Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 20 of 356
Found at i:6837610 original size:40 final size:39
Alignment explanation
Indices: 6837499--6837689 Score: 147
Period size: 40 Copynumber: 5.0 Consensus size: 39
6837489 GTAGAAGTAA
*
6837499 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
*
6837539 A-AA-TACTT-T--T-GGTTTATCCAACTAGAGCTGGGCT-C
1 ACAATTA-TTATCGTCGGTATATCCAACTAGA-CTGGG-TGC
* *
6837574 ACAATTATTATCGTCAGTATATCCGACTAGCACTGGGTGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
* * *
6837614 A-AA-TA-T-T-GTTGGTTTATCCAACTAGAGTTGGGCT-C
1 ACAATTATTATCGTCGGTATATCCAACTAGA-CTGGG-TGC
*
6837649 ACAATTATTATCGTCGGTATATCCAACTAGTACTGGATGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
6837689 A
1 A
6837690 AATATTGTTG
Statistics
Matches: 117, Mismatches: 14, Indels: 40
0.68 0.08 0.23
Matches are distributed among these distances:
34 2 0.02
35 40 0.34
36 10 0.09
37 6 0.05
38 6 0.05
39 10 0.09
40 41 0.35
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (39 bp):
ACAATTATTATCGTCGGTATATCCAACTAGACTGGGTGC
Found at i:6837725 original size:10 final size:11
Alignment explanation
Indices: 6837709--6837738 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6837699 GGGTTTGAGA
6837709 AAAAATAAAAT
1 AAAAATAAAAT
6837720 -AAAATAAAAT
1 AAAAATAAAAT
6837730 AAAAATAAA
1 AAAAATAAA
6837739 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6840985 original size:19 final size:19
Alignment explanation
Indices: 6840953--6840993 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6840943 TAAATATAAA
6840953 TTAATATATGTTTTATTAT
1 TTAATATATGTTTTATTAT
* *
6840972 TTAATGTATTTTTTATTAT
1 TTAATATATGTTTTATTAT
6840991 TTA
1 TTA
6840994 TTTTACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTAATATATGTTTTATTAT
Found at i:6842201 original size:17 final size:18
Alignment explanation
Indices: 6842161--6842203 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
6842151 CAAGAGAAAA
6842161 AATATAAATTTCAAAATT
1 AATATAAATTTCAAAATT
* *
6842179 ATATATAAATTT-TAATTT
1 A-ATATAAATTTCAAAATT
6842197 AATATAA
1 AATATAA
6842204 TTATACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAAATTTCAAAATT
Found at i:6850774 original size:12 final size:12
Alignment explanation
Indices: 6850757--6850784 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6850747 ATAAAGTTAC
6850757 ATTTCTAAAATT
1 ATTTCTAAAATT
6850769 ATTTCTAAAATT
1 ATTTCTAAAATT
6850781 ATTT
1 ATTT
6850785 ATGGAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTCTAAAATT
Found at i:6851158 original size:29 final size:29
Alignment explanation
Indices: 6851121--6851181 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
6851111 ACAATATAAG
* *
6851121 TTTTGAAAAAAT--TTGTAACGAGTTGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
* *
6851148 TTTTGAAAAAATTATTTTGACGAGATGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
6851177 TTTTG
1 TTTTG
6851182 TTTTTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.41
29 17 0.59
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (29 bp):
TTTTGAAAAAATAATTTTAACGAGATGGA
Found at i:6852178 original size:20 final size:20
Alignment explanation
Indices: 6852153--6852190 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6852143 TAATGTGGTC
*
6852153 AATAATTAATTATTATAATT
1 AATAATTAAGTATTATAATT
6852173 AATAATTAAGTATTATAA
1 AATAATTAAGTATTATAA
6852191 AAATATTATG
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:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATAATTAAGTATTATAATT
Found at i:6863784 original size:13 final size:13
Alignment explanation
Indices: 6863766--6863793 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6863756 AGGCAGTAAA
6863766 ATATGAATATATC
1 ATATGAATATATC
6863779 ATATGAATATATC
1 ATATGAATATATC
6863792 AT
1 AT
6863794 TAAAATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATGAATATATC
Found at i:6871357 original size:32 final size:32
Alignment explanation
Indices: 6871316--6871378 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
6871306 TTTAACTATT
6871316 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
1 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
* *
6871348 ATTTAAAAATTTGACCGTTGGGCCCAACGGT
1 ATTTAAAAATTTGAACATTGGGCCCAACGGT
6871379 TAAGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (32 bp):
ATTTAAAAATTTGAACATTGGGCCCAACGGTC
Found at i:6872554 original size:27 final size:27
Alignment explanation
Indices: 6872516--6872567 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
6872506 TGTATGTAAA
6872516 TATTTATTCTATTTTGAACTATATAAG
1 TATTTATTCTATTTTGAACTATATAAG
6872543 TATTTATTCTATTTTGAACTATATA
1 TATTTATTCTATTTTGAACTATATA
6872568 TAAATAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (27 bp):
TATTTATTCTATTTTGAACTATATAAG
Found at i:6874126 original size:16 final size:16
Alignment explanation
Indices: 6874105--6874135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6874095 GATATTTTAA
6874105 TATATTATATTAATAT
1 TATATTATATTAATAT
*
6874121 TATATTATGTTAATA
1 TATATTATATTAATA
6874136 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:6874232 original size:12 final size:12
Alignment explanation
Indices: 6874215--6874245 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6874205 GAAGCAGGGG
6874215 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
6874227 AGAAAAAGGGAA
1 AGAAAAAGAGAA
6874239 AGAAAAA
1 AGAAAAA
6874246 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:6876365 original size:59 final size:58
Alignment explanation
Indices: 6876276--6876503 Score: 237
Period size: 59 Copynumber: 3.9 Consensus size: 58
6876266 ATGTATTAAT
* * *
6876276 GTTTTTT-AATATATTTT-TACAAACTGTTTTTATATTGTTTCATTTAATAAAACAGAT
1 GTTTTTTGAATAT-TTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
*
6876333 GTTGTTTTGAATATTTTTATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* * * * * * *
6876392 GTTATTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCGTTCAATGAAATATAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* *****
6876451 ATTCTTTTGAATAAGAAAATACAAATTATTTTT-TCATTGTTTCATTTAATAAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
6876504 TTAAGAGTTA
Statistics
Matches: 143, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.02
58 9 0.06
59 131 0.92
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (58 bp):
GTTTTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
Found at i:6876542 original size:28 final size:28
Alignment explanation
Indices: 6876510--6876565 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6876500 TAAATTAAGA
**
6876510 GTTACTTTGATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
6876538 GTTACTTCAATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
6876566 ATATGACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (28 bp):
GTTACTTCAATTTTGAAATGTTCGCATT
Found at i:6877745 original size:14 final size:14
Alignment explanation
Indices: 6877728--6877766 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
6877718 ATAGGGAGAA
6877728 AACAATAAAAAAAT
1 AACAATAAAAAAAT
*
6877742 AAC-ATTAAAAAAT
1 AACAATAAAAAAAT
*
6877755 AAAAATAAAAAA
1 AACAATAAAAAA
6877767 GAGTAGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AACAATAAAAAAAT
Found at i:6880392 original size:46 final size:46
Alignment explanation
Indices: 6880339--6880514 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
6880329 TATTTGGGCA
6880339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
* * * *
6880385 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT---GA-GCG
* * *
6880432 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
* * *
6880478 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6880515 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 2 0.02
46 66 0.60
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
Found at i:6880494 original size:93 final size:93
Alignment explanation
Indices: 6880335--6880507 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
6880325 GGGATATTTG
* * *
6880335 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6880400 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
6880428 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6880493 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
6880508 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6881915 original size:14 final size:14
Alignment explanation
Indices: 6881874--6881916 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
6881864 ATCCCGGGAT
*
6881874 ATTTTTTCAGAACC
1 ATTTTTTCAGAATC
* *
6881888 ATCTTTTCAAAATC
1 ATTTTTTCAGAATC
6881902 ATTTTTTCAGAATC
1 ATTTTTTCAGAATC
6881916 A
1 A
6881917 GCTGTACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (14 bp):
ATTTTTTCAGAATC
Found at i:6881926 original size:28 final size:28
Alignment explanation
Indices: 6881874--6881927 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6881864 ATCCCGGGAT
* * *
6881874 ATTTTTTCAGAACCATCTTTTCAAAATC
1 ATTTTTTCAGAACCAGCTGTACAAAATC
*
6881902 ATTTTTTCAGAATCAGCTGTACAAAA
1 ATTTTTTCAGAACCAGCTGTACAAAA
6881928 AAAGAGGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (28 bp):
ATTTTTTCAGAACCAGCTGTACAAAATC
Found at i:6882219 original size:29 final size:29
Alignment explanation
Indices: 6882157--6882244 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
6882147 TAAATAAAAT
* *
6882157 CCATCTCGTCAAAATAATTTTTTCAGAAC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* * * *
6882186 ACATCACGTCAAATTTATTTTTTCATATC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* *
6882215 CCATCTTGTCAAATTTATTTCTTTCGGAAC
1 CCATCTCGTCAAATTTATTT-TTTCAGAAC
6882245 AATACTTACC
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 40 0.87
30 6 0.13
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (29 bp):
CCATCTCGTCAAATTTATTTTTTCAGAAC
Found at i:6882347 original size:29 final size:28
Alignment explanation
Indices: 6882285--6882348 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
6882275 AAAACAATAT
*
6882285 ACCCTAAACCTTAATTTATTTTAAAAAA
1 ACCCTAAACCCTAATTTATTTTAAAAAA
* **
6882313 ATCCTAAACCCTAATTTATTTTTCCAAAA
1 ACCCTAAACCCTAATTTA-TTTTAAAAAA
6882342 ACCCTAA
1 ACCCTAA
6882349 TTAAACACGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (28 bp):
ACCCTAAACCCTAATTTATTTTAAAAAA
Found at i:6897959 original size:21 final size:21
Alignment explanation
Indices: 6897918--6897979 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
6897908 AATGAATTAA
*
6897918 AATATGCAAATATTGGGATTTG-
1 AATATGCACA-ATT-GGATTTGT
*
6897940 AATATGCACTCATTGGATTTGT
1 AATATGCAC-AATTGGATTTGT
6897962 AATATGCACAATTGGATT
1 AATATGCACAATTGGATT
6897980 AATAAACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (21 bp):
AATATGCACAATTGGATTTGT
Found at i:6902549 original size:53 final size:53
Alignment explanation
Indices: 6902423--6902573 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
6902413 ATAAGTGCGC
* * ** *
6902423 CCGTTTAAGACCATAGCTGCGCTATGGCATCGGTGCAATGTGATGATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6902476 CCGTATAAGACCATAGCTGGGCTATCGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6902529 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6902574 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:6906573 original size:21 final size:21
Alignment explanation
Indices: 6906547--6906587 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6906537 ATCTGCTCAA
* *
6906547 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6906568 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6906588 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6910899 original size:17 final size:17
Alignment explanation
Indices: 6910852--6910899 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
6910842 TTTATTTATT
*
6910852 TTAAAATAATTTAATAA
1 TTAAAATAAATTAATAA
6910869 --AAATATAAATTTAATAA
1 TTAAA-ATAAA-TTAATAA
6910886 TTAAAATAAATTAA
1 TTAAAATAAATTAA
6910900 AATAAAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
15 3 0.12
16 4 0.15
17 11 0.42
18 5 0.19
19 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATTAATAA
Found at i:6911594 original size:31 final size:31
Alignment explanation
Indices: 6911536--6911607 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
6911526 TCACTAGTTG
* *
6911536 GGTCACCCAACTTTTAAGGAACATTCATTTT
1 GGTCACTCAACTTTTAAGAAACATTCATTTT
*
6911567 GGTCACTCAACTTTTAA-AATACTTTCATTTT
1 GGTCACTCAACTTTTAAGAA-ACATTCATTTT
*
6911598 AGTCACTCAA
1 GGTCACTCAA
6911608 AGCGTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (31 bp):
GGTCACTCAACTTTTAAGAAACATTCATTTT
Found at i:6913445 original size:2 final size:2
Alignment explanation
Indices: 6913440--6913470 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6913430 TATGCAAAAA
*
6913440 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6913471 ATATAGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6920461 original size:21 final size:20
Alignment explanation
Indices: 6920416--6920461 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
6920406 TAATGTTTGT
*
6920416 ATTTTAATATTTAAATTATA
1 ATTTTAATATTAAAATTATA
6920436 A-TTTATATAATTAAAATTA-A
1 ATTTTA-AT-ATTAAAATTATA
6920456 ATTTTA
1 ATTTTA
6920462 CAAATGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTAATATTAAAATTATA
Found at i:6925522 original size:17 final size:17
Alignment explanation
Indices: 6925500--6925533 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6925490 GAACTTGTAC
*
6925500 AAAAATTTATATTTTAA
1 AAAAATTAATATTTTAA
*
6925517 AAAAATTAATTTTTTAA
1 AAAAATTAATATTTTAA
6925534 TTTATGTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAAATTAATATTTTAA
Found at i:6938023 original size:46 final size:47
Alignment explanation
Indices: 6937948--6938167 Score: 250
Period size: 46 Copynumber: 4.7 Consensus size: 47
6937938 TTATCTTCGA
* * * *
6937948 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* * **
6937994 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTGTTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
*
6938041 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCA--TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CTAGTTTTCATGT
* * ** *
6938087 TACGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* * *
6938133 CAGGTTGTCATGATATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
6938168 ACATTTCATT
Statistics
Matches: 151, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 113 0.75
47 36 0.24
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
Found at i:6938112 original size:93 final size:92
Alignment explanation
Indices: 6937948--6938120 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 92
6937938 TTATCTTCGA
* * * *
6937948 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCAG-TTTCTGTCACGTTGCCATGGTATCTT
6938013 TCAACCATGGTCTTATTTGTTTTCCCGT
65 TCAACCATGGTCTTATTTGTTTTCCCGT
* * *
6938041 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCA-TTTCATGTTACGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTA-CCAGTTTC-TGTCACGTTGCCATGGTATCT
6938105 TTCAACCATGGTCTTA
64 TTCAACCATGGTCTTA
6938121 CACATTTCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
92 4 0.06
93 65 0.92
94 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (92 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCAGTTTCTGTCACGTTGCCATGGTATCTTT
CAACCATGGTCTTATTTGTTTTCCCGT
Found at i:6939719 original size:51 final size:51
Alignment explanation
Indices: 6939643--6939905 Score: 445
Period size: 51 Copynumber: 5.2 Consensus size: 51
6939633 CTGATCGCAT
* * * *
6939643 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTATCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
6939694 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
6939745 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
6939796 TTATCACTTGTCATTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
6939847 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
6939898 TTGTCACT
1 TTATCACT
6939906 GATCAGAAGT
Statistics
Matches: 199, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 199 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:6946567 original size:51 final size:51
Alignment explanation
Indices: 6946491--6946600 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
6946481 CTGATCGCAT
*
6946491 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* **
6946542 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
6946593 TTGTCACT
1 TTATCACT
6946601 GATCAGAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:6949249 original size:14 final size:15
Alignment explanation
Indices: 6949216--6949274 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 15
6949206 TAAATATCTT
6949216 ATAATA-TAATTATA
1 ATAATATTAATTATA
6949230 AT-ATATTAATT-TA
1 ATAATATTAATTATA
6949243 ATAATATTAATTACTA
1 ATAATATTAATTA-TA
6949259 AT-ATA-TATATTATA
1 ATAATATTA-ATTATA
6949273 AT
1 AT
6949275 TAAAATCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.17
14 22 0.55
15 7 0.17
16 4 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTAATTATA
Found at i:6949274 original size:21 final size:21
Alignment explanation
Indices: 6949219--6949276 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
6949209 ATATCTTATA
*
6949219 ATATA-ATTATAATATATTAAT
1 ATATATATTATAAT-TACTAAT
* *
6949240 TTA-ATAATATTAATTACTAAT
1 ATATATATTA-TAATTACTAAT
6949261 ATATATATTATAATTA
1 ATATATATTATAATTA
6949277 AAATCTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.03
21 19 0.66
22 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATATTATAATTACTAAT
Found at i:6951380 original size:42 final size:43
Alignment explanation
Indices: 6951306--6951389 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
6951296 TTGTGAGTAT
*
6951306 GGTAAATTCTAATATTATAAAATAAAATAATTATTTTAAATAA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
* *
6951349 GGTAAAATCTAATA-TATAAAATCAATTAATTATTTTAAATA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATA
6951390 TAATTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (43 bp):
GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
Found at i:6951482 original size:30 final size:32
Alignment explanation
Indices: 6951440--6951511 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
6951430 TTTAAATAAT
*
6951440 TATTTC-AATATCATTA-TTTT-TATGTGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
6951469 TATTTCAAATATCAATATTTTTATATGTGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
* *
6951501 AACTTCAAATA
1 TATTTCAAATA
6951512 ATTGCTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.16
30 9 0.24
31 4 0.11
32 18 0.49
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (32 bp):
TATTTCAAATATCAATATTTTTATATGTGAAA
Found at i:6971115 original size:96 final size:95
Alignment explanation
Indices: 6970947--6971237 Score: 483
Period size: 95 Copynumber: 3.1 Consensus size: 95
6970937 ACTCTTGGGT
* *
6970947 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTTTTTCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
**
6971012 CCTCTTTAACCGTCATTTATTCAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6971042 GTTTCGTGGCAATAAACAAGATTGTGGGTCTCGATTTTGGTGAGGTAAGCCAACATCTCTTGCTC
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGA-TTTGGTGAGGTAAGCCAACATCTCTTGCTC
*
6971107 TCCTCTTTAACCCCCGTTTATTCAATTCTAC
65 TCCTCTTTAACCCCCATTTATTCAATTCTAC
6971138 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
* * *
6971203 CCTCTTTAACCCCGATTTGTTTAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6971233 TTTTT
1 GTTTT
6971238 TTGAATTTAG
Statistics
Matches: 183, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
95 94 0.51
96 89 0.49
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (95 bp):
GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
CCTCTTTAACCCCCATTTATTCAATTCTAC
Found at i:6983232 original size:13 final size:14
Alignment explanation
Indices: 6983216--6983244 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6983206 TTTTTTTATC
6983216 TAAATTTAT-TTTT
1 TAAATTTATATTTT
6983229 TAAATTTATATTTT
1 TAAATTTATATTTT
6983243 TA
1 TA
6983245 TTTAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:6983748 original size:90 final size:85
Alignment explanation
Indices: 6983654--6983818 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 85
6983644 ATCTATTTTC
*
6983654 ATAAATATTTTACCTGTTTCATATATTCTGTAAAGAAAACCAAAAAAAAAAATTACTTACAAAAT
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACC----AAAAAAA-TACTTACAAAAT
6983719 TGATAAAATACAACTTATTATTATA
61 TGATAAAATACAACTTATTATTATA
* * * * *
6983744 ATAAATATTTTACCTGTTTTATTTATTCTATAACGAAAACCAAAAAAATACTTGCAAAATTGATC
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
6983809 AAATACAACT
66 AAATACAACT
6983819 CGTTATAATC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 25 0.36
86 7 0.10
90 37 0.54
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.35
Consensus pattern (85 bp):
ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
AAATACAACTTATTATTATA
Found at i:6990097 original size:33 final size:31
Alignment explanation
Indices: 6990021--6990097 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
6990011 TATTTTACAT
*
6990021 AAAAATATAAAAAAATTATATTTTAAAAATAA
1 AAAAATA-AAAAAAATTAAATTTTAAAAATAA
6990053 AAAAATGAAAAAAACATTAAAATTTTTAAAAAT-A
1 AAAAAT-AAAAAAA-ATT-AAA-TTTTAAAAATAA
6990087 AAAAATAAAAA
1 AAAAATAAAAA
6990098 TGATTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 12 0.30
33 9 0.22
34 9 0.22
35 10 0.25
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (31 bp):
AAAAATAAAAAAAATTAAATTTTAAAAATAA
Found at i:6990751 original size:17 final size:17
Alignment explanation
Indices: 6990729--6990767 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6990719 TTTTAAAGAG
* * *
6990729 TTTTTTAATAATTTTTA
1 TTTTTTAAAAATATATA
6990746 TTTTTTAAAAATATATA
1 TTTTTTAAAAATATATA
6990763 TTTTT
1 TTTTT
6990768 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAAAAATATATA
Found at i:6990773 original size:24 final size:24
Alignment explanation
Indices: 6990736--6990797 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 24
6990726 GAGTTTTTTA
6990736 ATAATTTTTATTTTTTAAAAATAT
1 ATAATTTTTATTTTTTAAAAATAT
6990760 AT-ATTTTTA-TTTTTAAAACAT-T
1 ATAATTTTTATTTTTTAAAA-ATAT
6990782 ATAATTTTTTATTTTT
1 ATAA-TTTTTATTTTT
6990798 ATTTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.35
23 10 0.29
24 8 0.24
25 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATAATTTTTATTTTTTAAAAATAT
Found at i:6990798 original size:24 final size:22
Alignment explanation
Indices: 6990736--6990798 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
6990726 GAGTTTTTTA
6990736 ATAA-TTTTTATTTTTTAAAAAT
1 ATAATTTTTTA-TTTTTAAAAAT
6990758 AT-ATATTTTTATTTTTAAAACATT
1 ATAAT-TTTTTATTTTTAAAA-A-T
6990782 ATAATTTTTTATTTTTA
1 ATAATTTTTTATTTTTA
6990799 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 7 0.19
24 15 0.42
25 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATAATTTTTTATTTTTAAAAAT
Found at i:6991233 original size:3 final size:3
Alignment explanation
Indices: 6991225--6991256 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6991215 GAAAAACAGG
*
6991225 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6991257 AAGAGAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6995487 original size:12 final size:12
Alignment explanation
Indices: 6995467--6995498 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6995457 AGCAATTGTC
6995467 GGAGAAGGGGAA
1 GGAGAAGGGGAA
*
6995479 GGGGAAGGGGAA
1 GGAGAAGGGGAA
6995491 GGAGAAGG
1 GGAGAAGG
6995499 AGATAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (12 bp):
GGAGAAGGGGAA
Found at i:6999777 original size:53 final size:53
Alignment explanation
Indices: 6999636--6999783 Score: 199
Period size: 53 Copynumber: 2.8 Consensus size: 53
6999626 ATAATTGCGC
* ** *
6999636 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* *
6999689 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* * *
6999742 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATG
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATATG
6999784 TGAACCGTGT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 84 0.99
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
Found at i:6999799 original size:46 final size:48
Alignment explanation
Indices: 6999727--6999821 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
6999717 ATCGGTATAA
* * **
6999727 TATGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
* *
6999775 TATGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
6999821 T
1 T
6999822 GTGTGATGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 29 0.71
47 6 0.15
48 6 0.15
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (48 bp):
TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
Found at i:7006755 original size:53 final size:52
Alignment explanation
Indices: 7006613--7006761 Score: 192
Period size: 53 Copynumber: 2.8 Consensus size: 52
7006603 GATAAGTGCG
* ** *
7006613 CCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATATGA
1 CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGA
*
7006665 CTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATGTGA
1 C-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGA
* * *
7006718 TCCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATG
1 -CCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATATG
7006762 TGAACCGTGT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
52 2 0.02
53 83 0.97
54 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (52 bp):
CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGA
Found at i:7006777 original size:46 final size:48
Alignment explanation
Indices: 7006705--7006799 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
7006695 ATCGGTATAA
* * **
7006705 TATGATAATGTGATCCCGTATAAGACCATGTCTGGGATATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
* *
7006753 TATGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
7006799 T
1 T
7006800 GTGTGATGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 29 0.71
47 6 0.15
48 6 0.15
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
Found at i:7008468 original size:168 final size:168
Alignment explanation
Indices: 7008174--7008520 Score: 486
Period size: 168 Copynumber: 2.1 Consensus size: 168
7008164 AAGAAACGCG
* * * *
7008174 TTTGTTTAAATTAAGACTTCAATTTTATAGCTTGATAAGTTAGACTTTGTGATGACATGCAATTT
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAA-TT
*
7008239 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTTCAATCACACAAAGGAATATAAGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
7008304 ATGAAACCTTGGGTCTT-AAATTTTGATTCTAGGAAACAT-A
130 ATGAAACCTT-GGTCTTAAAATTTT-ATTCTAGGAAAC-TGA
*
7008344 TTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTTGTGATGACATCCACA-T
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCA-ATT
* * ** * *
7008407 GAATGCTTTTTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGGAATATATGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
* *
7008472 ATGAAATCTTGGTCTTAAAATTTTATTTTAGGAAACTGA
130 ATGAAACCTTGGTCTTAAAATTTTATTCTAGGAAACTGA
*
7008511 TTTGCTTAAA
1 TTTGTTTAAA
7008521 ATTATATCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
166 1 0.01
167 27 0.17
168 75 0.47
169 45 0.28
170 11 0.07
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (168 bp):
TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAATTG
AATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTAA
TGAAACCTTGGTCTTAAAATTTTATTCTAGGAAACTGA
Found at i:7010629 original size:9 final size:9
Alignment explanation
Indices: 7010603--7010636 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7010593 TTTTATTATT
*
7010603 TAATTTAAA
1 TAATTTTAA
7010612 TATATTTTAA
1 TA-ATTTTAA
7010622 TAATTTTAA
1 TAATTTTAA
7010631 TAATTT
1 TAATTT
7010637 ATTATTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTTTAA
Found at i:7015628 original size:12 final size:12
Alignment explanation
Indices: 7015611--7015644 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
7015601 GACACTCCAT
7015611 AAATATTTATAA
1 AAATATTTATAA
7015623 AAATATTTATAA
1 AAATATTTATAA
7015635 AAATATTTAT
1 AAATATTTAT
7015645 GGCTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:7017298 original size:42 final size:42
Alignment explanation
Indices: 7017235--7017361 Score: 154
Period size: 42 Copynumber: 3.0 Consensus size: 42
7017225 CTTCGTTTTC
* *
7017235 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACAT-A
* *
7017278 T-GATGCCATAGCTCATCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACATA
*
7017319 TCGATGCCATAGC-CTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCTC-AACTATGGTCTTACAC-ATATTCACATA
7017360 TC
1 TC
7017362 TCACTGATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
41 11 0.15
42 62 0.83
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACATA
Found at i:7017421 original size:47 final size:47
Alignment explanation
Indices: 7017320--7017446 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
7017310 ATTCATATAT
* * * * * *
7017320 CGATGCCATAGCCTAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
* * *
7017366 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
7017413 CGATGCCATATCCCAGATATGGTCTTATACAGAA
1 CGATGCCATATCCCAGATATGGTCTTATACAGAA
7017447 ATCACTTGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 25 0.36
47 44 0.64
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
Found at i:7017844 original size:21 final size:22
Alignment explanation
Indices: 7017817--7017873 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
7017807 ATATATTAAA
7017817 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
7017839 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
7017860 TTATTGTTATTATT
1 TTATTATTATTATT
7017874 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:7018067 original size:15 final size:16
Alignment explanation
Indices: 7018047--7018091 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
7018037 GAAATAAAGG
7018047 AAAGAAACAGAGT-GA
1 AAAGAAACAGAGTGGA
7018062 AAAGAAACAGAATGTGGA
1 AAAGAAACAG-A-GTGGA
*
7018080 AACGAAACAGAG
1 AAAGAAACAGAG
7018092 AAGAAACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 3 0.12
18 11 0.42
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.07
Consensus pattern (16 bp):
AAAGAAACAGAGTGGA
Found at i:7018086 original size:18 final size:16
Alignment explanation
Indices: 7018045--7018090 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
7018035 AGGAAATAAA
7018045 GGAAAGAAACAG-AGT
1 GGAAAGAAACAGAAGT
*
7018060 GAAAAGAAACAGAATGT
1 GGAAAGAAACAGAA-GT
7018077 GGAAACGAAACAGA
1 GGAAA-GAAACAGA
7018091 GAAGAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 11 0.42
16 1 0.04
17 6 0.23
18 8 0.31
ACGTcount: A:0.57, C:0.09, G:0.28, T:0.07
Consensus pattern (16 bp):
GGAAAGAAACAGAAGT
Found at i:7018464 original size:27 final size:26
Alignment explanation
Indices: 7018430--7018524 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 26
7018420 ATGCCTTATA
*
7018430 GGTGTGTTTGGGAGGATATGATATACT
1 GGTGTGTTT-GGAGGATATGATATTCT
*
7018457 GGTGTGTTATGGAGGATTTATAATATTCT
1 GGTGTGTT-TGGAGGA--TATGATATTCT
7018486 GGTGTGTTT-G-GG-T-TGGATATTCT
1 GGTGTGTTTGGAGGATAT-GATATTCT
7018509 GGTGTGTTTGGGAGGA
1 GGTGTGTTT-GGAGGA
7018525 ATCCGCGTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
22 1 0.02
23 17 0.30
25 1 0.02
26 4 0.07
27 15 0.26
28 2 0.04
29 17 0.30
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.41
Consensus pattern (26 bp):
GGTGTGTTTGGAGGATATGATATTCT
Found at i:7018487 original size:29 final size:27
Alignment explanation
Indices: 7018430--7018524 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 27
7018420 ATGCCTTATA
*
7018430 GGTGTGTTTGGGAGGATATGATATACT
1 GGTGTGTTTGGGAGGATATAATATACT
*
7018457 GGTGTGTTAT-GGAGGATTTATAATATTCT
1 GGTGTGTT-TGGGAGGA--TATAATATACT
*
7018486 GGTGTGTTTGGGTTGG--AT-AT-T-CT
1 GGTGTGTTTGGG-AGGATATAATATACT
7018509 GGTGTGTTTGGGAGGA
1 GGTGTGTTTGGGAGGA
7018525 ATCCGCGTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
22 2 0.03
23 14 0.24
24 1 0.02
25 2 0.03
26 2 0.03
27 14 0.24
28 2 0.03
29 19 0.33
30 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.41
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATAATATACT
Found at i:7018646 original size:18 final size:19
Alignment explanation
Indices: 7018625--7018665 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7018615 AATGAAATGA
7018625 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
7018643 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
7018662 GAAA
1 GAAA
7018666 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:7019919 original size:31 final size:31
Alignment explanation
Indices: 7019883--7020029 Score: 226
Period size: 31 Copynumber: 4.7 Consensus size: 31
7019873 GGGATGTTAC
*
7019883 AGCCGGAACTACCATTTTTCACTGATCAGGT
1 AGCCGGAACTACCACTTTTCACTGATCAGGT
*
7019914 AGCCGGAGCTACCACTTTTCACTGATCAGGT
1 AGCCGGAACTACCACTTTTCACTGATCAGGT
7019945 AGCCGGAACTACCACTTTTCACTGATCAGGT
1 AGCCGGAACTACCACTTTTCACTGATCAGGT
*
7019976 AG-CAGAAGCTACCACTTTTCACTGATCAGGT
1 AGCCGGAA-CTACCACTTTTCACTGATCAGGT
*
7020007 AG-CTGAAGCTACCACTTTTCACT
1 AGCCGGAA-CTACCACTTTTCACT
7020030 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
30 4 0.04
31 106 0.96
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
AGCCGGAACTACCACTTTTCACTGATCAGGT
Found at i:7021773 original size:11 final size:11
Alignment explanation
Indices: 7021759--7021803 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
7021749 AGATAAATAT
7021759 TATTTTATTAA
1 TATTTTATTAA
*
7021770 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
7021783 TATTTTATTAT
1 TATTTTATTAA
7021794 TATTTTATTA
1 TATTTTATTA
7021804 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:7023995 original size:38 final size:39
Alignment explanation
Indices: 7023945--7024328 Score: 378
Period size: 46 Copynumber: 9.1 Consensus size: 39
7023935 CTGATATGAA
* *
7023945 ATGTGTAAGACCATGGTTGAAAGATACCGTGACAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7023984 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7024022 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 -------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
7024068 -TATGTAAGACCATGGTTGAAATATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
7024106 ATATAAAATGTGTAATACCATGGTTGAAAGATACCATGGCAACCTG
1 -------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7024152 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7024190 ATATAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
7024242 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
7024281 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTG
7024327 AT
1 AT
7024329 AGAAAATGAG
Statistics
Matches: 297, Mismatches: 11, Indels: 69
0.79 0.03 0.18
Matches are distributed among these distances:
38 109 0.37
39 1 0.00
41 4 0.01
44 3 0.01
45 36 0.12
46 142 0.48
50 1 0.00
52 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:7024051 original size:46 final size:46
Alignment explanation
Indices: 7023984--7024367 Score: 516
Period size: 46 Copynumber: 8.7 Consensus size: 46
7023974 TGACAACCTG
7023984 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
7024030 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---T---A
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
*
7024070 --TGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
*
7024114 TGTGTAATACCATGGTTGAAAGATACCATGGCAACCTG--------
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
7024152 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
7024197 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
7024243 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAAA
** *
7024290 -GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATAGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* * * *
7024335 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
7024368 TCATGTCAAA
Statistics
Matches: 302, Mismatches: 18, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
38 72 0.24
40 1 0.00
41 1 0.00
43 1 0.00
44 1 0.00
45 46 0.15
46 178 0.59
47 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
Found at i:7024076 original size:84 final size:84
Alignment explanation
Indices: 7023935--7024326 Score: 590
Period size: 84 Copynumber: 4.6 Consensus size: 84
7023925 AGTGTGCTCT
* * * *
7023935 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGACAACCTGTGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTATGTAAGACCATGGT
7024000 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
7024019 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTATGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTATGTAAGACCATGGT
*
7024084 TGAAATATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
* *
7024103 CTGATATAAAATGTGTAATACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTATGTAAGACCATGGT
7024168 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
7024187 CTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---T---A--TGTAAG
7024251 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * **
7024278 GTGACATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 CTGATAT-AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7024327 ATAGAAAATG
Statistics
Matches: 284, Mismatches: 14, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
83 40 0.14
84 167 0.59
86 1 0.00
91 38 0.13
92 35 0.12
93 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (84 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTATGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:7024541 original size:16 final size:17
Alignment explanation
Indices: 7024520--7024552 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7024510 ATGATGGAGC
7024520 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
7024536 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
7024553 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:7029066 original size:25 final size:22
Alignment explanation
Indices: 7029023--7029080 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
7029013 ATATAGTAAA
* * *
7029023 TAAAATATTTTAAATATTTTAAT
1 TAAATTATATTAAAAATTTT-AT
7029046 ATATAATTATATTAAAAATTTTAT
1 -TA-AATTATATTAAAAATTTTAT
7029070 TAAATTATATT
1 TAAATTATATT
7029081 TAATAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 4 0.13
25 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTATATTAAAAATTTTAT
Found at i:7029095 original size:38 final size:36
Alignment explanation
Indices: 7029024--7029100 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 36
7029014 TATAGTAAAT
7029024 AAAATATTTTAAATATTTTAATATATAATTATATTA
1 AAAATATTTTAAATATTTTAATATATAATTATATTA
*
7029060 AAAATTTTATTAAATTATATTTAATA-ATAATTATATTA
1 AAAATATT-TTAAA-TAT-TTTAATATATAATTATATTA
7029098 AAA
1 AAA
7029101 TATGATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 7 0.19
37 5 0.14
38 18 0.49
39 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
AAAATATTTTAAATATTTTAATATATAATTATATTA
Found at i:7029671 original size:2 final size:2
Alignment explanation
Indices: 7029666--7029690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7029656 TTCTCTTTTT
7029666 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7029691 TTGACGCTTA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7039099 original size:6 final size:6
Alignment explanation
Indices: 7039088--7039133 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
7039078 AGCTAAGCTT
7039088 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
1 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
7039134 GAATGCTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.15, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
GCCTCA
Found at i:7044026 original size:52 final size:46
Alignment explanation
Indices: 7044007--7044307 Score: 404
Period size: 46 Copynumber: 6.3 Consensus size: 46
7043997 TGACAAGTGG
* *
7044007 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
7044053 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
7044099 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
7044151 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
7044197 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** * *
7044249 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAT
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
7044295 AAAGTGATAAGTG
1 AAAGTGATAAGTG
7044308 GCTACACTTA
Statistics
Matches: 231, Mismatches: 12, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
46 143 0.62
52 88 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:7044061 original size:98 final size:98
Alignment explanation
Indices: 7043941--7044290 Score: 628
Period size: 98 Copynumber: 3.6 Consensus size: 98
7043931 TTTGAGTACT
* *
7043941 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
7044006 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
7044039 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
7044104 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
7044137 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
7044202 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
7044235 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
7044291 AGATAAAGTG
Statistics
Matches: 244, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 244 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:7044315 original size:37 final size:37
Alignment explanation
Indices: 7044271--7044399 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
7044261 GATAGCTTTA
* *
7044271 GCTACACTTATCTGATCAAGAGATAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
7044308 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
7044345 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
7044382 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
7044400 GGGACAAGTG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:7056884 original size:17 final size:17
Alignment explanation
Indices: 7056862--7056897 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7056852 AAGGCTGTAA
*
7056862 GATAACTTAGAATGATG
1 GATAACTTAGAATAATG
7056879 GATAACTTAGAATAATG
1 GATAACTTAGAATAATG
7056896 GA
1 GA
7056898 ATAAATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (17 bp):
GATAACTTAGAATAATG
Found at i:7060215 original size:46 final size:46
Alignment explanation
Indices: 7060148--7060276 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
7060138 TATAACCCGC
* * * *
7060148 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7060194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7060240 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7060277 TGCCCAAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7061940 original size:25 final size:25
Alignment explanation
Indices: 7061912--7061994 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
7061902 ATGAGCGTCT
7061912 TGATATATGGCTCTTTGGAGCTTCC
1 TGATATATGGCTCTTTGGAGCTTCC
* *
7061937 TGAT-TAAAGGCTCTTTCACGAGCTTCC
1 TGATAT-ATGGCTCTTT--GGAGCTTCC
* * *
7061964 TAGA-ATATGTCTCTTCGAAGCTTCC
1 T-GATATATGGCTCTTTGGAGCTTCC
*
7061989 CGATAT
1 TGATAT
7061995 TGACTCACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
27 16 0.36
28 3 0.07
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
TGATATATGGCTCTTTGGAGCTTCC
Found at i:7062046 original size:24 final size:24
Alignment explanation
Indices: 7062008--7062136 Score: 62
Period size: 25 Copynumber: 5.2 Consensus size: 24
7061998 CTCACTTGAA
* * *
7062008 CTTCCCGATATTGGCTTGTATGAG
1 CTTCCCGTTAATGGCTTGCATGAG
*
7062032 CTTCCCGTTAATGGCTCT-CAGGAG
1 CTTCCCGTTAATGGCT-TGCATGAG
* ** **
7062056 CTTCCCATTATACAGCTCACATGAG
1 CTTCCCGTTA-ATGGCTTGCATGAG
* * * *
7062081 CTTCCTGTTATATGGCTCGAAAGAG
1 CTTCCCGTTA-ATGGCTTGCATGAG
* * *
7062106 CTTTCCGTTTATGTGCTTGTATGAG
1 CTTCCCGTTAATG-GCTTGCATGAG
7062131 CATTCC
1 C-TTCC
7062137 TGAATATAAA
Statistics
Matches: 77, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
24 30 0.39
25 44 0.57
26 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTTGCATGAG
Found at i:7062091 original size:25 final size:25
Alignment explanation
Indices: 7062027--7062092 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
7062017 ATTGGCTTGT
** *
7062027 ATGAGCTTCCCGTTA-ATGGCTCTC
1 ATGAGCTTCCCGTTATACAGCTCAC
* *
7062051 AGGAGCTTCCCATTATACAGCTCAC
1 ATGAGCTTCCCGTTATACAGCTCAC
*
7062076 ATGAGCTTCCTGTTATA
1 ATGAGCTTCCCGTTATA
7062093 TGGCTCGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCAC
Found at i:7062098 original size:25 final size:25
Alignment explanation
Indices: 7061982--7062098 Score: 87
Period size: 24 Copynumber: 4.8 Consensus size: 25
7061972 GTCTCTTCGA
* * *
7061982 AGCTTCCCGATAT-TGACTCACTTG
1 AGCTTCCCGTTATATGGCTCACATG
* * ***
7062006 AACTTCCCGATAT-TGGCTTGTATG
1 AGCTTCCCGTTATATGGCTCACATG
* *
7062030 AGCTTCCCGTTA-ATGGCTCTCAGG
1 AGCTTCCCGTTATATGGCTCACATG
* **
7062054 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
*
7062079 AGCTTCCTGTTATATGGCTC
1 AGCTTCCCGTTATATGGCTC
7062099 GAAAGAGCTT
Statistics
Matches: 70, Mismatches: 21, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
24 46 0.66
25 24 0.34
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:7064004 original size:15 final size:16
Alignment explanation
Indices: 7063971--7064004 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7063961 ATATTATAAT
*
7063971 ATAATTATTCAATTGA
1 ATAATCATTCAATTGA
7063987 ATAATCATTCAA-TGA
1 ATAATCATTCAATTGA
7064002 ATA
1 ATA
7064005 GACACATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAATCATTCAATTGA
Found at i:7071882 original size:7 final size:7
Alignment explanation
Indices: 7071872--7071903 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7071862 TATTTTAAAT
*
7071872 TTTTTAA
1 TTTTGAA
7071879 TTTTGAA
1 TTTTGAA
7071886 TTTTGAA
1 TTTTGAA
7071893 TTTTGAA
1 TTTTGAA
7071900 TTTT
1 TTTT
7071904 AAGAATCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (7 bp):
TTTTGAA
Found at i:7071887 original size:15 final size:15
Alignment explanation
Indices: 7071859--7071903 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
7071849 GTTTTAGGTA
*
7071859 TTTT-ATTTTAAATT
1 TTTTAATTTTGAATT
7071873 TTTTAATTTTGAA-T
1 TTTTAATTTTGAATT
*
7071887 TTTGAATTTTGAATT
1 TTTTAATTTTGAATT
7071902 TT
1 TT
7071904 AAGAATCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTAATTTTGAATT
Found at i:7072981 original size:27 final size:26
Alignment explanation
Indices: 7072902--7072995 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
7072892 AATCTTGAAG
*
7072902 TAAT-TAATATAAATTATTTTTAAAATT
1 TAATATAATATAAATTATATTT--AATT
* **
7072929 AAATATAATAATAAGATT-TAGATAATT
1 TAATATAAT-ATAA-ATTATATTTAATT
*
7072956 TAATATAATCATAAATTATATTTAATA
1 TAATATAAT-ATAAATTATATTTAATT
*
7072983 TAATTTAATATAA
1 TAATATAATATAA
7072996 TAATACATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 7 0.13
27 33 0.62
28 4 0.08
29 6 0.11
30 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATAATATAAATTATATTTAATT
Found at i:7072990 original size:10 final size:10
Alignment explanation
Indices: 7072950--7072996 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
7072940 TAAGATTTAG
7072950 ATAATTTAAT
1 ATAATTTAAT
*
7072960 ATAATCATAA-
1 ATAAT-TTAAT
7072970 ATTATATTTAAT
1 A-TA-ATTTAAT
7072982 ATAATTTAAT
1 ATAATTTAAT
7072992 ATAAT
1 ATAAT
7072997 AATACATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 18 0.58
11 10 0.32
12 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:7073026 original size:33 final size:34
Alignment explanation
Indices: 7072960--7073043 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 34
7072950 ATAATTTAAT
*
7072960 ATAAT-CATAAATTATATTTAATATAATTTAATATA
1 ATAATACATAAA--ATATTTAATATAATTCAATATA
*
7072995 ATAATACATGAAATATTTAA-ATAATTCAATATA
1 ATAATACATAAAATATTTAATATAATTCAATATA
* *
7073028 ATCATATATAAAATAT
1 ATAATACATAAAATAT
7073044 AAATCAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
33 25 0.58
34 8 0.19
35 5 0.12
36 5 0.12
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (34 bp):
ATAATACATAAAATATTTAATATAATTCAATATA
Found at i:7077099 original size:69 final size:67
Alignment explanation
Indices: 7076987--7077118 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 67
7076977 GACTTTGAAA
*
7076987 GCAAGGAAGAAAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAAC
1 GCAAGGAAGAAAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAA-T-TTATTATTTTTAGAAAAAC
7077052 AAAC
64 AAAC
*
7077056 GCAAGGAA-AATAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTTTTTTTAGAAAAAC
1 GCAAGGAAGAA-AATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTATTTTTAGAAAAAC
7077119 TGCTGGCTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
67 18 0.30
68 3 0.05
69 39 0.65
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.27
Consensus pattern (67 bp):
GCAAGGAAGAAAATGGTCCGGTTGCAAAGAGAGTAAAGGTAAATTTATTATTTTTAGAAAAACAA
AC
Found at i:7077885 original size:18 final size:18
Alignment explanation
Indices: 7077862--7077898 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7077852 TGAACAAATC
7077862 ATTTTATGATTTTAATTT
1 ATTTTATGATTTTAATTT
7077880 ATTTTATGATTTTAATTT
1 ATTTTATGATTTTAATTT
7077898 A
1 A
7077899 GTAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTATGATTTTAATTT
Found at i:7085727 original size:44 final size:44
Alignment explanation
Indices: 7085651--7085756 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
7085641 TCACATTTAT
* *
7085651 CACTTGTCACTTCTCACTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
* * * * * * *
7085695 CAGTTATTACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
7085739 CACTTATCACTTATCACT
1 CACTTATCACTTATCACT
7085757 TGCCACTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
Found at i:7085793 original size:58 final size:58
Alignment explanation
Indices: 7085703--7085814 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
7085693 ACCAGTTATT
* *
7085703 ACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGCC
1 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACTTGCC
* *
7085761 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCAGTTATCACTTGTCACT
1 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACT
7085815 GATTAGAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (58 bp):
ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACTTGCC
Found at i:7090138 original size:17 final size:17
Alignment explanation
Indices: 7090112--7090146 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7090102 GATATATATT
*
7090112 TAAAACTATGATTTTAA
1 TAAAAATATGATTTTAA
7090129 TAAAAATATGATTTTAA
1 TAAAAATATGATTTTAA
7090146 T
1 T
7090147 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (17 bp):
TAAAAATATGATTTTAA
Found at i:7092820 original size:28 final size:27
Alignment explanation
Indices: 7092783--7092841 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
7092773 ATTTCATGTA
*
7092783 TTATTATA-TTAAATTATTTAAATATAAT
1 TTATTATATTTAAAAT-TTTAAA-ATAAT
* *
7092811 TTATTGTATTTAAAATTTTAAAATATT
1 TTATTATATTTAAAATTTTAAAATAAT
7092838 TTAT
1 TTAT
7092842 GTACATTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 13 0.48
29 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTATTATATTTAAAATTTTAAAATAAT
Found at i:7095527 original size:14 final size:14
Alignment explanation
Indices: 7095508--7095535 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7095498 GATTAGATTA
7095508 ATTTTCATTATCTT
1 ATTTTCATTATCTT
7095522 ATTTTCATTATCTT
1 ATTTTCATTATCTT
7095536 TCCATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTCATTATCTT
Found at i:7097241 original size:20 final size:21
Alignment explanation
Indices: 7097208--7097258 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7097198 CTATTTTAAA
* *
7097208 TATTTTTAAGACATGTAT-TT
1 TATTTTAAAAACATGTATATT
*
7097228 TATTTTAAAAACATTTATACTT
1 TATTTTAAAAACATGTATA-TT
7097250 TATTTTAAA
1 TATTTTAAA
7097259 TTTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.58
22 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
TATTTTAAAAACATGTATATT
Found at i:7101968 original size:21 final size:22
Alignment explanation
Indices: 7101929--7101973 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
7101919 CATGATTTTG
* *
7101929 TAATTAAAAGTAAAGAAATGAA
1 TAATTAAAAGTAAAAAAATAAA
*
7101951 TAATTTAAA-TAAAAAAATAAA
1 TAATTAAAAGTAAAAAAATAAA
7101972 TA
1 TA
7101974 GATGAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
TAATTAAAAGTAAAAAAATAAA
Found at i:7106745 original size:9 final size:9
Alignment explanation
Indices: 7106731--7106773 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
7106721 AATAAATGTG
7106731 ATTTAAATA
1 ATTTAAATA
7106740 ATTTAATATA
1 ATTTAA-ATA
*
7106750 ATTAATAAT-
1 ATTTA-AATA
7106759 ATTTAAATA
1 ATTTAAATA
7106768 ATTTAA
1 ATTTAA
7106774 TATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 3 0.10
9 16 0.55
10 9 0.31
11 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTTAAATA
Found at i:7106748 original size:31 final size:28
Alignment explanation
Indices: 7106708--7106783 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
7106698 TTTATCAAAA
*
7106708 AATTAAATATAATAATAAATGTGATTTAAAT
1 AATTTAATATAATAATAAA--T-ATTTAAAT
7106739 AATTTAATATAATTAAT-AATATTTAAAT
1 AATTTAATATAA-TAATAAATATTTAAAT
*
7106767 AATTTAATATATTAATA
1 AATTTAATATAATAATA
7106784 TATAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 1 0.02
31 13 0.32
32 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTTAATATAATAATAAATATTTAAAT
Found at i:7109240 original size:2 final size:2
Alignment explanation
Indices: 7109233--7109262 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
7109223 ATATTAAGTT
7109233 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
7109263 TAATACATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7112302 original size:3 final size:3
Alignment explanation
Indices: 7112294--7112325 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7112284 TTTTTCTTTA
7112294 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7112326 AAAAAGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7112342 original size:11 final size:12
Alignment explanation
Indices: 7112325--7112357 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7112315 TATTATTATT
7112325 AAAAAAGGAAAG
1 AAAAAAGGAAAG
7112337 -AAAAA-GAAAG
1 AAAAAAGGAAAG
7112347 AAAAAAGGAAA
1 AAAAAAGGAAA
7112358 TCTGAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.26
11 10 0.53
12 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAGGAAAG
Found at i:7133907 original size:23 final size:23
Alignment explanation
Indices: 7133875--7133953 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
7133865 AACATCGCTG
* *
7133875 AAGCGAATAACAGAACACTGCCA
1 AAGCGGATAATAGAACACTGCCA
*
7133898 AAGTGGATAATAGAACA-TCGCCA
1 AAGCGGATAATAGAACACT-GCCA
* * *
7133921 AAGCGGGTAATAGAACACCGCCG
1 AAGCGGATAATAGAACACTGCCA
7133944 AAGCGGATAA
1 AAGCGGATAA
7133954 ACAAAGTGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AAGCGGATAATAGAACACTGCCA
Found at i:7133925 original size:46 final size:46
Alignment explanation
Indices: 7133858--7133953 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
7133848 TATACATAAC
** * *
7133858 ATAACAGAACATCGCTGAAGCGAATAACAGAACACTGCCAAAGTGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
* ** * *
7133904 ATAATAGAACATCGCCAAAGCGGGTAATAGAACACCGCCGAAGCGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
7133950 ATAA
1 ATAA
7133954 ACAAAGTGCG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (46 bp):
ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
Found at i:7137815 original size:18 final size:18
Alignment explanation
Indices: 7137792--7137831 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7137782 CAACAGATAC
*
7137792 GGTCATACGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
7137810 GGTCATAAGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
7137828 GGTC
1 GGTC
7137832 CACTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (18 bp):
GGTCATAAGCCTTTTCTA
Found at i:7141190 original size:29 final size:29
Alignment explanation
Indices: 7141170--7141244 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 29
7141160 TAAACCGACT
7141170 ACTACCTCCATCACCCTACTAAACCATCC
1 ACTACCTCCATCACCCTACTAAACCATCC
* *
7141199 ACTACCTTCATCACCC--C-ACACTC-TCC
1 ACTACCTCCATCACCCTACTAAAC-CATCC
7141225 ACTACCTCCATCACCCTACT
1 ACTACCTCCATCACCCTACT
7141245 TGTTATAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 21 0.54
27 2 0.05
28 1 0.03
29 15 0.38
ACGTcount: A:0.27, C:0.51, G:0.00, T:0.23
Consensus pattern (29 bp):
ACTACCTCCATCACCCTACTAAACCATCC
Found at i:7141236 original size:26 final size:28
Alignment explanation
Indices: 7141152--7141240 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
7141142 TCAAATTAAA
*
7141152 CACCACACTAAACCGA-CTACTACCTCCAT
1 CACC-CACTAAACC-ATCCACTACCTCCAT
*
7141181 CACCCTACTAAACCATCCACTACCTTCAT
1 CACCC-ACTAAACCATCCACTACCTCCAT
*
7141210 CACCC-C-ACACTC-TCCACTACCTCCAT
1 CACCCACTAAAC-CATCCACTACCTCCAT
7141236 CACCC
1 CACCC
7141241 TACTTGTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 21 0.40
27 2 0.04
28 2 0.04
29 28 0.53
ACGTcount: A:0.29, C:0.51, G:0.01, T:0.19
Consensus pattern (28 bp):
CACCCACTAAACCATCCACTACCTCCAT
Found at i:7141651 original size:11 final size:11
Alignment explanation
Indices: 7141631--7141664 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7141621 ATGTTTCATA
7141631 TTATTATATTAT
1 TTATT-TATTAT
7141643 TTATTTATTAT
1 TTATTTATTAT
*
7141654 ATATTTATTAT
1 TTATTTATTAT
7141665 GTAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:7141652 original size:16 final size:15
Alignment explanation
Indices: 7141631--7141662 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7141621 ATGTTTCATA
7141631 TTATTATATTATTTAT
1 TTATTATA-TATTTAT
7141647 TTATTATATATTTAT
1 TTATTATATATTTAT
7141662 T
1 T
7141663 ATGTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTATATATTTAT
Found at i:7141659 original size:64 final size:63
Alignment explanation
Indices: 7141520--7141653 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
7141510 CCTTTCTTTA
* * *
7141520 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTGTT
* * *
7141584 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA-TTATT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATTTGTT
*
7141644 TATTTATTAT
1 TTTTTATTAT
7141654 ATATTTATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 13 0.21
61 13 0.21
62 4 0.06
63 20 0.32
64 12 0.19
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.63
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTGTT
Found at i:7142286 original size:29 final size:30
Alignment explanation
Indices: 7142236--7142303 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
7142226 TGGCCCAAGA
* * *
7142236 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
7142266 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
7142296 GCAAATAT
1 GTAAATAT
7142304 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:7144764 original size:46 final size:46
Alignment explanation
Indices: 7144706--7145160 Score: 738
Period size: 46 Copynumber: 10.0 Consensus size: 46
7144696 AGTGTGCTCT
* * * *
7144706 CTGAAATGAAATGTGTAAAACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7144752 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7144798 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7144844 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7144890 CTGATATGAAATGTGT---ACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7144933 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7144979 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7145025 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7145071 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
7145117 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
7145161 TCATGTCAAA
Statistics
Matches: 387, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
43 43 0.11
45 1 0.00
46 343 0.89
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7146190 original size:126 final size:126
Alignment explanation
Indices: 7145965--7146208 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
7145955 CATTGATCTT
* *
7145965 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
7146030 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
* * *
7146091 CTCTCAAAAATTTTCATAATAAAGGCAATTTTCGGTATTTAAAAAATTTGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
7146156 ACGTACTGGGTTTCACTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
7146209 AGGCTAAAAC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:7149738 original size:21 final size:21
Alignment explanation
Indices: 7149714--7149758 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7149704 GAGGGATCAA
*
7149714 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
7149735 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
7149756 ATG
1 ATG
7149759 ATGAGCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:7152331 original size:14 final size:14
Alignment explanation
Indices: 7152301--7152368 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
7152291 TACTTCACTT
7152301 AAAAAA-AAGAAGA-
1 AAAAAAGAA-AAGAG
*
7152314 AAAAAAGGAAAGAG
1 AAAAAAGAAAAGAG
7152328 AAAAAAGAAAAG-G
1 AAAAAAGAAAAGAG
7152341 -AAAAAG--AAGAG
1 AAAAAAGAAAAGAG
7152352 AAAACAA-AAAAGAG
1 AAAA-AAGAAAAGAG
7152366 AAA
1 AAA
7152369 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
10 3 0.07
11 1 0.02
12 9 0.20
13 13 0.28
14 20 0.43
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGAG
Found at i:7152361 original size:17 final size:18
Alignment explanation
Indices: 7152331--7152378 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
7152321 GAAAGAGAAA
**
7152331 AAAGAAAAGGAAAAAGA-
1 AAAGAAAACAAAAAAGAG
*
7152348 AGAGAAAACAAAAAAGAG
1 AAAGAAAACAAAAAAGAG
*
7152366 AAAGAAAATAAAA
1 AAAGAAAACAAAA
7152379 GCAAAGGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAGAAAACAAAAAAGAG
Found at i:7153907 original size:44 final size:46
Alignment explanation
Indices: 7153859--7153945 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
7153849 CTAAATATAG
* *
7153859 CAGATCTCATC-CCACTG-GCTGGAGTGGAACAGATCAAATTTCGA
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTTCGA
* * * *
7153903 CAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTT
7153946 TGGCGAATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 10 0.29
45 4 0.11
46 21 0.60
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (46 bp):
CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGATCAAATTTCGA
Found at i:7153948 original size:179 final size:176
Alignment explanation
Indices: 7153636--7154076 Score: 695
Period size: 179 Copynumber: 2.5 Consensus size: 176
7153626 CAGATTTTGG
* * *
7153636 CAAGCCTTATCCCACTGAGCAGGAGTGGAATAGGCTAAATATAGCAGATCTCATCCTACTGGCAC
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* * * *
7153701 GAGTGGAATATATCAAATTTCGACAGATCTTATCTTCGTTGATCAGGAGCGGAGCAAATCAAATT
66 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATT
7153766 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
131 TTGGCGAATCTTACCTCCATGTA--GGCAATGGAGCAGATTTCAGCCA
* * *
7153814 CCAGCCTTATCTTCACTGAGCAAGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGC
1 CAAGCCTTATC-CCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGC
* *
7153878 TGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAA
64 AGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAA
* *
7153943 TTTTGGCGAATCTTATCTCTATGTAGGCAATGGAGCAGATTTCAGCCA
129 TTTTGGCGAATCTTACCTCCATGTAGGCAATGGAGCAGATTTCAGCCA
* *
7153991 CAAGCCTTATCCCACTGAGTAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGACAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
7154056 GAGTGGAACAGATCAAATTTC
66 GAGTGGAACAGATCAAATTTC
7154077 AGCGGATCTT
Statistics
Matches: 240, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
176 66 0.28
177 36 0.15
178 13 0.05
179 125 0.52
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (176 bp):
CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATT
TTGGCGAATCTTACCTCCATGTAGGCAATGGAGCAGATTTCAGCCA
Found at i:7154380 original size:132 final size:132
Alignment explanation
Indices: 7153922--7154395 Score: 568
Period size: 132 Copynumber: 3.6 Consensus size: 132
7153912 TCTTCGCTGA
* * ** *
7153922 GCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCTATGTA--GGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * *
7153985 CAGCCACAAGCCTTATCCCACTGAGTAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
66 CAACCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGTAGATCTCATCCCAC
7154050 TG
131 TG
* * *
7154052 ACAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCT-CATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * * * * *
7154116 CAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCACGCTAAA-CT-CTAGATCTTATCTTC
66 CAACCACCAGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATAGTAGATCTCATC-CC
*
7154179 GCTG
129 ACTG
* *
7154183 AGCAGGAGTGGAGCAGATCAAATTT-TGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGA-
1 -GCAGGAGTGGAACAGATCAAATTTCAG-CGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * *
7154246 TTCAAACCACCAGCGTTATCCCACTAAGCAGGAGTAGAACAGGCTAAATATAGTAGATCTCATCC
64 TTC-AACCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGTAGATCTCATCC
7154311 CACTG
128 CACTG
* * *
7154316 GCAGGAGTGGAATAGATCAAATTTCAGCGGATCTTATCTCCATGTATCGACAATGGAGCAGA-TT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
*
7154380 CAAACCACCAGTCTTA
66 C-AACCACCAGCCTTA
7154396 ACCCCCTAAA
Statistics
Matches: 290, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
129 5 0.02
130 41 0.14
131 39 0.13
132 153 0.53
133 42 0.14
134 10 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (132 bp):
GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
CAACCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGTAGATCTCATCCCAC
TG
Found at i:7154779 original size:85 final size:85
Alignment explanation
Indices: 7154563--7155124 Score: 709
Period size: 85 Copynumber: 6.6 Consensus size: 85
7154553 CAAAGATACA
*
7154563 CGCCTTAACCCCCTAAGCAGTAGGGTATCAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
* *
7154628 GGCGGAGCAGATCAAAGATACA
66 GGCGGAGCAGGTCAAAG--ACT
* * *
7154650 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATGTACAGATCTGGGCTCGCCTAGTAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
* *
7154715 GGCGGAGTAGGTCGAAGACT
66 GGCGGAGCAGGTCAAAGACT
** * *
7154735 CGCCTTAACCTTCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TGGGCTCGCCAAGCAG
*
7154799 TGGCGGAGCAGATCAAAGA-T
65 TGGCGGAGCAGGTCAAAGACT
* *
7154819 ACATGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATCTGGGCTCGCCGAGC
1 -C--GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGC
** * *
7154884 AGTGGTAGAGTAGGTCGAAGACT
63 AGTGGCGGAGCAGGTCAAAGACT
* *
7154907 CGCCTTAACCCCCTAATCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCAAGCAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TGGGCTCGCCAAGCAG
* *
7154971 TGGTGGAGCAAGTCAAAGACT
65 TGGCGGAGCAGGTCAAAGACT
* * * * ** * **
7154992 CACCTTAGCTCTCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTCTCTGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
* *
7155057 GGTGGAGCAGGTCGAAGACT
66 GGCGGAGCAGGTCAAAGACT
* *
7155077 CGCCTTAACCCCTTAAGCAATAGGGTAACAGGCTAAAA-TTACAGATCT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
7155125 TATTTTCGTT
Statistics
Matches: 414, Mismatches: 53, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
84 13 0.03
85 251 0.61
86 1 0.00
87 147 0.36
88 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (85 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
GGCGGAGCAGGTCAAAGACT
Found at i:7154779 original size:172 final size:171
Alignment explanation
Indices: 7154563--7155121 Score: 815
Period size: 172 Copynumber: 3.3 Consensus size: 171
7154553 CAAAGATACA
* *
7154563 CGCCTTAACCCCCTAAGCAGTAGGGTATCAGGCTAAAATTTACAGA-TCTGGGCTCGCCAAGCAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGACT-TGGGCTCGCCAAGCAG
*
7154627 TGGCGGAGCAGATCAAAGATACACGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATGTA
65 TGGCGGAGCAGATCAAAGATACA-GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTA
* *
7154692 CAGATCTGGGCTCGCCTAGTAGTGGCGGAGTAGGTCGAAGACT
129 CAGATCTGGGCTCGCCTAGCAGTGGTGGAGTAGGTCGAAGACT
** *
7154735 CGCCTTAACCTTCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGACTTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGACTTGGGCTCGCCAAGCAGT
7154800 GGCGGAGCAGATCAAAGATACATGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTAC
66 GGCGGAGCAGATCAAAGATACA-GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTAC
* * *
7154865 AAATCTGGGCTCGCCGAGCAGTGGTAGAGTAGGTCGAAGACT
130 AGATCTGGGCTCGCCTAGCAGTGGTGGAGTAGGTCGAAGACT
*
7154907 CGCCTTAACCCCCTAATCAGTAGGGTAACAGGCTAAAGTTTACAGACTTGGGCTCGCCAAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGACTTGGGCTCGCCAAGCAGT
* * * *
7154972 GGTGGAGCA-AGTCAAAGACT-CA-CCTTAGCTCTCTAAGCAGTAGGGTAACAGGCTAAAATTTA
66 GGCGGAGCAGA-TCAAAGA-TACAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTA
** * *
7155034 CAGATCTTAGCTC-TCTGAGCAGTGGTGGAGCAGGTCGAAGACT
129 CAGATCTGGGCTCGCCT-AGCAGTGGTGGAGTAGGTCGAAGACT
* * *
7155077 CGCCTTAACCCCTTAAGCAATAGGGTAACAGGCTAAA-ATTACAGA
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA
7155122 TCTTATTTTC
Statistics
Matches: 352, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
169 8 0.02
170 105 0.30
171 1 0.00
172 236 0.67
173 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (171 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGACTTGGGCTCGCCAAGCAGT
GGCGGAGCAGATCAAAGATACAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACA
GATCTGGGCTCGCCTAGCAGTGGTGGAGTAGGTCGAAGACT
Found at i:7155139 original size:85 final size:85
Alignment explanation
Indices: 7154392--7155125 Score: 666
Period size: 87 Copynumber: 8.5 Consensus size: 85
7154382 AACCACCAGT
* * * * *
7154392 CTTAACCCCCTAAACAGTAGGGTAACAGGCTAAAAACTACAGATCTT-GTCTC-CTTAAGCTGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTGGGCTCGC-TAAGCAGTG
*
7154455 GTGGAGCAGATCAAAGATACACGC
64 GTGGAGCAGATCAAAG--ACTCGC
* * * * * * * * ** * * *
7154479 TTTAACTCCTTAAGCAATAGGGTCACAAGTTAAAGATTATAGATCTT-ATCTC-CTTAAGAAATA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTGGGCTCGC-TAAGCAGTG
* * *
7154542 ATGGAACAGATCAAAGATACACGC
64 GTGGAGCAGATCAAAG--ACTCGC
* *
7154566 CTTAACCCCCTAAGCAGTAGGGTATCAGGCTAAAATTTACAGATC-TGGGCTCGCCAAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTGGGCTCGCTAAGCAGTGG
* *
7154630 CGGAGCAGATCAAAGATACACGC
65 TGGAGCAGATCAAAG--ACTCGC
*
7154653 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATGTACAGATC-TGGGCTCGCCT-AGTAGTG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TACAGATCTTGGGCTCG-CTAAGCAGTG
* * * *
7154716 GCGGAGTAGGTCGAAGACTCGC
64 GTGGAGCAGATCAAAGACTCGC
** * **
7154738 CTTAACCTTCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTGGGCTCGCTAAGCAGTGG
*
7154802 CGGAGCAGATCAAAGA-TACATGC
65 TGGAGCAGATCAAAGACT-C--GC
* **
7154825 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATC-TGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTGGGCTCGCTAAGCAGTGG
* * * *
7154889 TAGAGTAGGTCGAAGACTCGC
65 TGGAGCAGATCAAAGACTCGC
* * *
7154910 CTTAACCCCCTAATCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCAAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTGGGCTCGCTAAGCAGTGG
*
7154974 TGGAGCA-AGTCAAAGACTCAC
65 TGGAGCAGA-TCAAAGACTCGC
* * * * * *
7154995 CTTAGCTCTCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTT-AGCTCTCTGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTGGGCTCGCTAAGCAGTGG
* *
7155059 TGGAGCAGGTCGAAGACTCGC
65 TGGAGCAGATCAAAGACTCGC
* *
7155080 CTTAACCCCTTAAGCAATAGGGTAACAGGCTAAAATTACAGATCTT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTT
7155126 ATTTTCGTTG
Statistics
Matches: 542, Mismatches: 84, Indels: 45
0.81 0.13 0.07
Matches are distributed among these distances:
84 15 0.03
85 243 0.45
86 10 0.02
87 270 0.50
88 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTGGGCTCGCTAAGCAGTGGT
GGAGCAGATCAAAGACTCGC
Done.