG
1 GACTATCGCAACGAACTTC
* *
1112970 GAATAAATTGCAATGCGAACTTC
1 GACT--ATCGCAA--CGAACTTC
*
1112993 GACTATCGCAACGAACTTG
1 GACTATCGCAACGAACTTC
* *
1113012 GAATAAATCGCAACGCGAACTTT
1 GACT--ATCGCAA--CGAACTTC
1113035 GACTATCGCAACGTAAACTTC
1 GACTATCGCAACG--AACTTC
*
1113056 GACTATCACAACGTGAACTTC
1 GACTATCGCAAC--GAACTTC
*
1113077 GACTATCGCAACGAACTTG
1 GACTATCGCAACGAACTTC
*
1113096 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAA--CGAACTTC
1113119 GACTATCGCAACGAA
1 GACTATCGCAACGAA
1113134 TTTAGAAAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
19 38 0.23
21 87 0.52
23 41 0.25
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (19 bp):
GACTATCGCAACGAACTTC
Found at i:1112968 original size:42 final size:42
Alignment explanation
Indices: 1112909--1113133 Score: 355
Period size: 42 Copynumber: 5.4 Consensus size: 42
1112899 TGCGATTTTG
1112909 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
1112951 GACTATCGCAACGAACTTGGAATAAATTGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1112993 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
1113035 GACTATCGCAACGTAAACTTCGACT--ATCACAACGTGAACTTC
1 GACTATCGCAACG--AACTTGGAATAAATCGCAACGCGAACTTC
1113077 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1113119 GACTATCGCAACGAA
1 GACTATCGCAACGAA
1113134 TTTAGAAAAT
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
40 8 0.05
42 149 0.90
44 8 0.05
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:1113172 original size:21 final size:21
Alignment explanation
Indices: 1113143--1113195 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1113133 ATTTAGAAAA
*
1113143 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
1113164 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
1113185 TCGCGTTGCGA
1 TCGCGTTGCGA
1113196 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:1119489 original size:38 final size:38
Alignment explanation
Indices: 1119435--1119522 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
1119425 TAAGGGCCTA
1119435 CGGTAAGGACTTACCCTGTG-AACAAAGCAAAAGAGAATG
1 CGGTAAGGAC-TACCCTGTGTAA-AAAGCAAAAGAGAATG
* * *
1119474 CGGTAAAGACTACCCTGTGTAAAAAGCAAAGGAGCATG
1 CGGTAAGGACTACCCTGTGTAAAAAGCAAAAGAGAATG
1119512 CGGTAAGGACT
1 CGGTAAGGACT
1119523 TACAAGTCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 33 0.75
39 11 0.25
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (38 bp):
CGGTAAGGACTACCCTGTGTAAAAAGCAAAAGAGAATG
Found at i:1128484 original size:23 final size:21
Alignment explanation
Indices: 1128449--1128507 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1128439 TCATTATATA
*
1128449 TTTTTATCTTG-TTTTACTTATT
1 TTTTTATTTTGTTTTTAC-TA-T
1128471 TTTTTATTTATGTTTTTACTAT
1 TTTTTATTT-TGTTTTTACTAT
1128493 TTTTTA-TTTGTTTTT
1 TTTTTATTTTGTTTTT
1128508 CCTAGTGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.21
21 2 0.06
22 15 0.44
23 4 0.12
24 6 0.18
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTGTTTTTACTAT
Found at i:1128709 original size:17 final size:17
Alignment explanation
Indices: 1128660--1128721 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
1128650 TATGTATATA
* *
1128660 TATTATTCTTATTCTTAT
1 TATTATTTTTCTT-TTAT
* * * *
1128678 TCTTTTTTTTGTTTTTT
1 TATTATTTTTCTTTTAT
1128695 TATTATTTTTCTTTTAT
1 TATTATTTTTCTTTTAT
1128712 TATTATTTTT
1 TATTATTTTT
1128722 TCATTATTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 26 0.74
18 9 0.26
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (17 bp):
TATTATTTTTCTTTTAT
Found at i:1128711 original size:14 final size:13
Alignment explanation
Indices: 1128689--1128739 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
1128679 CTTTTTTTTG
1128689 TTTTTTTATTATT
1 TTTTTTTATTATT
1128702 TTTCTTTTATTATT
1 TTT-TTTTATTATT
*
1128716 ATTTTTTCATTATT
1 -TTTTTTTATTATT
*
1128730 TTGTTTTATT
1 TTTTTTTATT
1128740 TTATGTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 11 0.33
14 19 0.58
15 3 0.09
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTTTATTATT
Found at i:1135349 original size:64 final size:64
Alignment explanation
Indices: 1135242--1135536 Score: 466
Period size: 64 Copynumber: 4.6 Consensus size: 64
1135232 TGCAGCTTTT
* *
1135242 AGAGTCAATTTCGACTTCACAGCGAATGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
1135306 AAAGTTAATTTCAACTTCACAACGAAGGATATTTGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
1135370 AGAGCCAATTTCAACTTCATC-GCGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCA-CAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
1135434 AGAGTCAATTTCAACTTCACAGCGAACGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
1135498 AGAGTCAATTGCAACTTCACAGTGAAGTATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1135537 GAAACAATGC
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
63 1 0.00
64 208 0.99
65 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:1135847 original size:124 final size:123
Alignment explanation
Indices: 1135620--1135975 Score: 523
Period size: 124 Copynumber: 2.9 Consensus size: 123
1135610 GAAACAATCC
* * * *
1135620 TTGGATTTTAACTTCACAACGAATGATATCCAATTCAAAGCTCAACATCACAACGAAGGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCAT
* * *
1135685 CCACGATTTCAACTTCACAACGAAGAATATTGTTCCCACAAGTAGCATCCATCTCTAGA
66 CCACGATTTCAACTTCACAACGAAG-ATATCGTACCCACAAGAAGCATCCATCTCTAGA
* *
1135744 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACAAAAGAGTCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCAT
* * *
1135809 CCACGATTTCAACTTCACGACGAATGTTATCGTGCCCACAAGAAGCATCCATCTCTAGA
66 CCACGATTTCAACTTCACAACGAA-GATATCGTACCCACAAGAAGCATCCATCTCTAGA
* * * *
1135868 TTGGATTTCAACTTCACAACGAGGGATATGCAATTCAAAGCTCAACTTCACAGCGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCAT
* *
1135933 CCACGATTTCGACTTCACAACGAAGGATATCGTACCCAAAAGA
66 CCACGATTTCAACTTCACAACGAA-GATATCGTACCCACAAGA
1135976 TTGACCCAAC
Statistics
Matches: 208, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
124 207 1.00
125 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (123 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCAT
CCACGATTTCAACTTCACAACGAAGATATCGTACCCACAAGAAGCATCCATCTCTAGA
Found at i:1143205 original size:21 final size:21
Alignment explanation
Indices: 1143176--1143231 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1143166 ATCGATATTG
* *
1143176 TAATTGAAAAATGGGATTTCA
1 TAATGGAAAAATGGGATTCCA
1143197 TAATGGAAAAATGGGATTCCA
1 TAATGGAAAAATGGGATTCCA
*
1143218 TAATGCAAAAATGG
1 TAATGGAAAAATGG
1143232 TATCGATACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (21 bp):
TAATGGAAAAATGGGATTCCA
Found at i:1149217 original size:2 final size:2
Alignment explanation
Indices: 1149210--1149260 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1149200 AAACTAAAAT
1149210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1149252 TA TA TA TA T
1 TA TA TA TA T
1149261 TTAAATGCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1150993 original size:9 final size:8
Alignment explanation
Indices: 1150976--1151002 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1150966 AAAAAATAAT
1150976 AATAAAAA
1 AATAAAAA
1150984 AATAAAAA
1 AATAAAAA
1150992 AATAAAAA
1 AATAAAAA
1151000 AAT
1 AAT
1151003 GAATATAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:1152543 original size:84 final size:84
Alignment explanation
Indices: 1152447--1152802 Score: 382
Period size: 84 Copynumber: 4.3 Consensus size: 84
1152437 AATGTAATCA
** * *
1152447 AACTCGAAGGTCTTTGGTTGGCAGATAGTCCTTCTCGGCTTAAGCTATTCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
*
1152512 TTGGAGATGAGCGTAGTCG
66 TTGGAGCTGAGCGTAGTCG
* * * * * * * *
1152531 AACTCGAAGGTCTTTTGGTT-ACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGC
1 AACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-
* * * **
1152595 CCTCGAAGCTGAGTGTAACCG
64 CCTTGGAGCTGAGCGTAGTCG
* * *
1152616 AACTCGAGGGTC--T--TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
*
1152677 TTGGAGCTTAGCGTAGTC-
66 TTGGAGCTGAGCGTAGTCG
* * * * *
1152695 AAATGTGAAGGTCTTTTGATGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
1 AACT-CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1152760 CTTGGAGCTGAGCGTAGTCG
65 CTTGGAGCTGAGCGTAGTCG
* *
1152780 AACTCGAAGGCCTTTGGTGGGCA
1 AACTCGAAGGTCTTTGGTTGGCA
1152803 CGATTCCCTT
Statistics
Matches: 216, Mismatches: 47, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
79 3 0.01
80 22 0.10
81 34 0.16
82 2 0.01
84 119 0.55
85 36 0.17
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (84 bp):
AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
TTGGAGCTGAGCGTAGTCG
Found at i:1152667 original size:165 final size:164
Alignment explanation
Indices: 1152464--1152796 Score: 425
Period size: 165 Copynumber: 2.0 Consensus size: 164
1152454 AGGTCTTTGG
* * *
1152464 TTGGCAGATAGTCCTTCTCGGCTTAAGCTATTCTGCAAATGATGTGCCTTGGAGATGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGATGAGCGTAGT
* * * * * * *
1152529 CGAACT-CGAAGGTCTTTTGGTTACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
66 C-AAATGCGAAGGTCTTTTGATGACAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * *
1152593 GCCCTCGAAGCTGAGTGTAACCGAACTCGAGGGTCT
130 G-CCTCGAAGCTGAGCGTAACCGAACTCGAAGGCCT
* * *
1152629 TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGATGAGCGTAGT
* * * *
1152694 CAAATGTGAAGGTCTTTTGATGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
66 CAAATGCGAAGGTCTTTTGATGACAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* * **
1152759 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGCCT
131 CCTCGAAGCTGAGCGTAACCGAACTCGAAGGCCT
1152793 TTGG
1 TTGG
1152797 TGGGCACGAT
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
164 34 0.24
165 109 0.76
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (164 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGATGAGCGTAGT
CAAATGCGAAGGTCTTTTGATGACAAATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
CCTCGAAGCTGAGCGTAACCGAACTCGAAGGCCT
Found at i:1159341 original size:14 final size:14
Alignment explanation
Indices: 1159322--1159350 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1159312 AAATAATATA
1159322 TTATAATCATTTAT
1 TTATAATCATTTAT
1159336 TTATAATCATTTAT
1 TTATAATCATTTAT
1159350 T
1 T
1159351 ATATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATCATTTAT
Found at i:1159419 original size:22 final size:22
Alignment explanation
Indices: 1159350--1159422 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 22
1159340 AATCATTTAT
* *
1159350 TATATTTTAAATAATTAAAATAA
1 TATATTTTTAATAATT-AAAGAA
*
1159373 TATATTTTATAATAATT-TAG--
1 TATATTTT-TAATAATTAAAGAA
1159393 TATATTTTTAATAATTAAAGAA
1 TATATTTTTAATAATTAAAGAA
*
1159415 CATATTTT
1 TATATTTT
1159423 AACACTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.20
20 10 0.24
22 8 0.20
23 8 0.20
24 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
TATATTTTTAATAATTAAAGAA
Found at i:1169693 original size:16 final size:17
Alignment explanation
Indices: 1169666--1169700 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
1169656 TATCGCCGAC
1169666 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
1169683 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
1169699 CG
1 CG
1169701 TGAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:1174238 original size:16 final size:17
Alignment explanation
Indices: 1174211--1174245 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
1174201 TATCGCCGAC
1174211 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
1174228 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
1174244 CG
1 CG
1174246 TGAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:1183018 original size:20 final size:20
Alignment explanation
Indices: 1182990--1183042 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1182980 GAGTTCTCCG
* *
1182990 GAATGTTCTAGAAAATTCTA
1 GAATTTTCTAGAAAACTCTA
* * *
1183010 TACTTTTCTAGAAAGCTCTA
1 GAATTTTCTAGAAAACTCTA
1183030 GAATTTTCTAGAA
1 GAATTTTCTAGAA
1183043 CCTCTCCAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
GAATTTTCTAGAAAACTCTA
Found at i:1184095 original size:39 final size:39
Alignment explanation
Indices: 1184052--1184135 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
1184042 AACGGTGAAG
*
1184052 TAGGGAGTG-AGATGCGA-AGGAGAAATGAAAAAGGGGAAT
1 TAGGGAGTGAAG-GGCGAGAGGA-AAATGAAAAAGGGGAAT
* * **
1184091 TAGGGATTGAAGGGCGAGAGGAAAATGAGATTGGGGAAT
1 TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
1184130 TAGGGA
1 TAGGGA
1184136 TTATGGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.39, C:0.02, G:0.43, T:0.15
Consensus pattern (39 bp):
TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
Found at i:1189318 original size:39 final size:39
Alignment explanation
Indices: 1189275--1189358 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
1189265 AACGGTGAAG
*
1189275 TAGGGAGTG-AGATGCGA-AGGAGAAATGAAAAAGGGGAAT
1 TAGGGAGTGAAG-GGCGAGAGGA-AAATGAAAAAGGGGAAT
* * **
1189314 TAGGGATTGAAGGGCGAGAGGAAAATGAGATTGGGGAAT
1 TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
1189353 TAGGGA
1 TAGGGA
1189359 TTATGGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.39, C:0.02, G:0.43, T:0.15
Consensus pattern (39 bp):
TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
Found at i:1197570 original size:21 final size:22
Alignment explanation
Indices: 1197529--1197571 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1197519 CATTATTTTA
* *
1197529 TTGTTGTATGTTGATGACATGC
1 TTGTTGTAGGTTCATGACATGC
1197551 TTGTTGTAGGTTCA-GACATGC
1 TTGTTGTAGGTTCATGACATGC
1197572 AAGAGATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.42
Consensus pattern (22 bp):
TTGTTGTAGGTTCATGACATGC
Found at i:1200478 original size:14 final size:14
Alignment explanation
Indices: 1200440--1200479 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
1200430 ATGATTTGAG
1200440 GTTTTATGAGTTTAA
1 GTTTTATGAG-TTAA
*
1200455 GGTTTA-GAGTTAA
1 GTTTTATGAGTTAA
1200468 GTTTTATGAGTT
1 GTTTTATGAGTT
1200480 TTAAAGTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 8 0.36
15 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
GTTTTATGAGTTAA
Found at i:1212960 original size:31 final size:32
Alignment explanation
Indices: 1212902--1212966 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
1212892 AAATTAAAAT
*
1212902 CAAAGTTTGGCACCGCCGAGTATGCTTGTTTCAA
1 CAAAGTTTGGCA-C-CCGAGTATGCTTGGTTCAA
*
1212936 CAAAGTTTGGCA-CCGATTATGCTTGGTTCAA
1 CAAAGTTTGGCACCCGAGTATGCTTGGTTCAA
1212967 AGTTTGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.59
34 12 0.41
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (32 bp):
CAAAGTTTGGCACCCGAGTATGCTTGGTTCAA
Found at i:1213110 original size:8 final size:8
Alignment explanation
Indices: 1213097--1213123 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1213087 CTTCAAAATC
1213097 ATCCCAAA
1 ATCCCAAA
1213105 ATCCCAAA
1 ATCCCAAA
1213113 ATCCCAAA
1 ATCCCAAA
1213121 ATC
1 ATC
1213124 AATTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCCCAAA
Found at i:1218866 original size:36 final size:35
Alignment explanation
Indices: 1218810--1218943 Score: 180
Period size: 36 Copynumber: 3.7 Consensus size: 35
1218800 AGATGAACAA
* *
1218810 TTGAGTCGAAAGTGCTGATGCTTCATTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTC-TTCCGTTCACT
* *
1218846 TTGAATCGAAAGTGCCGATGCTTTCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGC-TTCTTCCGTTCACT
1218881 CTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTT-CTTCCGTTCACT
*
1218918 TTGAATCGAAAGTGCTGATGCTTCTT
1 TTGAATCGAAAGTGCCGATGCTTCTT
1218944 TTCGTACTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
35 6 0.07
36 77 0.89
37 4 0.05
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCTTCCGTTCACT
Found at i:1218932 original size:72 final size:72
Alignment explanation
Indices: 1218810--1218955 Score: 231
Period size: 72 Copynumber: 2.0 Consensus size: 72
1218800 AGATGAACAA
* *
1218810 TTGAGTCGAAAGTGCTGATGCTTCATTCCGTTCACTTTGAATCGAAAGTGCCGATGCTT-TCTTT
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCT-TTT
*
1218874 CGTTCTTC
65 CGTACTTC
* *
1218882 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCTGATGCTTCTTTTC
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCTTTTC
1218947 GTACTTC
66 GTACTTC
1218954 TT
1 TT
1218956 ATTCACCTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 67 0.99
73 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (72 bp):
TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCTTTTC
GTACTTC
Found at i:1218965 original size:24 final size:21
Alignment explanation
Indices: 1218951--1218990 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1218941 CTTTTCGTAC
*
1218951 TTCTTATTCACCTTCATTTCT
1 TTCTTATTCACCTTCTTTTCT
* *
1218972 TTCTTCTTCACCCTCTTTT
1 TTCTTATTCACCTTCTTTT
1218991 ACAAGGTTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (21 bp):
TTCTTATTCACCTTCTTTTCT
Found at i:1224218 original size:25 final size:25
Alignment explanation
Indices: 1224184--1224245 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
1224174 CTTTTCGTAA
1224184 CAAACCAAGGAAATAACCGGGTTTT
1 CAAACCAAGGAAATAACCGGGTTTT
1224209 CAAACCAAGGAAATAACCGGGTTTT
1 CAAACCAAGGAAATAACCGGGTTTT
1224234 CAAACCAAGGAA
1 CAAACCAAGGAA
1224246 TCGTTCAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (25 bp):
CAAACCAAGGAAATAACCGGGTTTT
Found at i:1232644 original size:211 final size:215
Alignment explanation
Indices: 1232266--1232736 Score: 578
Period size: 211 Copynumber: 2.2 Consensus size: 215
1232256 TCGGACAGGG
* * * *
1232266 TGTTTTCATATGATTTTCAAAATATAAGAAAGCGATTTCCAAAACTTCCCATTTAAATCTTTTCT
1 TGTTTTCACATGATTTTCAAAAAATAAGAAAGCAATTTCCAAAACTTCCCATTTAAATATTTTCT
1232331 AAAAAATTGATTTTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTATTACTTAGTAAGTCCCTCG
66 AAAAAATTGA-TTTTT----A-TAAGAAAATGATTTCCAAAGTTTATTACTTAGTAAGTCCCTCG
* * *
1232396 AGCCATCACTAAATCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG-TTTCTAAAG
125 AGCCATCACTAAATCTTTCGAGCATGATGCATAAATCCTTCGGGTCAACTATAAGCTTTC--AAG
1232460 CAAGATGATAAGTCCTTTGGG-CA-GA-A
188 CAAGATGATAAGTCC-TTGGGCCACGATA
* * **
1232486 TGTTTTCACATGATTTTCAAAAAATGAGAAAGCAATTTCCAAAGCTTCTTATTTAAATATTTTCT
1 TGTTTTCACATGATTTTCAAAAAATAAGAAAGCAATTTCCAAAACTTCCCATTTAAATATTTTCT
* * * * *
1232551 -TAAAATTGA-TTTT-TAAGAAAATGATTTCCAAAGTTTCTTGCTTAGTAAGTCCTTCGGGCCAT
66 AAAAAATTGATTTTTATAAGAAAATGATTTCCAAAGTTTATTACTTAGTAAGTCCCTCGAGCCAT
* * *
1232613 CAGTAAGTCTTTCGAGCATGATGCATAAATCCTTTGGGTCAACTATAAGCCTTTCAAGCAAGATG
131 CACTAAATCTTTCGAGCATGATGCATAAATCCTTCGGGTCAACTATAAG-CTTTCAAGCAAGATG
1232678 ATAAGTCCTTGGGCCATCGATA
195 ATAAGTCCTTGGGCCA-CGATA
*
1232700 AGACCTTTTTCACATGATTTTCAAAAAATAAGAAAGC
1 TG----TTTTCACATGATTTTCAAAAAATAAGAAAGC
1232737 GGTTTTCAAA
Statistics
Matches: 220, Mismatches: 21, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
210 5 0.02
211 108 0.49
213 6 0.03
214 2 0.01
217 4 0.02
218 30 0.14
219 8 0.04
220 57 0.26
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (215 bp):
TGTTTTCACATGATTTTCAAAAAATAAGAAAGCAATTTCCAAAACTTCCCATTTAAATATTTTCT
AAAAAATTGATTTTTATAAGAAAATGATTTCCAAAGTTTATTACTTAGTAAGTCCCTCGAGCCAT
CACTAAATCTTTCGAGCATGATGCATAAATCCTTCGGGTCAACTATAAGCTTTCAAGCAAGATGA
TAAGTCCTTGGGCCACGATA
Found at i:1233153 original size:131 final size:132
Alignment explanation
Indices: 1233009--1233341 Score: 375
Period size: 131 Copynumber: 2.5 Consensus size: 132
1232999 GAAGACAAGA
* * * *
1233009 GAACAAGTCTGCCTTGATTTAATATTCCTTGAAGAATAGTGGAATGAATCAACATTTCCAGATCT
1 GAACAAGTATGCCTCGATTCAATCTTCC-TGAAGAATAGTGGAATGAATCAACATTTCCAGATCT
* * * * * * **
1233074 GATCTACCGTGAAGAGTAGTGGAGCATA-TCCTTTTTTT-CAGAGTTGATCTTCCCCGAGGAGCA
65 GATCTACCCTGAAGAGCAGAGGAACAGATTCCTTTTTTTCCAGAGTTGATCTTCCCCAAGGAAAA
1233137 GTG
130 GTG
* * *
1233140 GAACAAGTATGCCTCGGTTCAATCTTCACTGAAGAATAGTAGAATGAATCAACGTTTCCAGATCT
1 GAACAAGTATGCCTCGATTCAATCTTC-CTGAAGAATAGTGGAATGAATCAACATTTCCAGATCT
* * *
1233205 GATCTACCCTGAAGAGCAGAGGAATAGATTCCTTTTTTTCCCAGATTTGATCTTCCCTAAGGAAA
65 GATCTACCCTGAAGAGCAGAGGAACAGATTCCTTTTTTT-CCAGAGTTGATCTTCCCCAAGGAAA
1233270 AGTG
129 AGTG
* * * * * * *
1233274 GAACACGTATGTCTCAATTCAATCTTCCATGAATAACAGTGGAATAAACCAA-AGTTTCCAGATC
1 GAACAAGTATGCCTCGATTCAATCTTCC-TGAAGAATAGTGGAATGAATCAACA-TTTCCAGATC
1233338 TGAT
64 TGAT
1233342 TGTCAGCGAT
Statistics
Matches: 168, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
131 78 0.46
132 11 0.07
133 1 0.01
134 78 0.46
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
GAACAAGTATGCCTCGATTCAATCTTCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTG
ATCTACCCTGAAGAGCAGAGGAACAGATTCCTTTTTTTCCAGAGTTGATCTTCCCCAAGGAAAAG
TG
Found at i:1233331 original size:134 final size:131
Alignment explanation
Indices: 1233038--1233341 Score: 351
Period size: 134 Copynumber: 2.3 Consensus size: 131
1233028 TAATATTCCT
* * * * * *
1233038 TGAAGAATAGTGGAATGAATCAACA-TTTCCAGATCTGATCTACCGTGAAGAGTAGTGGAGCATA
1 TGAAGAACAGTGGAATGAATCAA-AGTTTCCAGATCTGATCTACCCTGAAGAGCAGAGGAACAGA
* ** **
1233102 TCCTTTTTTTCAGAGTTGATCTTCCCCGAGGAGCAGTGGAACAAGTATGCCTCGGTTCAATCTTC
65 TCCTTTTTTTCAGAGTTGATCTTCCCCAAGGAAAAGTGGAACAAGTATGCCTCAATTCAATCTTC
1233167 AC
130 AC
* * * *
1233169 TGAAGAATAGTAGAATGAATCAACGTTTCCAGATCTGATCTACCCTGAAGAGCAGAGGAATAGAT
1 TGAAGAACAGTGGAATGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGAGCAGAGGAACAGA-
* * * *
1233234 TCCTTTTTTTCCCAGATTTGATCTTCCCTAAGGAAAAGTGGAACACGTATGTCTCAATTCAATCT
65 TCCTTTTTTT--CAGAGTTGATCTTCCCCAAGGAAAAGTGGAACAAGTATGCCTCAATTCAATCT
1233299 TC-C
128 TCAC
* * *
1233302 ATGAATAACAGTGGAATAAACCAAAGTTTCCAGATCTGAT
1 -TGAAGAACAGTGGAATGAATCAAAGTTTCCAGATCTGAT
1233342 TGTCAGCGAT
Statistics
Matches: 145, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
131 55 0.38
132 10 0.07
133 1 0.01
134 79 0.54
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (131 bp):
TGAAGAACAGTGGAATGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGAGCAGAGGAACAGAT
CCTTTTTTTCAGAGTTGATCTTCCCCAAGGAAAAGTGGAACAAGTATGCCTCAATTCAATCTTCA
C
Found at i:1235079 original size:20 final size:20
Alignment explanation
Indices: 1235050--1235088 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1235040 TTTCCACCAC
*
1235050 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
1235070 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
1235089 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1235542 original size:133 final size:131
Alignment explanation
Indices: 1235171--1235704 Score: 683
Period size: 132 Copynumber: 4.0 Consensus size: 131
1235161 ATCTACCCAA
* * * * *
1235171 AAGAGCAGCAGAGCAGATCCCCTTTTTCCAGATTTAATCTTCCCTGAGAAGAAGTGGAACAAGTT
1 AAGAGCAGCAGAGCAGATCCCTTTTTTCCATATTTGATCTTCCCTGAGGAGAA-TGGAACAAGTC
* * * *
1235236 TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAATGTTTCCAAATCTAATCTACCC
65 TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
1235301 TG
130 TG
* * * * *
1235303 AAGAGCAGTAGAACATATCCCTTTTTTCCAAATTTGATCTTCCCTGAGGAGTAGTGGAACAAGTC
1 AAGAGCAGCAGAGCAGATCCCTTTTTTCCATATTTGATCTTCCCTGAGGAG-AATGGAACAAGTC
* * * * *
1235368 TGACTCGGTTTAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTCTAGATCTGATATACCC
65 TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
1235433 TG
130 TG
* * *
1235435 AAGAGCAGCGGAGCAGATCCCTTTTTTTTCCATATTTGATCTTGCATGAGGAGCAATGGAACAA-
1 AAGAGCAGCAGAGCAGATCCC--TTTTTTCCATATTTGATCTTCCCTGAGGAG-AATGGAACAAG
* * * * *
1235499 TATGCCTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTTTCCAGATCTGATCTAA
63 TCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATAC
1235564 CCTG
128 CCTG
* * * * *
1235568 AAGAGCAGCGGATCAGATCCCCTTTTTTCCATATTTGATCTTCCCTAAGGAAGAGTGGAACAAAT
1 AAGAGCAGCAGAGCAGAT-CCCTTTTTTCCATATTTGATCTTCCCTGAGG-AGAATGGAACAAGT
* * *
1235633 CTACCTCGATTCAATCTTACATGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACC
64 CTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACC
1235698 CTG
129 CTG
1235701 AAGA
1 AAGA
1235705 ACAGTGGAAT
Statistics
Matches: 348, Mismatches: 48, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
132 163 0.47
133 146 0.42
134 39 0.11
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (131 bp):
AAGAGCAGCAGAGCAGATCCCTTTTTTCCATATTTGATCTTCCCTGAGGAGAATGGAACAAGTCT
GCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCCT
G
Found at i:1235660 original size:266 final size:264
Alignment explanation
Indices: 1235171--1235704 Score: 743
Period size: 266 Copynumber: 2.0 Consensus size: 264
1235161 ATCTACCCAA
* *
1235171 AAGAGCAGCAGAGCAGATCCCCTTTTTCCAGATTTAATCTTCCCTGAGAAGAAGTGGAACAAGTT
1 AAGAGCAGCAGAGCAGATCCCCTTTTTCCAGATTTAATCTTCCATGAGAAGAAGTGGAACAAGTA
* *
1235236 TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAATGTTTCCAAATCTAATCTACCC
66 TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAAATCTAATCTAACC
* * * *
1235301 TGAAGAGCAGTAGAACATATCCCTTTTTTCCAAATTTGATCTTCCCTGAGGAGTAGTGGAACAAG
131 TGAAGAGCAGCAGAACAGATCCCTTTTTTCCAAATTTGATCTTCCCTAAGGAGTAGTGGAACAAA
* * * * * *
1235366 TCTGACTCGGTTTAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTTTCTAGATCTGATATAC
196 TCTGACTCGATTCAATCTTACATGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATAC
1235431 CCTG
261 CCTG
* * * * * *
1235435 AAGAGCAGCGGAGCAGATCCCTTTTTTTTCCATATTTGATCTTGCATGAGGAGCAA-TGGAACAA
1 AAGAGCAGCAGAGCAGATCCC--CTTTTTCCAGATTTAATCTTCCATGAGAAG-AAGTGGAACAA
* * * *
1235499 -TATGCCTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTTTCCAGATCTGATCTA
63 GTATGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAAATCTAATCTA
* * *
1235563 ACCTGAAGAGCAGCGGATCAGATCCCCTTTTTTCCATATTTGATCTTCCCTAAGGAAG-AGTGGA
128 ACCTGAAGAGCAGCAGAACAGAT-CCCTTTTTTCCAAATTTGATCTTCCCTAAGG-AGTAGTGGA
1235627 ACAAATCT-ACCTCGATTCAATCTTACATGAAGAACAATGGAATGAATCAACGTTTCCAGATCTG
191 ACAAATCTGA-CTCGATTCAATCTTACATGAAGAACAATGGAATGAATCAACGTTTCCAGATCTG
1235691 ATATACCCTG
255 ATATACCCTG
1235701 AAGA
1 AAGA
1235705 ACAGTGGAAT
Statistics
Matches: 237, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
264 20 0.08
265 77 0.32
266 136 0.57
267 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (264 bp):
AAGAGCAGCAGAGCAGATCCCCTTTTTCCAGATTTAATCTTCCATGAGAAGAAGTGGAACAAGTA
TGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTTTCCAAATCTAATCTAACC
TGAAGAGCAGCAGAACAGATCCCTTTTTTCCAAATTTGATCTTCCCTAAGGAGTAGTGGAACAAA
TCTGACTCGATTCAATCTTACATGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATAC
CCTG
Found at i:1235705 original size:45 final size:45
Alignment explanation
Indices: 1235654--1235749 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
1235644 CAATCTTACA
1235654 TGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
1 TGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
* * * * *
1235699 TGAAGAACAGTGGAATGAATCAATGTTTCCATATCTGATCTACCT
1 TGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
1235744 TGAAGA
1 TGAAGA
1235750 GCAGCGGAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (45 bp):
TGAAGAACAATGGAATGAATCAACGTTTCCAGATCTGATATACCC
Found at i:1235851 original size:177 final size:178
Alignment explanation
Indices: 1235518--1235881 Score: 477
Period size: 177 Copynumber: 2.1 Consensus size: 178
1235508 ATTCAATCTT
*
1235518 CCCTGAAGAATAGTGGAATGAATCAACGTTTCCAGATCTGATCTAACCTGAAGAGCAGCGGATCA
1 CCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGATCTGATCTAACCTGAAGAGCAGCGGATCA
* * *
1235583 GATCCCCTTTTTTCCATATTTGATCTTCCCTAAGGAAGAGTGGAACAAATCTACCTCGATTCAAT
66 GATCCCATTTTTTCCAGATTTGATCTTCCCTAAGGAAGAGTGGAACAAATCTACATCGATTCAAT
* * * *
1235648 CTTACATGAAGAACAATGGAATGAATCAAC-GTTTCCAGATCTGATATA
131 ATTACATAAAGAACAATGGAATGAATCAACAATTT-CAGATATGATATA
* *
1235696 CCCTGAAGAACAGTGGAATGAATCAATGTTTCCATATCTGATCT-ACCTTGAAGAGCAGCGGAGT
1 CCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGATCTGATCTAACC-TGAAGAGCAGCGGA-T
* * * *
1235760 -AGAT-CGATTTTTTCCAGATTTGATCTTCTCTGAGG-AGCAGTGGAACAAATCTATATCGATTC
64 CAGATCCCATTTTTTCCAGATTTGATCTTCCCTAAGGAAG-AGTGGAACAAATCTACATCGATTC
* * * * * *
1235822 AATATTCCCTAAAGAGCACTGGAATGAATCAACAATTTCATATATGATCTA
128 AATATTACATAAAGAACAATGGAATGAATCAACAATTTCAGATATGATATA
1235873 CCCTGAAGA
1 CCCTGAAGA
1235882 GAAGCGAAGC
Statistics
Matches: 162, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
176 2 0.01
177 97 0.60
178 62 0.38
179 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (178 bp):
CCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGATCTGATCTAACCTGAAGAGCAGCGGATCA
GATCCCATTTTTTCCAGATTTGATCTTCCCTAAGGAAGAGTGGAACAAATCTACATCGATTCAAT
ATTACATAAAGAACAATGGAATGAATCAACAATTTCAGATATGATATA
Found at i:1236004 original size:132 final size:132
Alignment explanation
Indices: 1235698--1236035 Score: 365
Period size: 132 Copynumber: 2.6 Consensus size: 132
1235688 CTGATATACC
* * * *
1235698 CTGAAGAACAGTGGAATGAATCAATGTTTCCATATCTGATCTACCTTGAAGAGCAGCGGAGTAGA
1 CTGAAGAACAGTGGAATGAATCAATGTTTTCATATCTGATCTACCCTGAAGAGCAGCGGAGCAAA
* *
1235763 TCGATTTTTTCCAGATTTGATCTTCTCTGAGGAGCAGTGGAACAAATCTATATCGATTCAATATT
66 TCCATTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTATATCGATTCAATATT
*
1235828 CC
131 CA
* * * *** * * *
1235830 CTAAAGAGCACTGGAATGAATCAACAATTTCATATATGATCTACCCTGAAGAGAAGCGAAGCAAA
1 CTGAAGAACAGTGGAATGAATCAATGTTTTCATATCTGATCTACCCTGAAGAGCAGCGGAGCAAA
* * * * *
1235895 TCCTTTTTTTCCAGATTTGATCTTCCCTGGGGAGTAGTGGAA-AAAGTCTGA-CTCGATTCAATC
66 TCCATTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAA-TCT-ATATCGATTCAATA
1235958 TTCA
129 TTCA
* * * * * * * *
1235962 CTGAAGAATAGTGGAGTAAATCAATGTTTTGAGATCTTATCTACCCCGAAAAGCAGCGGAGCAAA
1 CTGAAGAACAGTGGAATGAATCAATGTTTTCATATCTGATCTACCCTGAAGAGCAGCGGAGCAAA
* *
1236027 CCCCTTTTT
66 TCCATTTTT
1236036 AGATTTCATC
Statistics
Matches: 164, Mismatches: 40, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
131 3 0.02
132 160 0.98
133 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (132 bp):
CTGAAGAACAGTGGAATGAATCAATGTTTTCATATCTGATCTACCCTGAAGAGCAGCGGAGCAAA
TCCATTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTATATCGATTCAATATT
CA
Found at i:1236248 original size:3 final size:3
Alignment explanation
Indices: 1236225--1236269 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
1236215 CTGACATTTC
* *
1236225 ATT AAT ATT ATA ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1236270 CATTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1241618 original size:35 final size:35
Alignment explanation
Indices: 1241572--1241641 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1241562 TCTTAGCCGC
1241572 TCTCCCCCTATCTTCTTACATATTACACTAACCAT
1 TCTCCCCCTATCTTCTTACATATTACACTAACCAT
1241607 TCTCCCCCTATCTTCTTACATATTACACTAACCAT
1 TCTCCCCCTATCTTCTTACATATTACACTAACCAT
1241642 AATGTAAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (35 bp):
TCTCCCCCTATCTTCTTACATATTACACTAACCAT
Found at i:1243494 original size:31 final size:31
Alignment explanation
Indices: 1243456--1243519 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1243446 ATTGTTTTGA
*
1243456 CACTAAACTTTAGATAAAATATCATTTTAAC
1 CACTAAACTTTAGATAAAATATCAATTTAAC
* *
1243487 CACTAAACTTTAGTTAAAATATCAATTTGAC
1 CACTAAACTTTAGATAAAATATCAATTTAAC
1243518 CA
1 CA
1243520 AAGTCTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (31 bp):
CACTAAACTTTAGATAAAATATCAATTTAAC
Found at i:1244869 original size:43 final size:43
Alignment explanation
Indices: 1244822--1245167 Score: 464
Period size: 43 Copynumber: 8.1 Consensus size: 43
1244812 ATAGGTATTG
*
1244822 GTATTTAGCGGCGTTTGTCTTTACAAACGCCTCTATTGACTGT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* * * *
1244865 GTATTTAGCGGCGTTTATCTTTATAAACACCGCTATTAACTGT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* * *
1244908 GTATTTAGCGGCGTTTGGCTTTATAAACGCCGCTATTGACTTT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* * *
1244951 GTA-TTAGCGGCATTTATCTTTACAAACGCCGCTATTGATTGT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* * * *
1244993 GCATTTAGCGGCATTT-TCTTTATAAACGCCGCTATTGATTGT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* * *
1245035 ATATTTAGCGGCGTTTGTCTTTATAAACGCCGCTATTGACTTT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* *
1245078 ATATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGATTGT
1 GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
* *
1245121 GCT-TTTAGCGGCGTTTTTCTTTACAAACGCCGCTATTGACTAT
1 G-TATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
1245164 GTAT
1 GTAT
1245168 ATAATGTCAT
Statistics
Matches: 269, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
42 74 0.28
43 194 0.72
44 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (43 bp):
GTATTTAGCGGCGTTTGTCTTTACAAACGCCGCTATTGACTGT
Found at i:1245077 original size:21 final size:21
Alignment explanation
Indices: 1245010--1245080 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
1245000 GCGGCATTTT
1245010 CTTTATAAACGCCGCTATTGA
1 CTTTATAAACGCCGCTATTGA
* * *
1245031 -TTGTATATTTA-GCGGCGT-TTGT
1 CTT-TATA--AACGCCGC-TATTGA
1245053 CTTTATAAACGCCGCTATTGA
1 CTTTATAAACGCCGCTATTGA
1245074 CTTTATA
1 CTTTATA
1245081 TTTAGCGGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 18 0.49
22 11 0.30
23 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (21 bp):
CTTTATAAACGCCGCTATTGA
Found at i:1248071 original size:16 final size:16
Alignment explanation
Indices: 1248008--1248075 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
1247998 TAACCAACAG
1248008 TTCCAAACATCACAAT
1 TTCCAAACATCACAAT
*
1248024 TTCC--ATATCACAAT
1 TTCCAAACATCACAAT
*
1248038 TTACC--TCATC-CAACAT
1 TT-CCAAACATCAC-A-AT
1248054 TTCCAAACATCACAAT
1 TTCCAAACATCACAAT
1248070 TTCCAA
1 TTCCAA
1248076 CAGTTCCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 12 0.29
15 8 0.19
16 16 0.38
17 5 0.12
18 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TTCCAAACATCACAAT
Found at i:1250397 original size:41 final size:41
Alignment explanation
Indices: 1250340--1250681 Score: 351
Period size: 41 Copynumber: 8.3 Consensus size: 41
1250330 TGTTTGTTCA
1250340 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * *
1250381 AAAAACGCCACGAAAGTACTAGT-CTATAGAGGCGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
*
1250421 CAAAAACGCCACTAAAGTATAGTACTTTAGCGGCGTTTGTAT
1 -AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * *
1250463 AAAAACGCAACAAAAGTACTAGT-CTATAGCGGCGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
* * *
1250503 CAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTTTT
1 --AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-TAT
* ** * * *
1250547 GAAAACGCCACTAAAG-ATTGTATTTTGGCGGCGTTTGTAG
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1250587 AAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * * *
1250627 AAAAGCGCCACAAAAGTATTAGTA-TTTAGCGGCGTTTAT-T
1 AAAAACGCCACTAAAGTA-CAGTACTTTAGCGGCGTTTGTAT
1250667 CAAAAAACGCCACTA
1 --AAAAACGCCACTA
1250682 GAAATGCCGC
Statistics
Matches: 251, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
40 55 0.22
41 127 0.51
42 67 0.27
43 1 0.00
44 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
Found at i:1250454 original size:82 final size:83
Alignment explanation
Indices: 1250316--1250681 Score: 476
Period size: 82 Copynumber: 4.4 Consensus size: 83
1250306 TCTGTCATTC
*
1250316 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
*
1250381 AAAAACGCCACGAAAGTA
66 AAAAACGCCACAAAAGTA
* *
1250399 CTAGTCTATAGAGGCGTTTGTTC-AAAAACGCCACTAAAGTATAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
*
1250463 AAAAACGCAACAAAAGTA
66 AAAAACGCCACAAAAGTA
* *
1250481 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-T
* * *
1250545 TTGAAAACGCCACTAAAG-A
64 ATAAAAACGCCACAAAAGTA
* * * *
1250564 -TTGTATTTTGGCGGCGTTTG-T-AGAAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGT
1 CTAGT-CTATAGCGGCGTTTGTTCA-AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGT
*
1250625 ATAAAAGCGCCACAAAAGTA
64 ATAAAAACGCCACAAAAGTA
* * * *
1250645 TTAGTATTTAGCGGCGTTTATTCAAAAAACGCCACTA
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTA
1250682 GAAATGCCGC
Statistics
Matches: 246, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
80 15 0.06
81 29 0.12
82 118 0.48
83 66 0.27
84 18 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
AAAAACGCCACAAAAGTA
Found at i:1250544 original size:124 final size:121
Alignment explanation
Indices: 1250340--1250681 Score: 452
Period size: 124 Copynumber: 2.8 Consensus size: 121
1250330 TGTTTGTTCA
* *
1250340 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCCACGAAAGTACTAGTC
1 AAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGTATAAAAACGCCACAAAAGTACTAGTA
* *
1250405 TATAGAGGCGTTTGTTCAAAAACGCCACTAAAGTATAGTACTTTAGCGGCGTTTGTAT
65 TATAGCGGCGTTTGTTCAAAAACGCCACTAAAG-ATAGTACTTTAGCGGCGTTTGTAG
* * * * *
1250463 AAAAACGCAACAAAAGTACTAGTCTATAGCGGCGTTTGT-TCAAAAAACGCCACTAAAGTACTAA
1 AAAAACGCCACTAAAGTAC-AGTCTTTAGCGGCGTTTGTAT--AAAAACGCCACAAAAGTACTAG
** * * *
1250527 TATATAGCGGCGTTTGTTTTGAAAACGCCACTAAAGATTGTATTTTGGCGGCGTTTGTAG
63 TATATAGCGGCGTTTG-TTCAAAAACGCCACTAAAGATAGTACTTTAGCGGCGTTTGTAG
* *
1250587 AAAAACGCCACTAAAGTACAGTCTTTAGCGGCGTTTGTATAAAAGCGCCACAAAAGTATTAGTAT
1 AAAAACGCCACTAAAGTACAGTCTTTAGCGGCGTTTGTATAAAAACGCCACAAAAGTACTAGTAT
* *
1250652 TTAGCGGCGTTTATTCAAAAAACGCCACTA
66 ATAGCGGCGTTTGTTC-AAAAACGCCACTA
1250682 GAAATGCCGC
Statistics
Matches: 189, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
121 2 0.01
122 45 0.24
123 50 0.26
124 75 0.40
125 17 0.09
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (121 bp):
AAAAACGCCACTAAAGTACAGTCTTTAGCGGCGTTTGTATAAAAACGCCACAAAAGTACTAGTAT
ATAGCGGCGTTTGTTCAAAAACGCCACTAAAGATAGTACTTTAGCGGCGTTTGTAG
Found at i:1250593 original size:165 final size:164
Alignment explanation
Indices: 1250316--1250681 Score: 495
Period size: 165 Copynumber: 2.2 Consensus size: 164
1250306 TCTGTCATTC
* * *
1250316 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
* *
1250381 AAAAACGCCACGAAAGTACTAGTCTATAGAGGCGTTTGTTCAAAAACGCCACTAAAGTATAGTAC
66 AAAAACGCCACGAAAGTACTAGTCTATAGAGGCGTTTGTACAAAAACGCCACTAAAGTACAGT-C
1250446 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
130 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
1250481 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTAC-AATACTATAGCGGCGTTTG-T
* * * * * * * * *
1250545 TTGAAAACGCCACTAAAG-A-TTGTATTTTGGCGGCGTTTGTAGAAAAACGCCACTAAAGTACAG
64 ATAAAAACGCCACGAAAGTACTAGT-CTATAGAGGCGTTTGTACAAAAACGCCACTAAAGTACAG
* *
1250608 TCTTTAGCGGCGTTTGTATAAAAGCGCCACAAAAGTA
128 TCTTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
* * * *
1250645 TTAGTATTTAGCGGCGTTTATTCAAAAAACGCCACTA
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTA
1250682 GAAATGCCGC
Statistics
Matches: 178, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
164 70 0.39
165 89 0.50
166 19 0.11
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (164 bp):
CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
AAAAACGCCACGAAAGTACTAGTCTATAGAGGCGTTTGTACAAAAACGCCACTAAAGTACAGTCT
TTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
Found at i:1252347 original size:14 final size:14
Alignment explanation
Indices: 1252296--1252479 Score: 103
Period size: 15 Copynumber: 12.4 Consensus size: 14
1252286 TATATGTATG
*
1252296 TTATATAGTACATA
1 TTATATAGTATATA
* *
1252310 GTAT-TA-TATTACA
1 TTATATAGTA-TATA
* *
1252323 TTACATAGTATGTA
1 TTATATAGTATATA
1252337 TTATAGT-GTATATA
1 TTATA-TAGTATATA
1252351 TTATATAGTATATA
1 TTATATAGTATATA
*
1252365 TTATATTATATATACTA
1 TTATA-TA-GTATA-TA
1252382 TATATTATAGTATATA
1 T-TA-TATAGTATATA
*
1252398 TTATGTAGTTATTATA
1 TTATATAG-TA-TATA
1252414 TTATATTA-TATTATA
1 TTATA-TAGTA-TATA
1252429 TTATATTA-TATTATA
1 TTATA-TAGTA-TATA
1252444 TTATATTA-TATTATA
1 TTATA-TAGTA-TATA
1252459 TTATATTA-TATTATA
1 TTATA-TAGTA-TATA
1252474 TTATAT
1 TTATAT
1252480 TATTATTTTT
Statistics
Matches: 144, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.01
13 7 0.05
14 39 0.27
15 66 0.46
16 15 0.10
17 9 0.06
18 4 0.03
19 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.53
Consensus pattern (14 bp):
TTATATAGTATATA
Found at i:1252358 original size:28 final size:28
Alignment explanation
Indices: 1252322--1252469 Score: 92
Period size: 28 Copynumber: 5.2 Consensus size: 28
1252312 ATTATATTAC
* *
1252322 ATTACATAGTATGTATTATAGTGTATAT
1 ATTATATAGTATGTATTATAGTATATAT
* *
1252350 ATTATATAGTATATATTATATTATATAT
1 ATTATATAGTATGTATTATAGTATATAT
* * *
1252378 ACTATATATTATAGTA-TATA-T-TATGT
1 ATTATATAGTAT-GTATTATAGTATATAT
* *
1252404 AGTTAT-TA-TATTATATTATATTATATTAT
1 A-TTATATAGTA-TGTATTATAGTATA-TAT
* *
1252433 ATTATATTA-TATTATATTATATTATATTAT
1 ATTATA-TAGTA-TGTATTATAGTATA-TAT
1252463 ATTATAT
1 ATTATAT
1252470 TATATTATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
25 4 0.04
26 12 0.12
27 5 0.05
28 44 0.44
29 6 0.06
30 29 0.29
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (28 bp):
ATTATATAGTATGTATTATAGTATATAT
Found at i:1252369 original size:5 final size:5
Alignment explanation
Indices: 1252347--1252482 Score: 172
Period size: 5 Copynumber: 26.6 Consensus size: 5
1252337 TTATAGTGTA
1252347 TATAT TATA- TAGTA- TATAT TATAT TATA- TATACT ATATAT TATAGT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATA-T
*
1252393 ATATAT TAT-G TAGTTAT TATAT TATAT TATAT TATAT TATAT TATAT
1 -TATAT TATAT TA--TAT TATAT TATAT TATAT TATAT TATAT TATAT
1252440 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1252483 TATTTTTGGT
Statistics
Matches: 119, Mismatches: 2, Indels: 20
0.84 0.01 0.14
Matches are distributed among these distances:
4 10 0.08
5 95 0.80
6 4 0.03
7 10 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:1255004 original size:24 final size:23
Alignment explanation
Indices: 1254961--1255009 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
1254951 CTTTATTCAA
*
1254961 ATTTTTAAAAAAACATTAAATATT
1 ATTTTTAAAAAAACAATAAAT-TT
1254985 ATTTTTGAAAAAAA-AATAAATTT
1 ATTTTT-AAAAAAACAATAAATTT
1255008 AT
1 AT
1255010 AAAAAGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTTTTAAAAAAACAATAAATTT
Found at i:1261848 original size:5 final size:5
Alignment explanation
Indices: 1261838--1261940 Score: 66
Period size: 5 Copynumber: 19.8 Consensus size: 5
1261828 TCGTTCTATT
* * **
1261838 TTTTA TTTTA TTTCA TTTTA TTTTCG TTTTA TTTTTA TTTTA TTTT- TTAGCAAA
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTTA TT---TTA
* * * *
1261892 CTTTA TTTTCA TTCTA -TTTA TTTTA TTTTA ATTAA TTTTA TTTTA TTTT
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1261941 TCTCTGAACA
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
4 5 0.07
5 55 0.74
6 13 0.18
8 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:1261859 original size:22 final size:22
Alignment explanation
Indices: 1261825--1261886 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
1261815 GAGGCAACTC
* *
1261825 ATTTCGTTCTATTTTTTATTTT
1 ATTTCATTTTATTTTTTATTTT
**
1261847 ATTTCATTTTA-TTTTCGTTTT
1 ATTTCATTTTATTTTTTATTTT
*
1261868 ATTTTTATTTTATTTTTTA
1 A-TTTCATTTTATTTTTTA
1261887 GCAAACTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 9 0.29
22 18 0.58
23 4 0.13
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (22 bp):
ATTTCATTTTATTTTTTATTTT
Found at i:1261884 original size:11 final size:11
Alignment explanation
Indices: 1261837--1261884 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
1261827 TTCGTTCTAT
1261837 TTTTTATTTTA
1 TTTTTATTTTA
*
1261848 -TTTCATTTTA
1 TTTTTATTTTA
**
1261858 TTTTCGTTTTA
1 TTTTTATTTTA
1261869 TTTTTATTTTA
1 TTTTTATTTTA
1261880 TTTTT
1 TTTTT
1261885 TAGCAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:1262120 original size:14 final size:15
Alignment explanation
Indices: 1262101--1262133 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1262091 TTCGAACAAT
1262101 ACAGTGCAG-AAAAA
1 ACAGTGCAGTAAAAA
*
1262115 ACAGTGTAGTAAAAA
1 ACAGTGCAGTAAAAA
1262130 ACAG
1 ACAG
1262134 ATTTGGTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.12, G:0.21, T:0.12
Consensus pattern (15 bp):
ACAGTGCAGTAAAAA
Found at i:1271360 original size:26 final size:26
Alignment explanation
Indices: 1271331--1271391 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1271321 TTTGAAAATA
*
1271331 TTTTGAATATATATATAATAAATAGT
1 TTTTGAAAATATATATAATAAATAGT
* *
1271357 TTTTGAAAATATATGTAATATATAGT
1 TTTTGAAAATATATATAATAAATAGT
*
1271383 CTTTGAAAA
1 TTTTGAAAA
1271392 CATTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TTTTGAAAATATATATAATAAATAGT
Found at i:1271366 original size:37 final size:37
Alignment explanation
Indices: 1271256--1271368 Score: 154
Period size: 37 Copynumber: 3.0 Consensus size: 37
1271246 AATGAACAAA
* * *
1271256 TTTGAATATATATATAATATATAATTTTTGAAAACAA
1 TTTGAATATATATATAATATATAGTTTTTGAAAATAT
* *
1271293 TTTGAAAAAATATATATAATATATAGCTTTTGAAAATAT
1 TTTG--AATATATATATAATATATAGTTTTTGAAAATAT
*
1271332 TTTGAATATATATATAATAAATAGTTTTTGAAAATAT
1 TTTGAATATATATATAATATATAGTTTTTGAAAATAT
1271369 ATGTAATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
37 34 0.52
39 32 0.48
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (37 bp):
TTTGAATATATATATAATATATAGTTTTTGAAAATAT
Found at i:1271378 original size:63 final size:63
Alignment explanation
Indices: 1271299--1271438 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
1271289 ACAATTTGAA
* ** * *
1271299 AAAATATATATAATATATAG-CTTTTGAAAATATTTTGAATATATATATAATAAATAGTTTTTG
1 AAAATATATATAATATATAGTC-TTTGAAAACATTTAAAAAAAATATATAATAAATAGTTTTTG
* * * *
1271362 AAAATATATGTAATATATAGTCTTTGAAAACATTTAAAAAAAATATATATTATATAGTTTTTTTA
1 AAAATATATATAATATATAGTCTTTGAAAACATTTAAAAAAAATATATAATAAATAG--TTTTTG
1271427 AAAATATATATA
1 AAAATATATATA
1271439 TTTATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 47 0.73
64 1 0.02
65 16 0.25
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (63 bp):
AAAATATATATAATATATAGTCTTTGAAAACATTTAAAAAAAATATATAATAAATAGTTTTTG
Found at i:1271380 original size:39 final size:38
Alignment explanation
Indices: 1271255--1271380 Score: 141
Period size: 37 Copynumber: 3.3 Consensus size: 38
1271245 TAATGAACAA
* * *
1271255 ATTTGAATATATATATAATATATAATTTTTGAAAACA-
1 ATTTAAATATATATATAATATATAGTTTTTGAAAATAT
* *
1271292 ATTTGAAAAAATATATATAATATATAGCTTTTGAAAATAT
1 ATTT--AAATATATATATAATATATAGTTTTTGAAAATAT
* *
1271332 -TTTGAATATATATATAATAAATAGTTTTTGAAAATAT
1 ATTTAAATATATATATAATATATAGTTTTTGAAAATAT
*
1271369 ATGT-AATATATA
1 ATTTAAATATATA
1271381 GTCTTTGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
37 42 0.56
38 2 0.03
39 31 0.41
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (38 bp):
ATTTAAATATATATATAATATATAGTTTTTGAAAATAT
Found at i:1271452 original size:7 final size:7
Alignment explanation
Indices: 1271430--1271486 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
1271420 TTTTTTAAAA
1271430 ATATA-T
1 ATATATT
1271436 ATAT-TT
1 ATATATT
1271442 ATATATT
1 ATATATT
*
1271449 ATATAGT
1 ATATATT
1271456 ATAGTATT
1 ATA-TATT
1271464 ATATATT
1 ATATATT
*
1271471 ATTTATT
1 ATATATT
*
1271478 ATATTTT
1 ATATATT
1271485 AT
1 AT
1271487 TCATTTTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
6 9 0.21
7 28 0.65
8 6 0.14
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (7 bp):
ATATATT
Found at i:1271486 original size:14 final size:14
Alignment explanation
Indices: 1271433--1271487 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
1271423 TTTAAAAATA
*
1271433 TATATATTTATATAT
1 TATATA-TTATTTAT
* *
1271448 TATATAGTATAGTAT
1 TATATATTAT-TTAT
1271463 TATATATTATTTAT
1 TATATATTATTTAT
*
1271477 TATATTTTATT
1 TATATATTATT
1271488 CATTTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (14 bp):
TATATATTATTTAT
Found at i:1272175 original size:29 final size:29
Alignment explanation
Indices: 1272142--1272205 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
1272132 TTCCGAAAGA
1272142 TCTTTTTCAGATATAGCCTTCCCCGAGGC
1 TCTTTTTCAGATATAGCCTTCCCCGAGGC
*
1272171 TCTTTTTCAGATCTAGCCTTCCCCGAGGC
1 TCTTTTTCAGATATAGCCTTCCCCGAGGC
1272200 TCTTTT
1 TCTTTT
1272206 GTGAAAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.14, C:0.31, G:0.16, T:0.39
Consensus pattern (29 bp):
TCTTTTTCAGATATAGCCTTCCCCGAGGC
Found at i:1272653 original size:17 final size:16
Alignment explanation
Indices: 1272633--1272675 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1272623 TTTAATTTGG
1272633 TCATTCTTTTATTTAAT
1 TCATT-TTTTATTTAAT
*
1272650 TCATGTTTTCATTTAAT
1 TCAT-TTTTTATTTAAT
1272667 T-ATTTTTTA
1 TCATTTTTTA
1272676 GGTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.22
16 2 0.09
17 15 0.65
18 1 0.04
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (16 bp):
TCATTTTTTATTTAAT
Found at i:1272752 original size:33 final size:33
Alignment explanation
Indices: 1272715--1272797 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 33
1272705 AACATTCTGT
* **
1272715 TTATTTCTTTTATTTTTTTTTATTT-TTTTAATA
1 TTATTT-TTTCATTTTACTTTATTTGTTTTAATA
1272748 TTATTTTTTCATTTTACTTTATTTGTTTTAAT-
1 TTATTTTTTCATTTTACTTTATTTGTTTTAATA
1272780 TTAATTAATTTTCATTTT
1 TT-ATT--TTTTCATTTT
1272798 GTTTGTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 17 0.40
33 16 0.37
35 10 0.23
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.73
Consensus pattern (33 bp):
TTATTTTTTCATTTTACTTTATTTGTTTTAATA
Found at i:1273500 original size:13 final size:13
Alignment explanation
Indices: 1273484--1273508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1273474 TCTTAAGTGA
1273484 AAATTGTAAGTTT
1 AAATTGTAAGTTT
1273497 AAATTGTAAGTT
1 AAATTGTAAGTT
1273509 AATTTTTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
AAATTGTAAGTTT
Found at i:1274279 original size:56 final size:56
Alignment explanation
Indices: 1274174--1274389 Score: 215
Period size: 54 Copynumber: 3.9 Consensus size: 56
1274164 ATGGATCTAA
* *
1274174 GTGTGCAAAAAGATAAGAAATTCATAATGTGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAA-ATAAGAAATTCATAATATGTTTATGAATTTCCGTATGGGCACTAT
* *
1274231 GTGTGCAAAAATATAAGAAATT-TTAATTTGTTTATGAATTTCCGTATGGGCACTAT
1 GTGTGCAAAAA-ATAAGAAATTCATAATATGTTTATGAATTTCCGTATGGGCACTAT
* * * * * * * *
1274287 ATGTTC-ATAACTAAGAAATTCATACTAAGTGTATGAAATTCCGTATGGGCACTAT
1 GTGTGCAAAAAATAAGAAATTCATAATATGTTTATGAATTTCCGTATGGGCACTAT
* * * * * * *
1274342 GTGTGC--AAATTAAGAAATCCATACTAAGTGTATTAATTTCCATATGGG
1 GTGTGCAAAAAATAAGAAATTCATAATATGTTTATGAATTTCCGTATGGG
1274390 AAATACATTT
Statistics
Matches: 136, Mismatches: 22, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
54 45 0.33
55 35 0.26
56 35 0.26
57 21 0.15
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (56 bp):
GTGTGCAAAAAATAAGAAATTCATAATATGTTTATGAATTTCCGTATGGGCACTAT
Found at i:1274805 original size:68 final size:68
Alignment explanation
Indices: 1274601--1274787 Score: 311
Period size: 68 Copynumber: 2.8 Consensus size: 68
1274591 AAGATTATAT
* *
1274601 GGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1274666 TGA
66 TGA
* * *
1274669 GGCCTAATTGTGCATTTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1274734 TGA
66 TGA
* *
1274737 GGCCTAACTGTGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1274788 CGGTTAAAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 109 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:1274879 original size:81 final size:81
Alignment explanation
Indices: 1274737--1275060 Score: 391
Period size: 81 Copynumber: 4.0 Consensus size: 81
1274727 GTGCCTTTGA
* *
1274737 GGCCTAACTGTGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1 GGCCTAACTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
1274802 TGAGTAAAAGGTAAAT
66 TGAGTAAAAGATAAAT
* * *
1274818 GACCTAGCTGTGCATTTGGCAAAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1 GGCCTAACTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
1274883 TGTGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
** * * ** * *
1274899 GGCCTAGTTGTGCATTTGG-AAGAACGGTGTCAATTATGCCAGTTATATGAACACTTATAGACCA
1 GGCCTAACTGTGCATTTGGCAA-AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
1274963 TTGAGTAAAAGATAAAT
65 TTGAGTAAAAGATAAAT
* * * * * * * *
1274980 GGCCTAACTGTGTATTTGGCATAAATGTATCAATCATGCAAGTTAGATGAAAGGTTAAATG-CCT
1 GGCCTAACTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA-GACCG
*
1275044 TTGGGTAAAAGACTAAA
65 TTGAGTAAAAGA-TAAA
1275061 GGAATTATAA
Statistics
Matches: 206, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.01
81 198 0.96
82 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
TGAGTAAAAGATAAAT
Found at i:1280339 original size:20 final size:20
Alignment explanation
Indices: 1280314--1280351 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1280304 CAATTTATTC
1280314 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1280334 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1280352 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1283073 original size:44 final size:44
Alignment explanation
Indices: 1282979--1283078 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
1282969 AAACCCGACG
* * * *
1282979 GATGCATCGATGCACATTCAAAGAGTGCATCGGTGCATCTTCAT
1 GATGTATCGATGCACATTCAAAGAATGCATCGATGCATCTTCAA
* *
1283023 GATGTATCGATGCACGTTCAAAGGAATGCATCGATGCAT-TGTTAA
1 GATGTATCGATGCACATTCAAA-GAATGCATCGATGCATCT-TCAA
1283068 G-TGTATCGATG
1 GATGTATCGATG
1283079 AATTAAGCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GATGTATCGATGCACATTCAAAGAATGCATCGATGCATCTTCAA
Found at i:1296624 original size:28 final size:28
Alignment explanation
Indices: 1296583--1296680 Score: 135
Period size: 28 Copynumber: 3.4 Consensus size: 28
1296573 TTTGAAAACA
*
1296583 TTTTGAAAATATATATATAATATATAGT
1 TTTTGAAAACATATATATAATATATAGT
*
1296611 TTTTGAAAACATATATA-ATATATATGGT
1 TTTTGAAAACATATATATA-ATATATAGT
*
1296639 TTTTGAAAACATATATATATAATATTTAGT
1 TTTTGAAAAC--ATATATATAATATATAGT
1296669 TTTTGAAAACAT
1 TTTTGAAAACAT
1296681 TTTGAAACTA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.02
28 36 0.58
30 24 0.39
31 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (28 bp):
TTTTGAAAACATATATATAATATATAGT
Found at i:1296634 original size:39 final size:38
Alignment explanation
Indices: 1296515--1296716 Score: 151
Period size: 39 Copynumber: 5.7 Consensus size: 38
1296505 TTTTATTTAG
*
1296515 TATATATATAATATATA-TTTTTGGAAAATATTTTTTAATA
1 TATATATATAATATATAGTTTTT-GAAAACA--TTTTAATA
* *
1296555 -ACATATATAATATATAG-TTTTGAAAACATTTTGAAAA
1 TATATATATAATATATAGTTTTTGAAAACATTTT-AATA
1296592 TATATATATAATATATAGTTTTTGAAAAC--------A
1 TATATATATAATATATAGTTTTTGAAAACATTTTAATA
* *
1296622 TATATA-AT-ATATATGGTTTTTGAAAACA-TA---TA
1 TATATATATAATATATAGTTTTTGAAAACATTTTAATA
1296654 TATATA-AT-AT-T-TAGTTTTTGAAAACATTTTGAA-A
1 TATATATATAATATATAGTTTTTGAAAACATTTT-AATA
1296688 CTATATATATAATATATAGTTTTTGAAAA
1 -TATATATATAATATATAGTTTTTGAAAA
1296717 ATATATATAA
Statistics
Matches: 137, Mismatches: 7, Indels: 37
0.76 0.04 0.20
Matches are distributed among these distances:
28 18 0.13
29 2 0.01
30 21 0.15
31 2 0.01
32 11 0.08
34 1 0.01
35 6 0.04
36 6 0.04
37 5 0.04
38 23 0.17
39 42 0.31
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATATATAATATATAGTTTTTGAAAACATTTTAATA
Found at i:1296684 original size:41 final size:39
Alignment explanation
Indices: 1296639--1296813 Score: 157
Period size: 37 Copynumber: 4.8 Consensus size: 39
1296629 TATATATGGT
*
1296639 TTTTGAAAACATATATATATAATATTTAGTTTTTGAAAACA
1 TTTTG-AAAC-TATATATATAATATATAGTTTTTGAAAACA
1296680 TTTTGAAACTATATATATAATATATAGTTTTTG-----A
1 TTTTGAAACTATATATATAATATATAGTTTTTGAAAACA
1296714 -----AAA--ATATATATAATATATAGTTTTTGAAGAA-A
1 TTTTGAAACTATATATATAATATATAGTTTTTGAA-AACA
* *
1296746 TTTTGAAA--ATATATATAATATATAGTCTTTGAAAGCA
1 TTTTGAAACTATATATATAATATATAGTTTTTGAAAACA
* * *
1296783 TTTTGAAAC-AAATATATATTGTATAGTTTTT
1 TTTTGAAACTATATATATAATATATAGTTTTT
1296814 TTTAAATATA
Statistics
Matches: 115, Mismatches: 7, Indels: 27
0.77 0.05 0.18
Matches are distributed among these distances:
27 23 0.20
29 3 0.03
32 1 0.01
34 1 0.01
36 1 0.01
37 36 0.31
38 18 0.16
39 23 0.20
40 4 0.03
41 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (39 bp):
TTTTGAAACTATATATATAATATATAGTTTTTGAAAACA
Found at i:1296693 original size:58 final size:56
Alignment explanation
Indices: 1296583--1296741 Score: 176
Period size: 58 Copynumber: 2.6 Consensus size: 56
1296573 TTTGAAAACA
1296583 TTTTGAAAATATATATATAATATATAGTTTTTGAAAACATATATAATATATATGGT
1 TTTTGAAAATATATATATAATATATAGTTTTTGAAAACATATATAATATATATGGT
*
1296639 TTTTGAAAACATATATATATAATATTTAGTTTTTGAAAACATTTTGAAACTATATATATAATATA
1 TTTTG-AAA-ATATATATATAATATATAGTTTTTGAAAAC--------A-TATATA-AT-ATATA
*
1296704 TAGT
53 TGGT
1296708 TTTTGAAAA-ATATATATAATATATAGTTTTTGAA
1 TTTTGAAAATATATATATAATATATAGTTTTTGAA
1296742 GAAATTTTGA
Statistics
Matches: 87, Mismatches: 3, Indels: 16
0.82 0.03 0.15
Matches are distributed among these distances:
56 5 0.06
57 3 0.03
58 29 0.33
66 25 0.29
67 7 0.08
68 5 0.06
69 13 0.15
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (56 bp):
TTTTGAAAATATATATATAATATATAGTTTTTGAAAACATATATAATATATATGGT
Found at i:1296720 original size:27 final size:27
Alignment explanation
Indices: 1296680--1296746 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
1296670 TTTGAAAACA
*
1296680 TTTTGAAACTATATATATAATATATAGT
1 TTTTGAAA-AATATATATAATATATAGT
1296708 TTTTGAAAAATATATATAATATATAGT
1 TTTTGAAAAATATATATAATATATAGT
1296735 TTTTGAAGAAAT
1 TTTTGAA-AAAT
1296747 TTTGAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 25 0.68
28 12 0.32
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (27 bp):
TTTTGAAAAATATATATAATATATAGT
Found at i:1296735 original size:66 final size:66
Alignment explanation
Indices: 1296611--1296779 Score: 236
Period size: 66 Copynumber: 2.5 Consensus size: 66
1296601 AATATATAGT
* *
1296611 TTTTGAAAACATATATAATATATATGGTTTTTGAAAACATATATATATAATATTTAGTTTTTGAA
1 TTTTGAAAATATATATAATATATA--GTTTTTG-AAACATATATATATAATATATAGTTTTTGAA
1296676 -AACA
63 GAA-A
1296680 TTTTGAAACTATATATATAATATATAGTTTTTGAAA-A-ATATATATAATATATAGTTTTTGAAG
1 TTTTGAAA--ATATATATAATATATAGTTTTTGAAACATATATATATAATATATAGTTTTTGAAG
1296743 AAA
64 AAA
*
1296746 TTTTGAAAATATATATAATATATAGTCTTTGAAA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAA
1296780 GCATTTTGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
64 25 0.27
66 33 0.35
67 3 0.03
68 3 0.03
69 15 0.16
71 15 0.16
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (66 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAACATATATATATAATATATAGTTTTTGAAGAA
A
Found at i:1296756 original size:28 final size:27
Alignment explanation
Indices: 1296680--1296760 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
1296670 TTTGAAAACA
* *
1296680 TTTTGAAACTATATATATAATATATAGT
1 TTTTGAAA-AATATATAAAATATATAGT
*
1296708 TTTTGAAAAATATATATAATATATAGT
1 TTTTGAAAAATATATAAAATATATAGT
*
1296735 TTTTGAAGAAAT-TTTGAAAATATATA
1 TTTTGAA-AAATATAT-AAAATATATA
1296761 TAATATATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (27 bp):
TTTTGAAAAATATATAAAATATATAGT
Found at i:1296798 original size:66 final size:64
Alignment explanation
Indices: 1296611--1296779 Score: 214
Period size: 64 Copynumber: 2.5 Consensus size: 64
1296601 AATATATAGT
* *
1296611 TTTTGAAAACATATATAATATATATGGTTTTTGAAAACATATATATATAATATTTAGTTTTTGAA
1 TTTTGAAAATATATATAATATATA--GTTTTTG-AAACATATATATA-AA-ATATAGTTTTTGAA
1296676 AACA
61 AACA
* *
1296680 TTTTGAAACTATATATATAATATATAGTTTTTGAAAAATATATATAATATATAGTTTTTGAAGAA
1 TTTTGAAA--ATATATATAATATATAGTTTTTGAAACATATATATAAAATATAGTTTTTGAA-AA
1296745 -A
63 CA
*
1296746 TTTTGAAAATATATATAATATATAGTCTTTGAAA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAA
1296780 GCATTTTGAA
Statistics
Matches: 92, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
64 25 0.27
66 22 0.24
67 3 0.03
68 12 0.13
69 15 0.16
71 15 0.16
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (64 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAACATATATATAAAATATAGTTTTTGAAAACA
Found at i:1296824 original size:2 final size:2
Alignment explanation
Indices: 1296819--1296880 Score: 62
Period size: 2 Copynumber: 33.0 Consensus size: 2
1296809 TTTTTTTTAA
*
1296819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AGC AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
1296860 AT -T AT AT AT -T AT TT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1296881 TTTATTCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
1 5 0.10
2 44 0.88
3 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1296885 original size:14 final size:14
Alignment explanation
Indices: 1296858--1296913 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
1296848 ATATAGCATA
*
1296858 TTATTATATATTAT
1 TTATTATATTTTAT
1296872 TTATTATATTTTAT
1 TTATTATATTTTAT
*
1296886 TCA-T-T-TTTTA-
1 TTATTATATTTTAT
*
1296896 TT-TTATTTTTTAT
1 TTATTATATTTTAT
1296909 TTATT
1 TTATT
1296914 TTCTTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 6 0.18
13 3 0.09
14 17 0.50
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTATATTTTAT
Found at i:1296894 original size:11 final size:11
Alignment explanation
Indices: 1296861--1296915 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
1296851 TAGCATATTA
* *
1296861 TTATATATTAT
1 TTATTTATTTT
*
1296872 TTA-TTATATT
1 TTATTTATTTT
*
1296882 TTATTCATTTT
1 TTATTTATTTT
1296893 TTATTTTATTTT
1 TTA-TTTATTTT
1296905 TTATTTATTTT
1 TTATTTATTTT
1296916 CTTTTTTGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 7 0.19
11 19 0.53
12 10 0.28
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:1296899 original size:16 final size:16
Alignment explanation
Indices: 1296866--1296915 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1296856 TATTATTATA
1296866 TATTATTTATTATATTT
1 TATTATTTATT-TATTT
1296883 TATTCATTT-TTTATTT
1 TATT-ATTTATTTATTT
*
1296899 TATTTTTTATTTATTT
1 TATTATTTATTTATTT
1296915 T
1 T
1296916 CTTTTTTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 6 0.20
18 4 0.13
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTATTTATTTATTT
Found at i:1296920 original size:16 final size:16
Alignment explanation
Indices: 1296866--1296922 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
1296856 TATTATTATA
*
1296866 TATTATTTATTATATTT
1 TATTTTTTATT-TATTT
*
1296883 TATTCATTT-TTTATTT
1 TATT-TTTTATTTATTT
1296899 TATTTTTTATTTATTT
1 TATTTTTTATTTATTT
*
1296915 TCTTTTTT
1 TATTTTTT
1296923 GGTCCAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 3 0.08
16 23 0.64
17 6 0.17
18 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATTTATTT
Found at i:1299249 original size:28 final size:29
Alignment explanation
Indices: 1299194--1299250 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
1299184 GAAATATACC
*
1299194 AAATTATTAGTTTCATATATAATATTTTA
1 AAATTATTAGTTTCATACATAATATTTTA
* *
1299223 AAATTATT-GTTTCATACATGATGTTTTA
1 AAATTATTAGTTTCATACATAATATTTTA
1299251 TATCATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (29 bp):
AAATTATTAGTTTCATACATAATATTTTA
Found at i:1302155 original size:77 final size:77
Alignment explanation
Indices: 1302006--1302156 Score: 232
Period size: 77 Copynumber: 2.0 Consensus size: 77
1301996 CTTCATTACT
* * *
1302006 GCTCCCCTGCAAAACTCTTATTTTCCCCTCAAATCAACGAAAACCCATTTGCACAAAACATCGAA
1 GCTCCCCTGCAAAACCCTTATTTCCCCCTCAAATCAACGAAAACCCATTTGCACAAAACATCAAA
1302071 ACGACAATTTCC
66 ACGACAATTTCC
* * *
1302083 GCTCCGCTGCAAAACCCTTATTTCCCCCTCATATCAACGAAGACCCATTTGCACAAAACATCAAA
1 GCTCCCCTGCAAAACCCTTATTTCCCCCTCAAATCAACGAAAACCCATTTGCACAAAACATCAAA
1302148 ATC-ACAATT
66 A-CGACAATT
1302157 CCCTCTCGCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 66 0.99
78 1 0.01
ACGTcount: A:0.35, C:0.34, G:0.08, T:0.23
Consensus pattern (77 bp):
GCTCCCCTGCAAAACCCTTATTTCCCCCTCAAATCAACGAAAACCCATTTGCACAAAACATCAAA
ACGACAATTTCC
Found at i:1304993 original size:3 final size:3
Alignment explanation
Indices: 1304987--1305014 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1304977 CTTCTCACTT
1304987 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1305015 TAGAAGCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:1306962 original size:17 final size:17
Alignment explanation
Indices: 1306942--1306982 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1306932 GTATACAAAT
1306942 TAAAATATA-AAAT-AA
1 TAAAATATATAAATAAA
*
1306957 TATAAATAAATAAATAAA
1 TA-AAATATATAAATAAA
1306975 TAAAATAT
1 TAAAATAT
1306983 TCACAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.10
16 6 0.29
17 9 0.43
18 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATATATAAATAAA
Found at i:1309637 original size:15 final size:15
Alignment explanation
Indices: 1309617--1309658 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
1309607 CTGTCACTCC
1309617 AGCAAATTCAGAATT
1 AGCAAATTCAGAATT
1309632 AGCAAATTCAGAATT
1 AGCAAATTCAGAATT
*
1309647 AGCAAACTCAGA
1 AGCAAATTCAGA
1309659 TGCGCTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
AGCAAATTCAGAATT
Found at i:1316693 original size:37 final size:41
Alignment explanation
Indices: 1316635--1316742 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 41
1316625 ATAAATAAAA
*
1316635 ATATTACAA-T-TATT-AT-ATTTATTAAAATAA-AATTAT
1 ATATTACAATTATATTAATAATTTATTAAAATAAGAATAAT
1316671 -TA-TA-AATTATATTAATAATTTATTAAAATAAGAATAAT
1 ATATTACAATTATATTAATAATTTATTAAAATAAGAATAAT
* * *
1316709 ATATTACTAATTTTATTAATTATTTCTTAAAATA
1 ATATTAC-AATTATATTAATAATTTATTAAAATA
1316743 TTAGAAATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
33 2 0.03
34 3 0.05
35 6 0.10
36 2 0.03
37 14 0.24
38 5 0.08
39 2 0.03
40 2 0.03
42 23 0.39
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (41 bp):
ATATTACAATTATATTAATAATTTATTAAAATAAGAATAAT
Found at i:1316922 original size:14 final size:14
Alignment explanation
Indices: 1316903--1316949 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
1316893 ATAATATCAT
1316903 ATATTATAATAATA
1 ATATTATAATAATA
*
1316917 ATATTATAACAATA
1 ATATTATAATAATA
* *
1316931 AGA-TATAAT-ATT
1 ATATTATAATAATA
1316943 ATATTAT
1 ATATTAT
1316950 TAAAATTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
12 4 0.15
13 8 0.30
14 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
ATATTATAATAATA
Found at i:1316998 original size:30 final size:28
Alignment explanation
Indices: 1316935--1317024 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 28
1316925 ACAATAAGAT
* *
1316935 ATAATATTATATTATTAAA-AT--TATCA
1 ATAATATTATTTTATTAAATATACTA-AA
1316961 ATAAATATTATTTTATTAATATGATACTAAA
1 AT-AATATTATTTTATTAA-AT-ATACTAAA
*
1316992 ATAATA-TATTAATATTAAATATA-TAAA
1 ATAATATTATT-TTATTAAATATACTAAA
1317019 ATAATA
1 ATAATA
1317025 ATGTTTTGCG
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
26 2 0.04
27 25 0.46
28 4 0.07
29 6 0.11
30 12 0.22
31 3 0.06
32 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAATATTATTTTATTAAATATACTAAA
Found at i:1318738 original size:17 final size:16
Alignment explanation
Indices: 1318718--1318762 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
1318708 GAAATAAAAG
1318718 AAATAAAATAATAATAT
1 AAATAAAATAATAA-AT
1318735 AAATAAAATAATAAAT
1 AAATAAAATAATAAAT
*
1318751 AATATATAATAA
1 AA-ATAAAATAA
1318763 ACACTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATAATAAAT
Found at i:1318739 original size:26 final size:23
Alignment explanation
Indices: 1318709--1318763 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
1318699 AAAAAACAAG
1318709 AAATAAAAGAAATAAAATAATAATAT
1 AAATAAAA-AAAT-AAATAAT-ATAT
*
1318735 AAATAAAATAATAAATAATATAT
1 AAATAAAAAAATAAATAATATAT
1318758 -AATAAA
1 AAATAAA
1318764 CACTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 7 0.25
25 3 0.11
26 8 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AAATAAAAAAATAAATAATATAT
Found at i:1318753 original size:21 final size:23
Alignment explanation
Indices: 1318718--1318763 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1318708 GAAATAAAAG
1318718 AAATAAAATAATAATATA-AATA
1 AAATAAAATAATAATATATAATA
*
1318740 AAATAATA-AATAATATATAATA
1 AAATAAAATAATAATATATAATA
1318762 AA
1 AA
1318764 CACTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAAATAATAATATATAATA
Found at i:1318759 original size:14 final size:13
Alignment explanation
Indices: 1318723--1318763 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
1318713 AAAAGAAATA
1318723 AAATAATAAT-AT
1 AAATAATAATAAT
1318735 AAATAA-AATAAT
1 AAATAATAATAAT
1318747 AAATAATATATAAT
1 AAATAATA-ATAAT
1318761 AAA
1 AAA
1318764 CACTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 14 0.54
13 1 0.04
14 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:1318770 original size:14 final size:14
Alignment explanation
Indices: 1318742--1318775 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1318732 TATAAATAAA
*
1318742 ATAATAAATAATAT
1 ATAATAAACAATAT
*
1318756 ATAATAAACACTAT
1 ATAATAAACAATAT
1318770 ATAATA
1 ATAATA
1318776 CTATGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAACAATAT
Found at i:1318860 original size:13 final size:13
Alignment explanation
Indices: 1318839--1318872 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1318829 AAAACTATAT
1318839 ATATATTTTCAAA
1 ATATATTTTCAAA
*
1318852 ATATGTTTTCAAA
1 ATATATTTTCAAA
1318865 ACTATATT
1 A-TATATT
1318873 ATATACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (13 bp):
ATATATTTTCAAA
Found at i:1318876 original size:36 final size:36
Alignment explanation
Indices: 1318829--1318905 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
1318819 CGTTTTTTAA
1318829 AAAACTATA-TATAT--ATTTTCAAAATAT-GTTTTC
1 AAAACTATATTATATACATTTTCAAAA-ATCGTTTTC
* *
1318862 AAAACTATATTATATACATTTTTAAAAATCGTTTTT
1 AAAACTATATTATATACATTTTCAAAAATCGTTTTC
1318898 AAAACTAT
1 AAAACTAT
1318906 GTATATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 9 0.24
34 5 0.13
35 2 0.05
36 22 0.58
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (36 bp):
AAAACTATATTATATACATTTTCAAAAATCGTTTTC
Found at i:1318940 original size:25 final size:25
Alignment explanation
Indices: 1318892--1318948 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1318882 TTTAAAAATC
* *
1318892 GTTTTTAAAACTATGTATATTATGT
1 GTTTTCAAAACTATATATATTATGT
*
1318917 GTTTTCAAAACTATATA-A-TATAT
1 GTTTTCAAAACTATATATATTATGT
1318940 G-TTTCAAAA
1 GTTTTCAAAA
1318949 ACATATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
24 1 0.03
25 15 0.52
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (25 bp):
GTTTTCAAAACTATATATATTATGT
Found at i:1318958 original size:36 final size:36
Alignment explanation
Indices: 1318918--1319060 Score: 123
Period size: 37 Copynumber: 3.9 Consensus size: 36
1318908 ATATTATGTG
1318918 TTTTCAAAACTATATAATATATG-TTTCAAAAACATA
1 TTTTCAAAACTATATAATATATGCTTTCAAAAAC-TA
** *
1318954 TTTTCAAAACCCTATTATATAT--TTTCAAAAACTAA
1 TTTTCAAAACTATATAATATATGCTTTCAAAAACT-A
* * *
1318989 TTTTTAAAAAACTATATATTATATGCTTTCAAAAAC-G
1 -TTTT-CAAAACTATATAATATATGCTTTCAAAAACTA
* * *
1319026 TTTTCTAAAAGTTATATATTATATGTTTTCAAAAA
1 TTTTC-AAAA-CTATATAATATATGCTTTCAAAAA
1319061 TTACATTATA
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
34 1 0.01
35 11 0.12
36 31 0.35
37 35 0.40
39 10 0.11
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.42
Consensus pattern (36 bp):
TTTTCAAAACTATATAATATATGCTTTCAAAAACTA
Found at i:1319019 original size:96 final size:92
Alignment explanation
Indices: 1318829--1319022 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 92
1318819 CGTTTTTTAA
* * * * **
1318829 AAAACTATATATATATTTTCAAAATATGTTTTCAAAACTATATTATATACATTTTTAAAAATCGT
1 AAAACTATATATATATTTTCAAAACATATTTTCAAAACCATATTATATA-ATTTTCAAAAATAAT
* *
1318894 TTTTAAAACTATGTATATTATGTGTTTTC
65 TTTTAAAACTA-GTATATTATATGCTTTC
*
1318923 AAAACTATATAATATATGTTTCAAAAACATATTTTCAAAACCCTATTATAT-ATTTTCAAAAACT
1 AAAACTATAT-ATATAT-TTTC-AAAACATATTTTCAAAACCATATTATATAATTTTCAAAAA-T
1318987 AATTTTTAAAAAACTA-TATATTATATGCTTTC
62 AATTTTT--AAAACTAGTATATTATATGCTTTC
1319019 AAAA
1 AAAA
1319023 ACGTTTTCTA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
94 10 0.12
95 16 0.19
96 28 0.33
97 24 0.28
98 7 0.08
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (92 bp):
AAAACTATATATATATTTTCAAAACATATTTTCAAAACCATATTATATAATTTTCAAAAATAATT
TTTAAAACTAGTATATTATATGCTTTC
Found at i:1333290 original size:21 final size:21
Alignment explanation
Indices: 1333247--1333290 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1333237 TTATCATTGC
* *
1333247 AAGAATTCATGGCCTCGATAA
1 AAGAATTCATGGCCTCCACAA
* *
1333268 AAGATTTCATGGCTTCCACAA
1 AAGAATTCATGGCCTCCACAA
1333289 AA
1 AA
1333291 ACTTGATGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (21 bp):
AAGAATTCATGGCCTCCACAA
Found at i:1339387 original size:19 final size:19
Alignment explanation
Indices: 1339365--1339407 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1339355 CAACATCGCC
1339365 AGTCCCAACAGCAGCAACT
1 AGTCCCAACAGCAGCAACT
* *
1339384 AGTCCCAGCAGCATCAACT
1 AGTCCCAACAGCAGCAACT
1339403 AGTCC
1 AGTCC
1339408 AGCACCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.16, T:0.14
Consensus pattern (19 bp):
AGTCCCAACAGCAGCAACT
Found at i:1348090 original size:12 final size:12
Alignment explanation
Indices: 1348075--1348120 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
1348065 TTAAATAAAT
1348075 TAAATAATAATA
1 TAAATAATAATA
1348087 TAAATAA-AATA
1 TAAATAATAATA
*
1348098 -ATA-AATAATA
1 TAAATAATAATA
1348108 TAAATAAT-ATA
1 TAAATAATAATA
1348119 TA
1 TA
1348121 TTAAAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 2 0.07
10 6 0.21
11 11 0.38
12 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATAATAATA
Found at i:1348091 original size:21 final size:21
Alignment explanation
Indices: 1348066--1348114 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
1348056 AAAATGAAAT
*
1348066 TAAATAAATTAA-ATAATAATA
1 TAAATAAAATAATA-AATAATA
1348087 TAAATAAAATAATAAATAATA
1 TAAATAAAATAATAAATAATA
1348108 TAAATAA
1 TAAATAA
1348115 TATATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATAAAATAATAAATAATA
Found at i:1348115 original size:9 final size:9
Alignment explanation
Indices: 1348080--1348118 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
1348070 TAAATTAAAT
1348080 AATAATATA
1 AATAATATA
1348089 AATAAAATAATA
1 AAT--AAT-ATA
1348101 AATAATATA
1 AATAATATA
1348110 AATAATATA
1 AATAATATA
1348119 TATTAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 15 0.56
10 3 0.11
11 3 0.11
12 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:1348137 original size:24 final size:26
Alignment explanation
Indices: 1348105--1348152 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
1348095 ATAATAAATA
1348105 ATATAAATAATATATATT-AAAAACT
1 ATATAAATAATATATATTCAAAAACT
* *
1348130 ATAT-AATATTATATTTTCAAAAA
1 ATATAAATAATATATATTCAAAAA
1348153 TAATATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATAAATAATATATATTCAAAAACT
Found at i:1348154 original size:17 final size:17
Alignment explanation
Indices: 1348134--1348178 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1348124 AAAACTATAT
*
1348134 AATATTATATTTTCAAA
1 AATAATATATTTTCAAA
*
1348151 AATAATATGTTTTCAAA
1 AATAATATATTTTCAAA
*
1348168 AATTATATATT
1 AATAATATATT
1348179 ATATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
AATAATATATTTTCAAA
Found at i:1348156 original size:41 final size:43
Alignment explanation
Indices: 1348109--1348195 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
1348099 TAAATAATAT
1348109 AAATAATATATATT-AAAAACTATATAATATTATAT-TTT-CAA
1 AAATAATATATATTCAAAAACTATATAATA-TATATGTTTCCAA
* * * *
1348150 AAATAATATGTTTTCAAAAATTATATATTATATATGTTTCCAA
1 AAATAATATATATTCAAAAACTATATAATATATATGTTTCCAA
1348193 AAA
1 AAA
1348196 ATCATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 17 0.44
42 16 0.41
43 6 0.15
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (43 bp):
AAATAATATATATTCAAAAACTATATAATATATATGTTTCCAA
Found at i:1348158 original size:25 final size:25
Alignment explanation
Indices: 1348073--1348158 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
1348063 AATTAAATAA
1348073 ATTAAATAATAATATAAATAA-A-AT
1 ATTAAA-AATAATATAAATAATATAT
*
1348097 A--ATAAATAATATAAATAATATAT
1 ATTAAAAATAATATAAATAATATAT
*
1348120 ATTAAAAACT-ATAT-AATATTATAT
1 ATTAAAAA-TAATATAAATAATATAT
*
1348144 TTTCAAAAATAATAT
1 ATT-AAAAATAATAT
1348159 GTTTTCAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
21 14 0.27
22 3 0.06
23 3 0.06
24 13 0.25
25 17 0.33
26 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTAAAAATAATATAAATAATATAT
Found at i:1348343 original size:35 final size:37
Alignment explanation
Indices: 1348124--1348417 Score: 203
Period size: 37 Copynumber: 7.8 Consensus size: 37
1348114 ATATATATTA
* **
1348124 AAAACTATATAATATTATATTTTCAAAAATAATATGTTTTC
1 AAAACTATATATTA-TATATTTTCAAAAA-CGTA--TTTTC
* * * *
1348165 AAAAATTATATATTATATATGTTTCCAAAAAATCATTTTTTTT
1 -AAAACTATATATTATATAT-TTT-C-AAAAA-C-GTATTTTC
* * *
1348208 AAAACTATAT-GTACATATTTTCAAAATA--TGTTTTC
1 AAAACTATATATTATATATTTTCAAAA-ACGTATTTTC
* *
1348243 AAAA-T-TATATTATATACGTTTTCAAAAATGTGTTTTC
1 AAAACTATATATTATATA--TTTTCAAAAACGTATTTTC
* *
1348280 AAAACTATATAATATATGTTTTCAAAAACGTATTTTC
1 AAAACTATATATTATATATTTTCAAAAACGTATTTTC
*
1348317 AAAAC-AT-TATTATATATTTTCAAAAAC-TGATTATTA
1 AAAACTATATATTATATATTTTCAAAAACGT-ATT-TTC
*
1348353 AAAACTATATATTATATACTTTCAAAAACG--TTTTC
1 AAAACTATATATTATATATTTTCAAAAACGTATTTTC
**
1348388 TAAAAGCTATATATTATACGTTTTCAAAAA
1 -AAAA-CTATATATTATATATTTTCAAAAA
1348418 AATATTTCCA
Statistics
Matches: 208, Mismatches: 25, Indels: 43
0.75 0.09 0.16
Matches are distributed among these distances:
33 3 0.01
34 7 0.03
35 33 0.16
36 24 0.12
37 56 0.27
38 24 0.12
39 11 0.05
40 3 0.01
41 11 0.05
42 24 0.12
43 5 0.02
44 6 0.03
45 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATATTTTCAAAAACGTATTTTC
Found at i:1348349 original size:21 final size:21
Alignment explanation
Indices: 1348310--1348350 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1348300 TTCAAAAACG
*
1348310 TATTTTCAAAACATTATTATA
1 TATTTTCAAAACATGATTATA
1348331 TATTTTCAAAA-ACTGATTAT
1 TATTTTCAAAACA-TGATTAT
1348351 TAAAAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTTTCAAAACATGATTATA
Found at i:1348361 original size:73 final size:75
Alignment explanation
Indices: 1348119--1348417 Score: 208
Period size: 73 Copynumber: 3.9 Consensus size: 75
1348109 AAATAATATA
** **
1348119 TATTAAAAACTATATAATATTATATTTTCAAAAATAATATGTTTTCAAAAATTATATATTATATA
1 TATTAAAAACTATATAATA-TATATTTTCAAAAA-CGTA--TTTTCAAAAAGCATATATTATATA
*
1348184 TGTTTCCAAAAAATCATTT
62 T-TTT-C-AAAAATGA--T
* * * * * *
1348203 TTTTTAAAACTATAT-GTACATATTTTCAAAATA--TGTTTTC-AAAA--TTATATTATATACGT
1 TATTAAAAACTATATAATATATATTTTCAAAA-ACGTATTTTCAAAAAGCATATATTATATA--T
1348262 TTTCAAAAATG-T
63 TTTCAAAAATGAT
* * *
1348274 GTTTTCAAAACTATATAATATATGTTTTCAAAAACGTATTTTC-AAAA-CAT-TATTATATATTT
1 -TATTAAAAACTATATAATATATATTTTCAAAAACGTATTTTCAAAAAGCATATATTATATATTT
1348336 TCAAAAACTGAT
65 TCAAAAA-TGAT
* * * **
1348348 TATTAAAAACTATATATTATATACTTTCAAAAACG--TTTTCTAAAAGCTATATATTATACGTTT
1 TATTAAAAACTATATAATATATATTTTCAAAAACGTATTTTCAAAAAGC-ATATATTATATATTT
1348411 TCAAAAA
65 TCAAAAA
1348418 AATATTTCCA
Statistics
Matches: 181, Mismatches: 20, Indels: 37
0.76 0.08 0.16
Matches are distributed among these distances:
71 6 0.03
72 29 0.16
73 46 0.25
74 28 0.15
75 30 0.17
76 3 0.02
77 5 0.03
78 5 0.03
80 1 0.01
82 12 0.07
83 3 0.02
84 13 0.07
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (75 bp):
TATTAAAAACTATATAATATATATTTTCAAAAACGTATTTTCAAAAAGCATATATTATATATTTT
CAAAAATGAT
Found at i:1348916 original size:30 final size:30
Alignment explanation
Indices: 1348880--1348939 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1348870 CTATCACTTG
1348880 ACAATCTAGATTTTCTAATAGAATTATTCT
1 ACAATCTAGATTTTCTAATAGAATTATTCT
1348910 ACAATCTAGATTTTCTAATAGAATTATTCT
1 ACAATCTAGATTTTCTAATAGAATTATTCT
1348940 CTTTCCAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (30 bp):
ACAATCTAGATTTTCTAATAGAATTATTCT
Found at i:1354274 original size:42 final size:42
Alignment explanation
Indices: 1354223--1354304 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1354213 TGAATATTGT
* *
1354223 TATATGAAATACTATGCGT-ATATG-TTCTATGTGAATAAATAC
1 TATAGGAAATACTATGAGTAAT-TGATT-TATGTGAATAAATAC
*
1354265 TATAGGAAATGCTATGAGTAATTGATTTATGTGAATAAAT
1 TATAGGAAATACTATGAGTAATTGATTTATGTGAATAAAT
1354305 GATAAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (42 bp):
TATAGGAAATACTATGAGTAATTGATTTATGTGAATAAATAC
Found at i:1354486 original size:23 final size:23
Alignment explanation
Indices: 1354456--1354511 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
1354446 GTCGAGGGTT
1354456 CTATGTGGTCCTTCAGGACAAAA
1 CTATGTGGTCCTTCAGGACAAAA
*
1354479 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCAGGACAAAA
1354502 CTATGTGGTC
1 CTATGTGGTC
1354512 TGGTGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCAGGACAAAA
Found at i:1358055 original size:2 final size:2
Alignment explanation
Indices: 1358050--1358074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1358040 ATATATCAAT
1358050 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1358075 TTGACGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1359575 original size:31 final size:31
Alignment explanation
Indices: 1359532--1359590 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1359522 ACCCGTGATG
*
1359532 ATCACATCTTAATTAAATAAAAATAAAATTA
1 ATCACATCTTAATTAAATAAAAACAAAATTA
*
1359563 ATCATATCTTAATTAAATAAAAACAAAA
1 ATCACATCTTAATTAAATAAAAACAAAA
1359591 AGTGACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (31 bp):
ATCACATCTTAATTAAATAAAAACAAAATTA
Found at i:1363563 original size:112 final size:112
Alignment explanation
Indices: 1363366--1363604 Score: 372
Period size: 112 Copynumber: 2.1 Consensus size: 112
1363356 TTGTCGGTTT
* *
1363366 GTGTCGATACTTTATAAAAATATATTGATCCATAGCAATATAAAAAGTAAAAAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAAAAAGTAAAAAAATGACAAAACC
*
1363431 GGTCTATAAATGACAAAACAGGTAAAGCGCTAACGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTAACAGATATATTGAAA
* *
1363478 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAAAAGGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATAT-TGATCCATAACAATATAAAAAGTAAAAAAATGACAAAAC
* * * * *
1363542 TGGTCTATAAATGACAAAACAGTTAAAGCGCTACCAGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTAACAGATATATTGAAA
1363590 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1363605 TGTAAGTATC
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
112 115 0.99
113 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAAAAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTAACAGATATATTGAAA
Done.