Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 309 of 325
Found at i:100151574 original size:51 final size:51
Alignment explanation
Indices: 100151462--100151588 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
100151452 AAGATAACAT
100151462 GTAAAAAATATATATATAAATAATATAATATTAAAGATTATACATAAAATA
1 GTAAAAAATATATATATAAATAATATAATATTAAAGATTATACATAAAATA
* ** * *
100151513 GTATAAAATATATATATACGTAATATAGA-ATTTAAA-A-TATACCTAATATA
1 GTAAAAAATATATATATAAATAATATA-ATA-TTAAAGATTATACATAAAATA
* *
100151563 TTAAAAGAATATATATA-ATATAATAT
1 GTAAAA-AATATATATATAAATAATAT
100151589 TAAGAAATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 22 0.34
51 36 0.56
52 6 0.09
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (51 bp):
GTAAAAAATATATATATAAATAATATAATATTAAAGATTATACATAAAATA
Found at i:100151603 original size:23 final size:25
Alignment explanation
Indices: 100151560--100151605 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100151550 TATACCTAAT
100151560 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
100151585 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
100151606 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:100151605 original size:45 final size:48
Alignment explanation
Indices: 100151473--100151605 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 48
100151463 TAAAAAATAT
* * * *
100151473 ATATATAAATAATATAATATTAAAGATTATACATAAAATAGTATAAAAT
1 ATATATATATAATATAATATTAAA-AATATACATAATATAGTATAAAAG
* *
100151522 ATATATATACGTAATATAGA-ATTTAAAATATACCTAATATA-T-TAAAAG
1 ATATATATA--TAATATA-ATATTAAAAATATACATAATATAGTATAAAAG
100151570 A-ATATATATAATATAATATTAAGAAATATA-ATAATA
1 ATATATATATAATATAATATTAA-AAATATACATAATA
100151606 ACAAAAAAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
44 1 0.01
45 16 0.23
46 7 0.10
47 7 0.10
48 6 0.08
49 9 0.13
50 12 0.17
51 12 0.17
52 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (48 bp):
ATATATATATAATATAATATTAAAAATATACATAATATAGTATAAAAG
Found at i:100152176 original size:30 final size:30
Alignment explanation
Indices: 100152137--100152357 Score: 361
Period size: 30 Copynumber: 7.4 Consensus size: 30
100152127 AATGGAGCAA
* *
100152137 GTGTTGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
100152167 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* *
100152197 GAGTAGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
100152227 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* *
100152257 GAGTGGCTAGTGGAGTTGGTGGTGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
100152287 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
100152317 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
100152347 GAGTGGCTAGT
1 GTGTGGCTAGT
100152358 TGAGAAAAGT
Statistics
Matches: 176, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 176 1.00
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:100163708 original size:21 final size:21
Alignment explanation
Indices: 100163682--100163722 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
100163672 TAAACAATAT
100163682 AATGGTTTTGCCTTTTAACTG
1 AATGGTTTTGCCTTTTAACTG
*
100163703 AATGGTTTTGGCTTTTAACT
1 AATGGTTTTGCCTTTTAACT
100163723 TTATAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (21 bp):
AATGGTTTTGCCTTTTAACTG
Found at i:100175774 original size:43 final size:45
Alignment explanation
Indices: 100175707--100175826 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 45
100175697 TGTGAGCAAA
** * * *
100175707 TTATCTGCACTTTTGAATGATTTATCCACACC-ATTTGAGC-A-GC
1 TTATCTGCACCATTGAGTGGTTTATCCACACCGAATT-AGCAACGC
* *
100175750 TTATCTGCACCATTGAGTGGTTTATCCATACCGAATTAGCAACGT
1 TTATCTGCACCATTGAGTGGTTTATCCACACCGAATTAGCAACGC
* *
100175795 TTATCTACACCAATGAGTGGTTTATCCACACC
1 TTATCTGCACCATTGAGTGGTTTATCCACACC
100175827 CTACTAGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 30 0.47
44 4 0.06
45 30 0.47
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (45 bp):
TTATCTGCACCATTGAGTGGTTTATCCACACCGAATTAGCAACGC
Found at i:100175835 original size:45 final size:45
Alignment explanation
Indices: 100175750--100175836 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
100175740 TTTGAGCAGC
* * * * *
100175750 TTATCTGCACCATTGAGTGGTTTATCCATACCGAATTAGCAACGT
1 TTATCTACACCAATGAGTGGTTTATCCACACCCAACTAGCAACGT
*
100175795 TTATCTACACCAATGAGTGGTTTATCCACACCCTACTAGCAA
1 TTATCTACACCAATGAGTGGTTTATCCACACCCAACTAGCAA
100175837 TTTATTTGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (45 bp):
TTATCTACACCAATGAGTGGTTTATCCACACCCAACTAGCAACGT
Found at i:100177677 original size:3 final size:3
Alignment explanation
Indices: 100177669--100177746 Score: 54
Period size: 3 Copynumber: 26.3 Consensus size: 3
100177659 TTTACCCCTG
* * **
100177669 TTA TTA TTA TTA TCA TTA TT- TTA TCTA CTTA TTA TCA TTA AGA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA
* * *
100177714 TGA TTA TTA ATA TTA TTA TTA -CA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
100177747 AGTATTCCTT
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.84
4 4 0.07
5 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:100177752 original size:11 final size:11
Alignment explanation
Indices: 100177669--100177752 Score: 51
Period size: 11 Copynumber: 7.2 Consensus size: 11
100177659 TTTACCCCTG
100177669 TTATTATTATTA
1 TTATTA-TATTA
* *
100177681 TCATTATTTTA
1 TTATTATATTA
*
100177692 TCTACTTATTATCA
1 T-TA-TTA-TATTA
** *
100177706 TTAAGATATGA
1 TTATTATATTA
100177717 TTATTAATATTA
1 TTATT-ATATTA
*
100177729 TTATTACATTA
1 TTATTATATTA
*
100177740 TTATTATAGTA
1 TTATTATATTA
100177751 TT
1 TT
100177753 CCTTTATTTA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
11 28 0.52
12 17 0.31
13 5 0.09
14 4 0.07
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (11 bp):
TTATTATATTA
Found at i:100180239 original size:33 final size:33
Alignment explanation
Indices: 100180175--100180241 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
100180165 TACTTTCTTT
* * *
100180175 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
*
100180208 TTGGTGTGATGGATGGATTGGCTC-GAGTGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGA-TGAGCA
100180241 T
1 T
100180242 CTATTGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.16, C:0.09, G:0.37, T:0.37
Consensus pattern (33 bp):
TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
Found at i:100195182 original size:20 final size:20
Alignment explanation
Indices: 100195154--100195192 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100195144 AGATATGACC
*
100195154 CATTAAAAACCTTCCAAATA
1 CATTAAAAACCTTCAAAATA
* *
100195174 CATTGAAAAGCTTCAAAAT
1 CATTAAAAACCTTCAAAAT
100195193 TTCGAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (20 bp):
CATTAAAAACCTTCAAAATA
Found at i:100202446 original size:21 final size:22
Alignment explanation
Indices: 100202420--100202466 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
100202410 CTCTGCTCAA
*
100202420 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
100202441 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
100202463 ACTC
1 ACTC
100202467 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:100209401 original size:10 final size:10
Alignment explanation
Indices: 100209388--100209429 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
100209378 AAAATATCTA
100209388 AAAAAATTAT
1 AAAAAATTAT
*
100209398 AAAAAA-TCT
1 AAAAAATTAT
100209407 AAAAAATT-T
1 AAAAAATTAT
*
100209416 AAAAAAATAT
1 AAAAAATTAT
100209426 AAAA
1 AAAA
100209430 TAAAACTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:100209406 original size:20 final size:19
Alignment explanation
Indices: 100209376--100209429 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
100209366 TCAGATTTTA
100209376 AAAAAATATCTAAAAAAATT
1 AAAAAA-ATCTAAAAAAATT
*
100209396 ATAAAAAATCTAAAAAATTT
1 A-AAAAAATCTAAAAAAATT
*
100209416 AAAAAAATATAAAA
1 AAAAAAATCTAAAA
100209430 TAAAACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 12 0.39
20 14 0.45
21 5 0.16
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATCTAAAAAAATT
Found at i:100209545 original size:20 final size:21
Alignment explanation
Indices: 100209522--100209566 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
100209512 AAAATCATAT
*
100209522 AAAATTTATGAAAA-TAT-TTA
1 AAAATTT-TAAAAATTATATTA
100209542 AAAATTTTAAAAATTATATTA
1 AAAATTTTAAAAATTATATTA
100209563 AAAA
1 AAAA
100209567 CATTTTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATTTTAAAAATTATATTA
Found at i:100213459 original size:18 final size:18
Alignment explanation
Indices: 100213438--100213478 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
100213428 AATAGGAAAG
*
100213438 AGGTTATAA-GAAGATGAA
1 AGGTT-TAAGGAAGATAAA
100213456 AGGTTTAAGGAAGATAAA
1 AGGTTTAAGGAAGATAAA
100213474 AGGTT
1 AGGTT
100213479 CACTGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGTTTAAGGAAGATAAA
Found at i:100214519 original size:10 final size:10
Alignment explanation
Indices: 100214504--100214528 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
100214494 TGAAGATATT
100214504 AAAAATAATA
1 AAAAATAATA
100214514 AAAAATAATA
1 AAAAATAATA
100214524 AAAAA
1 AAAAA
100214529 ACAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATAATA
Found at i:100214655 original size:18 final size:18
Alignment explanation
Indices: 100214632--100214666 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100214622 AAGGATGAAG
100214632 AAATAATAAT-AAATAAAT
1 AAATAA-AATAAAATAAAT
100214650 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
100214667 AATTTTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAATAAAATAAAT
Found at i:100216373 original size:6 final size:6
Alignment explanation
Indices: 100216364--100216396 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
100216354 ACCTGATCTT
*
100216364 CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCC
100216397 CATCCTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTTC
Found at i:100217542 original size:17 final size:19
Alignment explanation
Indices: 100217520--100217562 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
100217510 ATGGAAATAT
100217520 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
100217537 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
100217556 AATCTTA
1 AATCTTA
100217563 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:100217552 original size:19 final size:19
Alignment explanation
Indices: 100217528--100217564 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
100217518 ATAATCTTCA
100217528 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100217547 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
100217565 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100217590 original size:22 final size:22
Alignment explanation
Indices: 100217528--100217587 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
100217518 ATAATCTTCA
*
100217528 ATGATATGCAATCTT---AGAT
1 ATGATATACAATCTTAGAAGAT
*
100217547 ATGATATGCAATCTTAGAAGAT
1 ATGATATACAATCTTAGAAGAT
*
100217569 ATGATTATATAATCTTAGA
1 ATGA-TATACAATCTTAGA
100217588 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (22 bp):
ATGATATACAATCTTAGAAGAT
Found at i:100217878 original size:18 final size:17
Alignment explanation
Indices: 100217855--100217888 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100217845 GTTTTCCTAT
*
100217855 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
100217873 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
100217889 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:100226485 original size:89 final size:89
Alignment explanation
Indices: 100226291--100226478 Score: 295
Period size: 89 Copynumber: 2.1 Consensus size: 89
100226281 GACGGAGAGA
* *
100226291 AGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAGATGATTT
1 AGATCGAAGACATAACAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCAAAGATGATTT
* ** *
100226356 GGCATCTTTGGGTTGACCAGGAGC
66 GGCATCCTTGCATTGACAAGGAGC
* * *
100226380 AGATTGAAGACATAACAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCAAAGATGATTT
1 AGATCGAAGACATAACAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCAAAGATGATTT
100226445 GGCATCCTTGCATTGACAAGGAGC
66 GGCATCCTTGCATTGACAAGGAGC
100226469 AGATCGAAGA
1 AGATCGAAGA
100226479 TGTAACACCC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AGATCGAAGACATAACAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCAAAGATGATTT
GGCATCCTTGCATTGACAAGGAGC
Found at i:100227914 original size:40 final size:39
Alignment explanation
Indices: 100227867--100228111 Score: 276
Period size: 40 Copynumber: 6.2 Consensus size: 39
100227857 CTTGCACAAG
* * * *
100227867 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGTATAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTCACTAGCACAAAT
* *
100227907 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTCACTAGCACAAAT
* *
100227947 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGTACAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTC-ACTAGCACAAAT
* * * * *
100227987 GCCTTCGGATCTTAGTCCGGATTAGTAACTCGTACAAAT
1 GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
* * * *
100228026 GCCTTCGGATCTTAGTCCGGATTAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
*
100228065 GCCTTCGGGACTTAGCCCGGGATTAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCC-GGATTAGTCACTAGCACAAAT
100228105 GCCTTCG
1 GCCTTCG
100228112 TTATCATCCG
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 69 0.38
40 114 0.62
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
Found at i:100228088 original size:79 final size:79
Alignment explanation
Indices: 100227831--100228111 Score: 302
Period size: 79 Copynumber: 3.6 Consensus size: 79
100227821 ACCCAAGTAT
* ** * * * * *
100227831 CTTCGGGATTTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAACCCGGATATGGT
1 CTTCGGGACTTAGCCCGGAT-TAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAG-
* * *
100227894 C-ACTAGTATAAATGC
64 CAACTCGCACAAATGC
* *
100227909 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAGCCCGGAT-TAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGC
*
100227974 AACTCGTACAAATGC
65 AACTCGCACAAATGC
* * * * * *
100227989 CTTC-GGATCTTAGTCCGGATTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGGAT-TAGT
1 CTTCGGGA-CTTAGCCCGGATTAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGC
100228052 AACTCGCACAAATGC
65 AACTCGCACAAATGC
100228067 CTTCGGGACTTAGCCCGGGATTAGTCACTAGCACAAATGCCTTCG
1 CTTCGGGACTTAGCCC-GGATTAGTCACTAGCACAAATGCCTTCG
100228112 TTATCATCCG
Statistics
Matches: 174, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
78 40 0.23
79 81 0.47
80 53 0.30
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATTAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:100236312 original size:40 final size:39
Alignment explanation
Indices: 100236265--100236509 Score: 285
Period size: 40 Copynumber: 6.2 Consensus size: 39
100236255 CTTGCACAAG
* * * *
100236265 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGTATAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTCACTAGCACAAAT
* *
100236305 GCCTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTCACTAGCACAAAT
*
100236345 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGTACAAAT
1 GCCTTCGGGTCTTAGCCCGGAT-TAGTC-ACTAGCACAAAT
* ** * *
100236385 GCCTTCGGATCTTAGTTCGGATTAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
* * * *
100236424 GCCTTCGGATCTTAGTCCGGATTAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
*
100236463 GCCTTCGGGACTTAGCCCGAGATTAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCG-GATTAGTCACTAGCACAAAT
100236503 GCCTTCG
1 GCCTTCG
100236510 TTATCATCCG
Statistics
Matches: 181, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 68 0.38
40 113 0.62
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATTAGTCACTAGCACAAAT
Found at i:100236487 original size:79 final size:79
Alignment explanation
Indices: 100236229--100236509 Score: 302
Period size: 79 Copynumber: 3.6 Consensus size: 79
100236219 ACCCAAGTAT
* ** * * * * *
100236229 CTTCGGGATTTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAACCCGGATATGGT
1 CTTCGGGACTTAGCCCGGAT-TAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAG-
* *
100236292 C-ACTAGTATAAATGC
64 CAACTAGCACAAATGC
* *
100236307 CTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAGCCCGGAT-TAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGC
*
100236372 AACTAGTACAAATGC
65 AACTAGCACAAATGC
** * * * *
100236387 CTTC-GGATCTTAGTTCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT-TAGT
1 CTTCGGGA-CTTAGCCCGGATTAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGC
*
100236450 AACTCGCACAAATGC
65 AACTAGCACAAATGC
100236465 CTTCGGGACTTAGCCCGAGATTAGTCACTAGCACAAATGCCTTCG
1 CTTCGGGACTTAGCCCG-GATTAGTCACTAGCACAAATGCCTTCG
100236510 TTATCATCCG
Statistics
Matches: 174, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
78 39 0.22
79 82 0.47
80 53 0.30
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATTAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:100237348 original size:78 final size:78
Alignment explanation
Indices: 100237246--100237514 Score: 405
Period size: 78 Copynumber: 3.4 Consensus size: 78
100237236 CGAAGAAACA
** * * *
100237246 GATTTGGCATCTCCATATTCGACGGAGATCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
100237311 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
100237324 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
100237389 GCAGATTCACGAT
66 GCAGATCCAAGAT
* * *
100237402 GATTTGGCATCTCTGCATTAGACGGGGAGCAGATCGAAGAAATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
100237466 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
100237480 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
100237515 TGACCTTCAT
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 1 0.01
78 171 0.99
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:100237617 original size:45 final size:45
Alignment explanation
Indices: 100237538--100237731 Score: 266
Period size: 45 Copynumber: 4.3 Consensus size: 45
100237528 TTTACATCGA
*
100237538 AGCAGATTC-AAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGA-TCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
100237583 AGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
100237628 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** *
100237672 AGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTAGACGGGA
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
100237717 AGCAGATCAAAGATA
1 AGCAGATCGAAGATA
100237732 GCAAATATCG
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 42 0.32
45 90 0.68
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:100237663 original size:89 final size:90
Alignment explanation
Indices: 100237536--100237723 Score: 288
Period size: 89 Copynumber: 2.1 Consensus size: 90
100237526 TGTTTACATC
* * *
100237536 GAAGCAGATTCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAAATCGAAGATAACA
100237601 GATTTGGCATCTCTGTATTAGACGG
66 GATTTGGCATCTCTGTATTAGACGG
* * * *
100237626 GGAGCAGATTGAAGAAG-CAGATTTGGCGTCTCTGTATTAGACGGAGAGCAGATCGAAGATAACA
1 GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAAATCGAAGATAACA
**
100237690 GATTTGGTGTCTCTGTATTAGACGG
66 GATTTGGCATCTCTGTATTAGACGG
100237715 GAAGCAGAT
1 GAAGCAGAT
100237724 CAAAGATAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 74 0.84
90 14 0.16
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (90 bp):
GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGAGAGCAAATCGAAGATAACA
GATTTGGCATCTCTGTATTAGACGG
Found at i:100238112 original size:19 final size:19
Alignment explanation
Indices: 100238088--100238197 Score: 190
Period size: 19 Copynumber: 5.9 Consensus size: 19
100238078 ATAATCTTCA
100238088 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100238107 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100238126 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100238145 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
100238162 ATGAT-TGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
100238180 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
100238198 AGATATGATT
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
17 16 0.19
18 15 0.17
19 55 0.64
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100238510 original size:17 final size:17
Alignment explanation
Indices: 100238486--100238520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100238476 ATGTTTTCCT
*
100238486 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
100238504 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
100238521 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:100240568 original size:38 final size:39
Alignment explanation
Indices: 100240454--100240645 Score: 183
Period size: 38 Copynumber: 4.9 Consensus size: 39
100240444 GGATCTAGTC
* * **
100240454 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCAGATATAAT
* * *
100240494 ACCAGCACTAGGCCTGCAGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGC-GGGACTTTAACCCAGATATAAT
* * *
100240534 ACCAGCACGAAGCCTGCGGGA-TTTAAACCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
* *
100240572 ACCAGCACGAAGCCTACGGGA-TATAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
* * * *
100240610 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGGACTTTAA-CCCAGATA
100240646 CACATCAAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
37 1 0.01
38 63 0.50
39 8 0.06
40 45 0.35
41 10 0.08
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
Found at i:100243477 original size:28 final size:28
Alignment explanation
Indices: 100243446--100243527 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
100243436 GACTTCTGAT
100243446 GATCTGAAGCTGCTTTTAGACTTTCACG
1 GATCTGAAGCTGCTTTTAGACTTTCACG
*
100243474 GATC---A----CTTTTACGACTTCTGAC-
1 GATCTGAAGCTGCTTTTA-GACTT-TCACG
100243496 GATCTGAAGCTGCTTTTAGACTTTCACG
1 GATCTGAAGCTGCTTTTAGACTTTCACG
100243524 GATC
1 GATC
100243528 ACTTTTACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
21 6 0.14
22 9 0.21
23 3 0.07
25 2 0.05
27 3 0.07
28 13 0.31
29 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (28 bp):
GATCTGAAGCTGCTTTTAGACTTTCACG
Found at i:100243492 original size:50 final size:50
Alignment explanation
Indices: 100243433--100243535 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
100243423 TAAATCCGCA
*
100243433 TACGACTTCTGATGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
1 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
100243483 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
1 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
100243533 TAC
1 TAC
100243536 TTTCTGCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (50 bp):
TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
Found at i:100243499 original size:22 final size:21
Alignment explanation
Indices: 100243458--100243534 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
100243448 TCTGAAGCTG
100243458 CTTTTAGACTTTCACGGATCA
1 CTTTTAGACTTTCACGGATCA
*
100243479 CTTTTACGACTTCTGAC-GATCTGAA
1 CTTTTA-GACTT-TCACGGATC---A
100243504 GCTGCTTTTAGACTTTCACGGATCA
1 ----CTTTTAGACTTTCACGGATCA
100243529 CTTTTA
1 CTTTTA
100243535 CTTTCTGCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
21 12 0.27
22 9 0.20
23 3 0.07
25 2 0.05
27 3 0.07
28 9 0.20
29 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (21 bp):
CTTTTAGACTTTCACGGATCA
Found at i:100250292 original size:46 final size:46
Alignment explanation
Indices: 100250065--100250292 Score: 312
Period size: 46 Copynumber: 5.0 Consensus size: 46
100250055 TTTGACATGA
* * * ** * *
100250065 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * ** *
100250111 TGCCATAGTGTCTTTCAACTATTGTCTTATTCATTTCATATCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100250157 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
100250203 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100250249 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAG
100250293 AGAGCACACT
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 168 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:100256708 original size:40 final size:39
Alignment explanation
Indices: 100256664--100256845 Score: 147
Period size: 38 Copynumber: 4.7 Consensus size: 39
100256654 GAATCTAGTC
**
100256664 ACCAGCACAAAAG-CTACGGGACTTTAAGTTCAGATATAAT
1 ACCAGCAC-AAAGCCTACGGGACTTTAA-CCCAGATATAAT
* * *
100256704 ACCAGCACTAAGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTACGGGACTTTAACCCAGATATAAT
* * * *
100256743 ACCAGTACGAAGCCTGCGGGA-TTTAACCC-GAATATATT
1 ACCAGCACAAAGCCTACGGGACTTTAACCCAG-ATATAAT
* ** *
100256781 ACCAGCACGAAGCCTGTGGGA-TTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTACGGGACTTTAACCCAGATATAAT
* * * * *
100256819 TCCAGCATATAGCCTGCGGGTCTTTAA
1 ACCAGCACAAAGCCTACGGGACTTTAA
100256846 GCCTGGATAC
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 62 0.51
39 37 0.31
40 21 0.17
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (39 bp):
ACCAGCACAAAGCCTACGGGACTTTAACCCAGATATAAT
Found at i:100256778 original size:38 final size:38
Alignment explanation
Indices: 100256696--100256838 Score: 198
Period size: 38 Copynumber: 3.7 Consensus size: 38
100256686 TTTAAGTTCA
*
100256696 GATATAATACCAGCACTAAGCCTGCGGGACTTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGA-TTTAACCCG
*
100256735 GATATAATACCAGTACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* * *
100256773 AATATATTACCAGCACGAAGCCTGTGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* *
100256811 GATATAATTCCAGCA-TATAGCCTGCGGG
1 GATATAATACCAGCACGA-AGCCTGCGGG
100256839 TCTTTAAGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 64 0.70
39 27 0.29
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:100260550 original size:14 final size:14
Alignment explanation
Indices: 100260531--100260561 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100260521 CCAGAAAAGT
100260531 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
100260545 AAATCATTTTCCGG
1 AAATCATTTTCCAG
100260559 AAA
1 AAA
100260562 ATGTTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:100264770 original size:7 final size:7
Alignment explanation
Indices: 100264760--100264799 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
100264750 CTTAAACTTT
100264760 AAACCCC
1 AAACCCC
100264767 AAACCCC
1 AAACCCC
*
100264774 AAACCCT
1 AAACCCC
100264781 AAACCCC
1 AAACCCC
100264788 AAACCCC
1 AAACCCC
100264795 AAACC
1 AAACC
100264800 TAACCTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.53, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACCCC
Found at i:100264777 original size:21 final size:21
Alignment explanation
Indices: 100264759--100264799 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
100264749 TCTTAAACTT
100264759 TAAACCCCAAACCCCAAACCC
1 TAAACCCCAAACCCCAAACCC
100264780 TAAACCCCAAACCCCAAACC
1 TAAACCCCAAACCCCAAACC
100264800 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.51, G:0.00, T:0.05
Consensus pattern (21 bp):
TAAACCCCAAACCCCAAACCC
Found at i:100271801 original size:121 final size:122
Alignment explanation
Indices: 100271650--100271895 Score: 458
Period size: 121 Copynumber: 2.0 Consensus size: 122
100271640 TTAACAAAAG
100271650 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAACTGGTTAAAACATGTTG
1 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAACTGGTTAAAACATGTTG
*
100271715 TTAGTCCCTATACTTTGACAAATTTTG-AATTTAATACTTGTACTTTAAAAGTTAAA
66 TTAGTCCCTATACTTTGAAAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
* *
100271771 AATGCAATTGGTACAATAATCATCTTGAAGTTTAAGGGTTGATTTAAACTGGTTAAAACATGTTG
1 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAACTGGTTAAAACATGTTG
100271836 TTAGTCCCTATACTTTGAAAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
66 TTAGTCCCTATACTTTGAAAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
100271893 AAT
1 AAT
100271896 TCCATCTTCT
Statistics
Matches: 121, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
121 89 0.74
122 32 0.26
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (122 bp):
AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAACTGGTTAAAACATGTTG
TTAGTCCCTATACTTTGAAAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
Found at i:100276583 original size:24 final size:23
Alignment explanation
Indices: 100276542--100276586 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100276532 ATGTCATCAA
**
100276542 CTAAAAATTTTAAAATATATAAT
1 CTAAAAATGATAAAATATATAAT
100276565 CTAAAAATGATAAATATATATA
1 CTAAAAATGATAAA-ATATATA
100276587 TATAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
CTAAAAATGATAAAATATATAAT
Found at i:100277981 original size:16 final size:17
Alignment explanation
Indices: 100277960--100277995 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
100277950 GGATGAAAGA
*
100277960 TAAATATATTTATT-AT
1 TAAATATAATTATTAAT
100277976 TAAATATAATTATTAAT
1 TAAATATAATTATTAAT
100277993 TAA
1 TAA
100277996 TGAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAATTATTAAT
Found at i:100281797 original size:1 final size:1
Alignment explanation
Indices: 100281791--100281816 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
100281781 CTAGGTAAAC
100281791 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
100281817 GTGTTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:100283232 original size:15 final size:15
Alignment explanation
Indices: 100283212--100283240 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100283202 AAGTTTTGGT
100283212 CTTTTGTCTCAGCAG
1 CTTTTGTCTCAGCAG
100283227 CTTTTGTCTCAGCA
1 CTTTTGTCTCAGCA
100283241 ACCAAGCGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (15 bp):
CTTTTGTCTCAGCAG
Found at i:100287657 original size:18 final size:18
Alignment explanation
Indices: 100287634--100287672 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100287624 TCGATATTTT
* *
100287634 TATTATATCAATTTAAAA
1 TATTATATAAATATAAAA
100287652 TATTATATAAATATAAAA
1 TATTATATAAATATAAAA
100287670 TAT
1 TAT
100287673 GATAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATATAAATATAAAA
Found at i:100309591 original size:15 final size:15
Alignment explanation
Indices: 100309571--100309600 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100309561 GGGACCAACT
*
100309571 TGGTTGATGGGATAC
1 TGGTTGATAGGATAC
100309586 TGGTTGATAGGATAC
1 TGGTTGATAGGATAC
100309601 AAGTTTAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (15 bp):
TGGTTGATAGGATAC
Found at i:100312440 original size:31 final size:31
Alignment explanation
Indices: 100312371--100312437 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
100312361 AGAAAACAAT
*
100312371 AATTTGGA-TCTTTTAAAAAAGTTAATAATCA
1 AATTT-GACTCTTTTAAAAAAGTTAAGAATCA
* *
100312402 AATTTGACTCTTTTTAAAAAGTTTAAGAGTCA
1 AATTTGACTCTTTTAAAAAAG-TTAAGAATCA
100312434 AATT
1 AATT
100312438 GACAAAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 17 0.55
32 12 0.39
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (31 bp):
AATTTGACTCTTTTAAAAAAGTTAAGAATCA
Found at i:100316957 original size:5 final size:5
Alignment explanation
Indices: 100316947--100316976 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
100316937 TACACGTAGG
100316947 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
100316977 TGGACTTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:100319330 original size:26 final size:26
Alignment explanation
Indices: 100319295--100319359 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
100319285 TGGTTATCCA
*
100319295 GAGC-TCCTAATTAAAGGCTCTTCGT
1 GAGCTTCCTAATTAAAAGCTCTTCGT
* *
100319320 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTAATTAAAAGCTCTTCGT
* *
100319346 GAACTTCCTGATTA
1 GAGCTTCCTAATTA
100319360 TGACTCTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (26 bp):
GAGCTTCCTAATTAAAAGCTCTTCGT
Found at i:100319443 original size:26 final size:26
Alignment explanation
Indices: 100319408--100319463 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
100319398 CTTCCTGATA
*
100319408 GGCTTTTTGTGAACTTCCTGATTA-AT
1 GGCTCTTTGTGAACTTCCTG-TTATAT
* *
100319434 GGCTCTTTGTGAGCTTTCTGTTATAT
1 GGCTCTTTGTGAACTTCCTGTTATAT
100319460 GGCT
1 GGCT
100319464 TAAGAGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.46
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCTGTTATAT
Found at i:100321118 original size:10 final size:10
Alignment explanation
Indices: 100321103--100321130 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
100321093 TTTGATGAAT
100321103 ATGTTCATCC
1 ATGTTCATCC
100321113 ATGTTCATCC
1 ATGTTCATCC
100321123 ATGTTCAT
1 ATGTTCAT
100321131 AAATTTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (10 bp):
ATGTTCATCC
Found at i:100325407 original size:32 final size:32
Alignment explanation
Indices: 100325341--100325408 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
100325331 TTTTTGTTAA
* * *
100325341 TGTTGGATTCTGAAATTTTAGTTTATTATGTT
1 TGTTGGATTCTAAAATTTTAGTCTATGATGTT
100325373 TGTTGGATTCTAAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATGTT
100325405 TGTT
1 TGTT
100325409 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATGTT
Found at i:100325434 original size:27 final size:27
Alignment explanation
Indices: 100325404--100325476 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
100325394 TGTCTTGATT
100325404 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
100325431 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
100325463 TTGTTGGATATTGA
1 TTGTTAGATATTGA
100325477 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:100325456 original size:32 final size:32
Alignment explanation
Indices: 100325417--100325477 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
100325407 TTAGATATTG
100325417 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
100325449 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
100325478 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:100326471 original size:9 final size:9
Alignment explanation
Indices: 100326455--100326506 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
100326445 GGTATTTTTC
100326455 GGTAATTCG
1 GGTAATTCG
*
100326464 GTTAATTCG
1 GGTAATTCG
*
100326473 GTTAATTCG
1 GGTAATTCG
100326482 GGTAATTCG
1 GGTAATTCG
100326491 GGTAATTCG
1 GGTAATTCG
100326500 GGTAATT
1 GGTAATT
100326507 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:100326684 original size:12 final size:12
Alignment explanation
Indices: 100326667--100326691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100326657 AGTAATTTCG
100326667 GGTCGGTTAACC
1 GGTCGGTTAACC
100326679 GGTCGGTTAACC
1 GGTCGGTTAACC
100326691 G
1 G
100326692 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:100327353 original size:15 final size:14
Alignment explanation
Indices: 100327316--100327374 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
100327306 CCAGAAAAGT
*
100327316 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
100327330 AAATTATTTTCCAGG
1 AAATCATTTTCCA-G
100327345 AAATCATTTTCCAG
1 AAATCATTTTCCAG
100327359 AAATCATTTTCC-G
1 AAATCATTTTCCAG
100327372 AAA
1 AAA
100327375 AATATTTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
13 4 0.09
14 26 0.60
15 13 0.30
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:100327377 original size:29 final size:28
Alignment explanation
Indices: 100327320--100327382 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
100327310 AAAAGTAAAT
* *
100327320 TATTTTCCAGAAATTATTTTCCAGGAAA
1 TATTTTCCAGAAATCATTTTCCAGAAAA
100327348 TCATTTTCCAGAAATCATTTTCC-GAAAAA
1 T-ATTTTCCAGAAATCATTTTCCAG-AAAA
100327377 TATTTT
1 TATTTT
100327383 ACCTGCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (28 bp):
TATTTTCCAGAAATCATTTTCCAGAAAA
Found at i:100327381 original size:14 final size:14
Alignment explanation
Indices: 100327316--100327382 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
100327306 CCAGAAAAGT
* *
100327316 AAATTATTTTCCAG
1 AAATCATTTTCCAA
* *
100327330 AAATTATTTTCCAGG
1 AAATCATTTTCCA-A
*
100327345 AAATCATTTTCCAG
1 AAATCATTTTCCAA
100327359 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
100327374 AAAT-ATTTT
1 AAATCATTTT
100327383 ACCTGCAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
14 31 0.63
15 18 0.37
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:100328404 original size:15 final size:16
Alignment explanation
Indices: 100328379--100328425 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
100328369 TTTAAATATT
100328379 TATATTATATTATTTTA
1 TATATT-TATTATTTTA
100328396 -ATATTTATTATTTTTA
1 TATATTTATTA-TTTTA
*
100328412 TATATTTTTTATTT
1 TATATTTATTATTT
100328426 ATCAACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 13 0.48
17 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATATTTATTATTTTA
Found at i:100328416 original size:17 final size:17
Alignment explanation
Indices: 100328379--100328425 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
100328369 TTTAAATATT
100328379 TATATTATATTA-TTTTA
1 TATATT-TATTATTTTTA
100328396 -ATATTTATTATTTTTA
1 TATATTTATTATTTTTA
*
100328412 TATATTTTTTATTT
1 TATATTTATTATTT
100328426 ATCAACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 5 0.19
16 10 0.37
17 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATATTTATTATTTTTA
Found at i:100335055 original size:22 final size:23
Alignment explanation
Indices: 100335010--100335060 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
100335000 AAAGGTGTTC
100335010 TTTTTAAAACACAAATTAACAAT
1 TTTTTAAAACACAAATTAACAAT
*
100335033 TTTTTAAAACATAAATTAA-AAT
1 TTTTTAAAACACAAATTAACAAT
100335055 TATTTT
1 T-TTTT
100335061 TTTATGCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTTTAAAACACAAATTAACAAT
Found at i:100335384 original size:32 final size:33
Alignment explanation
Indices: 100335348--100335431 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 33
100335338 TCTTAAAATT
100335348 ATATATGAATTTTTATTTAATGTTATAAT-T-T-G
1 ATATATGAATTTTTATTTAAT-TTA-AATATATAG
* *
100335380 ATATATGAATTTTGATTTTAATTTAAATATATAT
1 ATATATGAATTTTTA-TTTAATTTAAATATATAG
*
100335414 ATATATGAAATTTTATTT
1 ATATATGAATTTTTATTT
100335432 TTTTATTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
31 3 0.07
32 18 0.41
33 10 0.23
34 13 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (33 bp):
ATATATGAATTTTTATTTAATTTAAATATATAG
Found at i:100335601 original size:30 final size:29
Alignment explanation
Indices: 100335562--100335641 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
100335552 GAACTGAATC
*
100335562 AAATCAAAGTTTTATATATAAAATTGCACA
1 AAATCAAAG-TTCATATATAAAATTGCACA
* * *
100335592 AAATTAAAGTTCATATATAAAGTTGCATA
1 AAATCAAAGTTCATATATAAAATTGCACA
* *
100335621 TTAAACCAAAGTTTATATATA
1 --AAATCAAAGTTCATATATA
100335642 GTTTTAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 17 0.41
30 8 0.20
31 16 0.39
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (29 bp):
AAATCAAAGTTCATATATAAAATTGCACA
Found at i:100355361 original size:17 final size:17
Alignment explanation
Indices: 100355335--100355368 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100355325 CCACACATAT
*
100355335 TTTTTCTTTTTATATAA
1 TTTTTATTTTTATATAA
*
100355352 TTTTTATTTTTTTATAA
1 TTTTTATTTTTATATAA
100355369 AAATATAGAA
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:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTATATAA
Found at i:100356774 original size:26 final size:26
Alignment explanation
Indices: 100356723--100356782 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
100356713 GGATTAGATT
* *
100356723 TAAAAATTAAAAAAGATTTAAGTTAA
1 TAAAAATTAAAAAAGATTAAAATTAA
* *
100356749 TAAAAATTCAAAAATATTAAAATTAA
1 TAAAAATTAAAAAAGATTAAAATTAA
*
100356775 -AAGAATTA
1 TAAAAATTA
100356783 TATTTACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
TAAAAATTAAAAAAGATTAAAATTAA
Found at i:100359485 original size:51 final size:51
Alignment explanation
Indices: 100359366--100359485 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
100359356 AAAGTTTTAA
* *
100359366 TTTTTAGATACTAATAAAATCTCACCATTATTAAAATTCTAAAAATTAAAG
1 TTTTTAGATACTAATAAAATCTCACCACTATCAAAATTCTAAAAATTAAAG
* *
100359417 TTTTTAGATACCAATAAAATCTCACCACTATCAAAATTTTAAAAATTAAAG
1 TTTTTAGATACTAATAAAATCTCACCACTATCAAAATTCTAAAAATTAAAG
* *
100359468 TTTTTAGAAACTGATAAA
1 TTTTTAGATACTAATAAA
100359486 TATGATAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (51 bp):
TTTTTAGATACTAATAAAATCTCACCACTATCAAAATTCTAAAAATTAAAG
Found at i:100368386 original size:13 final size:13
Alignment explanation
Indices: 100368368--100368394 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100368358 GCTCGGAAGG
100368368 GACACGTCCGTGT
1 GACACGTCCGTGT
100368381 GACACGTCCGTGT
1 GACACGTCCGTGT
100368394 G
1 G
100368395 CGATTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGTCCGTGT
Found at i:100373226 original size:27 final size:27
Alignment explanation
Indices: 100373184--100373236 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
100373174 AAGTCATTTC
100373184 CTAGTAAGTGTAAAAGGAATTCACAAT
1 CTAGTAAGTGTAAAAGGAATTCACAAT
*
100373211 CTAGTAAGTGTGAAAGGAATTCACAA
1 CTAGTAAGTGTAAAAGGAATTCACAA
100373237 GGGTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (27 bp):
CTAGTAAGTGTAAAAGGAATTCACAAT
Found at i:100375026 original size:33 final size:33
Alignment explanation
Indices: 100374986--100375063 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
100374976 ATATGTATAC
*
100374986 GTGTAAGACCATAGCTGGGCTATGGCATCT-TGA
1 GTGTAAGACCATAACTGGGCTATGGCAT-TATGA
*
100375019 -TGATAAGACCATAACTGGGTTATGGCATTATGA
1 GTG-TAAGACCATAACTGGGCTATGGCATTATGA
100375052 GTGTAAGACCAT
1 GTGTAAGACCAT
100375064 GGTAGGGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 3 0.08
33 35 0.88
34 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGGCATTATGA
Found at i:100377634 original size:22 final size:23
Alignment explanation
Indices: 100377599--100377643 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
100377589 AAGCAAAATC
*
100377599 TATTTTCATGAA-GTTCTTTCGT
1 TATTTCCATGAAGGTTCTTTCGT
*
100377621 TATTTCCATTAAGTGTTCTTTCG
1 TATTTCCATGAAG-GTTCTTTCG
100377644 AAAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (23 bp):
TATTTCCATGAAGGTTCTTTCGT
Found at i:100384403 original size:16 final size:17
Alignment explanation
Indices: 100384369--100384404 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
100384359 ATAGATGAAT
*
100384369 AATAAACGATATAATAA
1 AATAAACGATATAAAAA
100384386 AATAAACG-TATAAAAA
1 AATAAACGATATAAAAA
100384402 AAT
1 AAT
100384405 TAGGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (17 bp):
AATAAACGATATAAAAA
Found at i:100384585 original size:3 final size:3
Alignment explanation
Indices: 100384577--100384697 Score: 100
Period size: 3 Copynumber: 39.3 Consensus size: 3
100384567 AAAAGAAAAT
* * * * * *
100384577 ATA ATA ATA ATA GTA ATA AAA ATA AAA ATA ATA GTA ATA ATA ATG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
100384625 ATA ATA ATAA ATA GTA ATA ATA ATA CATTA ATA AGA ATA ATA AT- ATG
1 ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* *
100384672 CTA ATA ATA ATA ATTA ATG ATA ATA A
1 ATA ATA ATA ATA A-TA ATA ATA ATA A
100384698 AGTAGCCAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.02
3 80 0.87
4 8 0.09
5 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:100387117 original size:131 final size:131
Alignment explanation
Indices: 100386938--100387276 Score: 357
Period size: 131 Copynumber: 2.6 Consensus size: 131
100386928 CGAAAGCCTA
* * * ** * * *
100386938 AAGGAATAATCGATTGTTTTGAACAAGCGAGAAATCACAATCCAACACGATAGGGCATGATTCC-
1 AAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* ** * *
100387002 CG-GATTGTCAAACACCG-AGTATTATCTTCGTTTTAATGGATTTTTAAAAGA-ACTGAGTGAAA
66 CGAG-TTGCCAAACACCGCA-TACCACCTTCG-TTTAAGGGATTTTTAAAAGATA-TGAGTGAAA
100387064 TTTTG
127 TTTTG
* * * *
100387069 AAGGAATATTTGATTATTTTAAACAAACGGGAAATTGCAACCCAACACGTTAGGGCACAATTCCA
1 AAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* * * *
100387134 CGAGTTGCCAAATATCGCATACCGCCTTCGTTTAAGGGATTTTTAAAAGATATGAGTGATATTTT
66 CGAGTTGCCAAACACCGCATACCACCTTCGTTTAAGGGATTTTTAAAAGATATGAGTGAAATTTT
100387199 G
131 G
* *
100387200 AAGTG-ATATTCGATTATTTTGAGCAAAC-ACGAAATTGAAACCCAACACGTTAGGGCACGATTC
1 AAG-GAATATTCGATTATTTTGAACAAACGA-GAAATTGCAACCCAACACGTTAGGGCACGATTC
* *
100387263 CGCGAATTGCCAAA
64 CACGAGTTGCCAAA
100387277 TATCAAATCT
Statistics
Matches: 173, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
131 150 0.87
132 21 0.12
133 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (131 bp):
AAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
CGAGTTGCCAAACACCGCATACCACCTTCGTTTAAGGGATTTTTAAAAGATATGAGTGAAATTTT
G
Found at i:100387277 original size:131 final size:132
Alignment explanation
Indices: 100387027--100387280 Score: 370
Period size: 131 Copynumber: 1.9 Consensus size: 132
100387017 CGAGTATTAT
* *
100387027 CTTCGTTTTAATGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTTGATTATTTTAAA
1 CTTCGTTTTAAGGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTCGATTATTTTAAA
** * *
100387092 CAAACGGGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAGTTGCCAAATATCGCATACC
66 CAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCGCATACC
100387157 GC
131 GC
* *
100387159 CTTCG-TTTAAGGGATTTTTAAAAGATA-TGAGTGATATTTTGAAGTG-ATATTCGATTATTTTG
1 CTTCGTTTTAAGGGATTTTTAAAAGA-ACTGAGTGAAATTTTGAAG-GAATATTCGATTATTTTA
* * *
100387221 AGCAAACACGAAATTGAAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATC
64 AACAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATC
100387281 AAATCTCGCC
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
131 102 0.94
132 7 0.06
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (132 bp):
CTTCGTTTTAAGGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTCGATTATTTTAAA
CAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCGCATACC
GC
Found at i:100387291 original size:131 final size:132
Alignment explanation
Indices: 100387027--100387309 Score: 367
Period size: 131 Copynumber: 2.2 Consensus size: 132
100387017 CGAGTATTAT
* *
100387027 CTTCGTTTTAATGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTTGATTATTTTAAA
1 CTTCGTTTTAAGGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTCGATTATTTTAAA
** * * **
100387092 CAAACGGGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAGTTGCCAAATATCGCATACC
66 CAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAATACC
100387157 GC
131 GC
* *
100387159 CTTCG-TTTAAGGGATTTTTAAAAGATA-TGAGTGATATTTTGAAGTG-ATATTCGATTATTTTG
1 CTTCGTTTTAAGGGATTTTTAAAAGA-ACTGAGTGAAATTTTGAAG-GAATATTCGATTATTTTA
* * *
100387221 AGCAAACACGAAATTGAAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAAT-
64 AACAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAATA
100387285 CTCGC
129 C-CGC
* * *
100387290 CTTCATTTTAAAGAATTTTT
1 CTTCGTTTTAAGGGATTTTT
100387310 GAATGAATGA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
130 1 0.01
131 111 0.85
132 19 0.15
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (132 bp):
CTTCGTTTTAAGGGATTTTTAAAAGAACTGAGTGAAATTTTGAAGGAATATTCGATTATTTTAAA
CAAACACGAAATTGAAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCAAATACC
GC
Found at i:100390985 original size:26 final size:26
Alignment explanation
Indices: 100390955--100391004 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
100390945 CCACTTAATC
*
100390955 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
100390981 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
100391005 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:100391151 original size:104 final size:102
Alignment explanation
Indices: 100390922--100391185 Score: 404
Period size: 104 Copynumber: 2.6 Consensus size: 102
100390912 AACCGTTATT
* * * *
100390922 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
100390987 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
100391024 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
100391088 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 AATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
100391128 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
100391186 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 53 0.36
103 28 0.19
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:100391547 original size:30 final size:29
Alignment explanation
Indices: 100391513--100391577 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
100391503 TAATCCACCA
100391513 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
100391543 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
100391573 CCCAA
1 CCCAA
100391578 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:100391551 original size:31 final size:30
Alignment explanation
Indices: 100391520--100391577 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100391510 CCACCCAACT
100391520 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
100391550 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
100391578 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:100398590 original size:103 final size:104
Alignment explanation
Indices: 100398411--100398675 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
100398401 AACCGTTATT
* * * *
100398411 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
100398476 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
100398514 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
100398578 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
100398618 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
100398676 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:100399037 original size:30 final size:29
Alignment explanation
Indices: 100399003--100399067 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
100398993 TAATCCACCA
100399003 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
100399033 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
100399063 CCCAA
1 CCCAA
100399068 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:100399041 original size:31 final size:30
Alignment explanation
Indices: 100399010--100399067 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100399000 CCACCCAACT
100399010 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
100399040 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
100399068 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:100400196 original size:45 final size:45
Alignment explanation
Indices: 100400076--100400196 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
100400066 AAGAAGCTTA
* * * *
100400076 AATATGCTCCACTGCAACTTCAGGGAGACATGGTTCACGTGTTTTT
1 AATATGCTCCATTGCAACTTCAGGGAGACAAGGAT-ACGTGATTTT
* * * **
100400122 TATCCTGCTCTATTGCAACTTCAAAGAGACAAGGAT-CGTGATTTT
1 AAT-ATGCTCCATTGCAACTTCAGGGAGACAAGGATACGTGATTTT
100400167 AATATTGCTCCATTGCAACTTCAGGGAGAC
1 AATA-TGCTCCATTGCAACTTCAGGGAGAC
100400197 GAGATCCTGT
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
45 32 0.54
46 2 0.03
47 25 0.42
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
AATATGCTCCATTGCAACTTCAGGGAGACAAGGATACGTGATTTT
Found at i:100400640 original size:133 final size:133
Alignment explanation
Indices: 100400402--100400943 Score: 843
Period size: 133 Copynumber: 4.1 Consensus size: 133
100400392 CTTTAATTTC
*
100400402 AGATCTACAATCTTCAACCTACTCCATTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
* * * * * *
100400467 TTCACTGCAATATCAGGAAGCCTAGATCCACTGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
66 TTCGCTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
100400532 ACA
131 ACA
100400535 AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
* * *
100400600 TTCGTTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATCTCAGAGAA
66 TTCGCTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
100400665 ACA
131 ACA
* *
100400668 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
* * *
100400733 TTCGCTGCAACATCAGGAAACCTAGATTCGTCGTCTTCGATCTGATCCACTACAACCTCAGGGAA
66 TTCGCTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
100400798 ACA
131 ACA
* * * *
100400801 AGATCTACAAACTTCAGCCTACTCCACGACAACTTTAGGGAGCTAGGATGGTGTCTTAAATCTGC
1 AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
* * ** * * *
100400866 TTCGCTACAACATCAAGAAACCTAGATTCTTCGT-TTCGGTCTGCTCCACTGCAATCTTAGGGAA
66 TTCGCTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
100400930 ACA
131 ACA
100400933 AGATCTACAAT
1 AGATCTACAAT
100400944 TTTTAGCTTG
Statistics
Matches: 378, Mismatches: 31, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
132 38 0.10
133 340 0.90
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
AGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGC
TTCGCTGCAACATCAGGAAACCTAGATTCGCCGTCTTCGATCTGCTCCACTACAATCTCAGGGAA
ACA
Found at i:100400775 original size:266 final size:265
Alignment explanation
Indices: 100400296--100400943 Score: 947
Period size: 266 Copynumber: 2.5 Consensus size: 265
100400286 AATCTTGGGT
* *
100400296 CTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGACTTAAATCTGTTTCGCTGCAACATCAGGA
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGACTTAAATCTGCTTCGCTGCAACATCAGGA
* ***
100400361 AACCTAGATCCGCCGTCTTCGATCTGCTCCACT----T-TA-A-TTTC-AGATCTACAATCTTCA
66 AACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATCTAGAGAAACAAGATCTACAATCTTCA
* * *
100400418 ACCTACTCCATTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAATATCAG
131 ACCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACATCAG
* * * *
100400483 GAAGCCTAGATCCACTGTCTTCGATCTGCTCCACTACAATCTCAGGGAAACAAGATCTACAATCT
196 GAAACCTAGATCCACTGTCTTCGATCTGATCCACTACAACCTCAGGGAAACAAGATCTACAAACT
100400548 TCAAC
261 TCAAC
* *
100400553 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCGTTGCAACATCAGGA
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGACTTAAATCTGCTTCGCTGCAACATCAGGA
100400618 AACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATCTCAGAGAAACAAGATCTACAATCTTC
66 AACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATCT-AGAGAAACAAGATCTACAATCTTC
* *
100400683 AGCCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCGCTGCAACATCA
130 AACCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACATCA
* *
100400748 GGAAACCTAGATTC-GTCGTCTTCGATCTGATCCACTACAACCTCAGGGAAACAAGATCTACAAA
195 GGAAACCTAGATCCACT-GTCTTCGATCTGATCCACTACAACCTCAGGGAAACAAGATCTACAAA
*
100400812 CTTCAGC
259 CTTCAAC
* * * *
100400819 CTACTCCACGACAACTTTAGGGAGCTAGGATGGTGTCTTAAATCTGCTTCGCTACAACATCAAGA
1 CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGACTTAAATCTGCTTCGCTGCAACATCAGGA
** * *
100400884 AACCTAGATTCTTCGT-TTCGGTCTGCTCCACTGCAATCTTAGGGAAACAAGATCTACAAT
66 AACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATC-TAGAGAAACAAGATCTACAAT
100400944 TTTTAGCTTG
Statistics
Matches: 351, Mismatches: 29, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
257 93 0.26
261 1 0.00
262 1 0.00
263 1 0.00
264 1 0.00
265 42 0.12
266 212 0.60
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (265 bp):
CTACTCCACTACAACTTTAGGGAGCTAGGATGGTGACTTAAATCTGCTTCGCTGCAACATCAGGA
AACCTAGATTCGCCGTCTTCGATCTGCTCCACTGCAATCTAGAGAAACAAGATCTACAATCTTCA
ACCTACTCCACTACAACTTTAGGGAGCTAGGATAGTGGCTTAAATCTGCTTCACTGCAACATCAG
GAAACCTAGATCCACTGTCTTCGATCTGATCCACTACAACCTCAGGGAAACAAGATCTACAAACT
TCAAC
Found at i:100401159 original size:65 final size:65
Alignment explanation
Indices: 100401055--100401179 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
100401045 GTATCTATGC
100401055 TTATGCCAAATAATTAAGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTGATGAT
1 TTATGCCAAATAATTAAGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTGATGAT
* * * * * *
100401120 TTATGTCAATTAATTAGGATGTTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAAGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
100401180 TCATTATATG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAAGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTGATGAT
Found at i:100412943 original size:131 final size:131
Alignment explanation
Indices: 100412799--100413046 Score: 329
Period size: 131 Copynumber: 1.9 Consensus size: 131
100412789 TTATCTTTGT
* *
100412799 TTTAATGGATTTTTAAAAGACCTGAGTGAAATTTTAAAG-GAATAATT-GATCATTTTAAACAAA
1 TTTAAGGGATTTTTAAAAGACATGAGTGAAATTTTAAAGTG-AT-ATTCGATCATTTTAAACAAA
** * * *
100412862 CGGGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAGTTTCCAAATATCGCATACCGCCT
64 CACGAAATTGCAACCCAACACGTTAGGGAACAATTCCACGAATTGCCAAATATCGCATACCGCCT
100412927 TCG
129 TCG
* * * * * *
100412930 TTTAAGGGATTTTTAAAAGATATGAGTGATATTTTGAAGTGATATTCGATTATTTTGAGCAAACA
1 TTTAAGGGATTTTTAAAAGACATGAGTGAAATTTTAAAGTGATATTCGATCATTTTAAACAAACA
* *
100412995 CGAAATTGCAACCCAACACGTTAGGGAACGATTCCGCGAATTGCCAAATATC
66 CGAAATTGCAACCCAACACGTTAGGGAACAATTCCACGAATTGCCAAATATC
100413047 AAATCTCGCC
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.03
131 96 0.96
132 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (131 bp):
TTTAAGGGATTTTTAAAAGACATGAGTGAAATTTTAAAGTGATATTCGATCATTTTAAACAAACA
CGAAATTGCAACCCAACACGTTAGGGAACAATTCCACGAATTGCCAAATATCGCATACCGCCTTC
G
Found at i:100415483 original size:13 final size:12
Alignment explanation
Indices: 100415464--100415502 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
100415454 GTGGTATACA
100415464 TATTTTTTTTTG
1 TATTTTTTTTTG
*
100415476 TGATTTTTTTTTA
1 T-ATTTTTTTTTG
100415489 TATTTTTGTTTTG
1 TATTTTT-TTTTG
100415502 T
1 T
100415503 TTCTTGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (12 bp):
TATTTTTTTTTG
Found at i:100415941 original size:18 final size:18
Alignment explanation
Indices: 100415898--100415949 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
100415888 GGTTCGCCAA
*
100415898 TTTGACGAGCTCGCA-GT
1 TTTGATGAGCTCGCATGT
100415915 TTTGATGAGCTCGCATG-
1 TTTGATGAGCTCGCATGT
100415932 TTTGATTGAGCTCGCATG
1 TTTGA-TGAGCTCGCATG
100415950 GATGGCAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (18 bp):
TTTGATGAGCTCGCATGT
Found at i:100422435 original size:30 final size:30
Alignment explanation
Indices: 100422399--100422497 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
100422389 CTAGCCTTTG
*
100422399 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
100422429 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
100422459 CTACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
100422489 CCACCACCA
1 CCACCACCA
100422498 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:100423015 original size:23 final size:23
Alignment explanation
Indices: 100422978--100423106 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 23
100422968 CTTTTTTTGT
*
100422978 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
100423001 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
100423023 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
100423046 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
100423069 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
100423094 TATTATTTATATT
1 TATTATATATATT
100423107 TTTTTCTACA
Statistics
Matches: 80, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.06
22 17 0.21
23 29 0.36
24 9 0.11
25 20 0.25
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:100423081 original size:25 final size:25
Alignment explanation
Indices: 100423043--100423190 Score: 92
Period size: 25 Copynumber: 6.0 Consensus size: 25
100423033 ATTCTAAATT
*
100423043 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
100423066 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * * *
100423091 CTATATTATTTATATTTTTTTCTACATG
1 CTATATTATGTATA-TATATT-TA-ATA
* *
100423119 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * *
100423142 -TATATTATGTATGTAT-TTCTTACA
1 CTATATTATGTATATATATT-TAATA
* *
100423166 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
100423191 TTATCACGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
22 16 0.17
23 17 0.18
24 4 0.04
25 34 0.35
26 8 0.08
27 4 0.04
28 13 0.14
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:100423193 original size:20 final size:20
Alignment explanation
Indices: 100423168--100423226 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
100423158 TTCTTACACT
100423168 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
100423188 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
100423211 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
100423227 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:100423365 original size:16 final size:15
Alignment explanation
Indices: 100423341--100423388 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
100423331 TAATTATTAT
*
100423341 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
100423357 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
100423372 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
100423388 T
1 T
100423389 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:100423376 original size:7 final size:8
Alignment explanation
Indices: 100423341--100423392 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
100423331 TAATTATTAT
*
100423341 TATTCTAA
1 TATTTTAA
*
100423349 TATTTTGA
1 TATTTTAA
100423357 TATTTTAA
1 TATTTTAA
100423365 TATTTT-A
1 TATTTTAA
100423372 TATTTTATA
1 TATTTTA-A
* *
100423381 TACTTTAT
1 TATTTTAA
100423389 TATT
1 TATT
100423393 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:100430387 original size:85 final size:78
Alignment explanation
Indices: 100430288--100431342 Score: 536
Period size: 75 Copynumber: 13.4 Consensus size: 78
100430278 CTGTTTTCAA
* * * *
100430288 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCT-TGGCTCACGTGTTGAGTCACTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAC-TG-AG-GT-ACTTTCAAT
100430352 TTCTGTTTTTATGTCTGTTTT
62 TTCTG---TTATGTCT-TTTT
** * * *
100430373 TTAAATCAACTCATATTGCG-GAAGGTGAGTTAAGCCTCGGGGCACACTGAGGTATTTTCAATTG
1 AAAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTT
100430437 CTGTT-TGTC-----
64 CTGTTATGTCTTTTT
* * * * *
100430446 AAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACACCGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTTC
**
100430511 ---TA---CTTTCAA
65 TGTTATGTCTTT-TT
* * * *
100430520 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCAT-TGGCTCACGTGTTGAGTCACTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAC-TG-AG-GT-ACTTTCAAT
100430584 TTCTGTTTTTATGTCTGTTTT
62 TTCTG---TTATGTCT-TTTT
** * * *
100430605 TTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA--T-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTTC
* * *
100430667 TGCTA--T-TTGTA
65 TGTTATGTCTTTTT
* * * *
100430678 AAAAATCAACTCATGTTGTGGGAGGTGAGTTGAGCCTCGGGTCACA-TGCCAAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACTG---AGGTACTTTCAAT
*
100430742 TTC-----TG-CTTTTCA
62 TTCTGTTATGTCTTTT-T
* *
100430754 AAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACATGCTGAGGTAATTGCAATT
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACA--CTGAGGTACTTTCAATT
* * **
100430818 TAT-AT-TGTC---AA
63 TCTGTTATGTCTTTTT
* * * *
100430829 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCAC--ACTGAGGTACTTTCAATT
* *
100430894 TCTGTCTCTG--TTTGT
63 TCTGT-TATGTCTTTTT
* * * * *
100430909 CAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTTC
**
100430974 TGTT-TGTC---AA
65 TGTTATGTCTTTTT
* * *
100430984 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTTC
*
100431049 TGTT-TGT-TTTTA
65 TGTTATGTCTTTTT
* * * * *
100431061 AAAAAACAAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTATTTTCCAT
1 AAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-C--ACACTGAGGTACTTTCAAT
* **
100431126 TTCTGTTCTTTAATTTCTACGGTTCAA
62 TTCTG----TT-ATGTCT----TT-TT
* * * * *
100431153 AAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCT-TGACTGACACGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC--ACAC--TGAGGTACTTTCAAT
* **
100431217 TTC-----TGCCTTTCAA
62 TTCTGTTATGTCTTT-TT
* * *
100431230 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTACTTTCAATTTC
*****
100431295 TGTCT-T-TCAAAAA
65 TGT-TATGTCTTTTT
100431308 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
100431343 ATTGGGACAC
Statistics
Matches: 783, Mismatches: 100, Indels: 181
0.74 0.09 0.17
Matches are distributed among these distances:
68 1 0.00
70 1 0.00
72 11 0.01
73 96 0.12
74 73 0.09
75 123 0.16
76 35 0.04
77 92 0.12
78 94 0.12
79 11 0.01
80 66 0.08
81 6 0.01
82 2 0.00
83 19 0.02
84 6 0.01
85 69 0.09
86 8 0.01
87 12 0.02
89 4 0.01
90 1 0.00
91 46 0.06
92 7 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACTGAGGTACTTTCAATTTCT
GTTATGTCTTTTT
Found at i:100430688 original size:232 final size:231
Alignment explanation
Indices: 100430270--100431020 Score: 934
Period size: 232 Copynumber: 3.2 Consensus size: 231
100430260 TATGTGGATG
* *
100430270 TTTC-ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGCTCACG
1 TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
100430334 TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGAAGGT
66 TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGT
* *
100430399 GAGTTAAGCCTCGGGGCACACTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATGTTG
131 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGTTTGT-AAAAATCAACTCATGTTG
*
100430464 CGGGAGGTGAGTTGAGCCTCGGGGCACACCGAGGTAT
195 CGGGAGGTGAGTTGAGCCTCGGGGCACACCAAGGTAT
* * *
100430501 TTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGCTCACG
1 TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
100430566 TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGT
66 TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGT
*
100430631 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTATTTGTAAAAAATCAACTCATGTTG
131 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGTTTGT-AAAAATCAACTCATGTTG
* *
100430696 TGGGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGGTAT
195 CGGGAGGTGAGTTGAGCCTCGGGGCACA--CCAAGGTAT
* * *
100430735 TTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GAC
1 TTTCAATTTCTGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
* * * * * ***** **
100430798 ATGCTGAGGT-AATTGCAA--------TTTATAT-TGTCAAAAAAATCAACTCATATTGCAAGAG
65 GTGTTGA-GTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAG
** *
100430853 GTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTCTGTCTCTGTTTGTCAAAATCAA
129 GTGAGTTGAGCCTCGGGGCAC--GCTGAGGTATTTTCAA--T-TG---CTGTTTGTAAAAATCAA
* * * * * *
100430918 CTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTAAGGTAT
186 CTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACACCAAGGTAT
* *
100430964 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
1 TTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
100431021 CAGGGCACGC
Statistics
Matches: 460, Mismatches: 46, Indels: 30
0.86 0.09 0.06
Matches are distributed among these distances:
224 42 0.09
225 6 0.01
226 16 0.03
228 3 0.01
229 61 0.13
231 42 0.09
232 213 0.46
233 13 0.03
234 21 0.05
235 43 0.09
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (231 bp):
TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGT
GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGTTTGTAAAAATCAACTCATGTTGC
GGGAGGTGAGTTGAGCCTCGGGGCACACCAAGGTAT
Found at i:100430857 original size:309 final size:300
Alignment explanation
Indices: 100430375--100431486 Score: 946
Period size: 309 Copynumber: 3.6 Consensus size: 300
100430365 TCTGTTTTTT
* * * *
100430375 AAATCAACTCATATTGCGGAAGGTGAGTTAAGCCTCGGGGCACACTG-AGGTATTTTCAATTGCT
1 AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTC-GGGCACA-TGCAGGTATTTTCAATTTCT
* * * ** * *
100430439 GTTTGTC-AAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACACCGAGGTATTT
64 GTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATT
* * * *
100430503 TCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGCTCACGTG
128 GCAAATTATACTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCATCGGCTCACGTG
* * ** * *
100430568 TTGA-GTCACTTTCAATTTCTGTTTTTATGTCTGTTT-TTTAAATCAACTCATATTGCGGGAGGT
193 CTGAGGT-ACTTTCAATTTCTG------TCTCTGTTTGTCAAAATCAACTCATATTGCGAGAGAT
* *
100430631 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTATTTGT-AAA
251 GAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTGCTATTTGTAAAA
*
100430680 AAATCAACTCATGTTGTGGGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGGTATTTTCAATTTC
1 AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTCGGG-CACATG-C-AGGTATTTTCAATTTC
100430745 TGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAA
63 TG-TTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAA
* *
100430810 TTGCAATTTATA-TTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCAC
126 TTGCAAATTATACTT-TCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCATCGGCTCAC
*
100430874 GTGCTGAGGTATTTTCAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGCGAGAGATGAGT
190 GTGCTGAGGTACTTTCAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGCGAGAGATGAGT
* *
100430939 TGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTCTGTTTGTCAAAA
255 TGAGCCTCAGGGCACGCTAAGGTATTTTCAATTGCTATTTGT-AAAA
* *
100430986 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTG-AGGTATTTTCAATTTCT
1 AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTC-GGGCAC-ATGCAGGTATTTTCAATTTC-
* * * *
100431050 GTTTGTTTTTAAAAAAACAAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAG
63 ---TGTTTTCAAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAT--GCTGAG
* * * *
100431115 GTATTTTCCATTTCTGTTCTTTAATTTCTACGGTTCAAAAAAATCAGCTCATATTGCGAA-AGGT
122 GTA------A--T-TG--C---AAATTATAC-TTTCAAAAAAATCAACTCATATTGC-AAGAGGT
* * * * ****
100431179 GAGTTGAGCCTTGACTGACACGT--TGAGGTATTTTCAATTTCTG-C-CT-TTCAAAAAAATCAA
171 GAGTTGAGCATCGGCT--CACGTGCTGAGGTACTTTCAATTTCTGTCTCTGTTTGTCAAAATCAA
* * * * * *
100431239 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTCTT-TC
234 CTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTGCTAT-TTGT-
100431303 AAAAAAA
297 ---AAAA
* * * * * * *
100431310 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGG-ACACGCTGAGATAATTTT-TATTTC
1 AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTCGGGCACATGC--AGGT-ATTTTCAATTTC
* * * * ** * * *
100431373 TG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
63 TGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATT
* * * * * *
100431436 TCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGA
128 GCAAATTAT-ACTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
100431487 ACCTCAAGAT
Statistics
Matches: 685, Mismatches: 72, Indels: 104
0.80 0.08 0.12
Matches are distributed among these distances:
300 2 0.00
301 41 0.06
302 1 0.00
303 8 0.01
304 87 0.13
305 36 0.05
306 44 0.06
307 69 0.10
308 10 0.01
309 128 0.19
310 2 0.00
315 9 0.01
317 33 0.05
318 7 0.01
319 3 0.00
320 3 0.00
321 67 0.10
322 6 0.01
323 11 0.02
324 105 0.15
325 8 0.01
326 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (300 bp):
AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTCGGGCACATGCAGGTATTTTCAATTTCTGT
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTGCA
AATTATACTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCATCGGCTCACGTGCTG
AGGTACTTTCAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC
TCAGGGCACGCTAAGGTATTTTCAATTGCTATTTGTAAAA
Found at i:100431007 original size:75 final size:74
Alignment explanation
Indices: 100430607--100431132 Score: 594
Period size: 75 Copynumber: 6.9 Consensus size: 74
100430597 TCTGTTTTTT
* * *
100430607 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
100430672 TTTGT--AAA
65 TTTGTCAAAA
* * * **
100430680 AAATCAACTCATGTTGTGGGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC--GCTGAGGTATTTTCAATTTC
100430745 TGCTTT-TCAAAA
63 TG-TTTGTCAAAA
* * * * *
100430757 GAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTGCAATTTAT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACGCTGAGGTATTTTCAATTTCTG
*
100430821 ATTGTCAAAA
65 TTTGTCAAAA
* *
100430831 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCAC--GCTGAGGTATTTTCAATTTC
****
100430896 TGTCTCTGTTTGTCA
63 TGT-T-TG-TCAAAA
* *
100430911 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
100430976 TTTGTCAAAA
65 TTTGTCAAAA
*
100430986 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
*
100431051 TTTGTTTTTAAAA
65 TTTG---TCAAAA
* *
100431064 AAA-CAAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTATTTTCCATTT
1 AAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-C--ACGCTGAGGTATTTTCAATTT
100431128 CTGTT
62 CTGTT
100431133 CTTTAATTTC
Statistics
Matches: 386, Mismatches: 45, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
72 3 0.01
73 39 0.10
74 44 0.11
75 103 0.27
76 23 0.06
77 45 0.12
78 61 0.16
79 2 0.01
80 64 0.17
81 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTCTGT
TTGTCAAAA
Found at i:100431281 original size:75 final size:75
Alignment explanation
Indices: 100431148--100431492 Score: 403
Period size: 75 Copynumber: 4.6 Consensus size: 75
100431138 ATTTCTACGG
* * * * *
100431148 TTCAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTATTTT
*
100431213 CAATTTCTGCCT
64 CAATTTCTGTCT
*
100431225 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
100431290 ATTTCTGTCT
66 ATTTCTGTCT
* ** *
100431300 TTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGGACACGCTGAGATAATT
1 TTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
*
100431365 TT-TATTTCTG--T
62 TTCAATTTCTGTCT
* * * * * *
100431376 TTC--AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
100431439 ATTTCTGTCT
66 ATTTCTGTCT
* ** *
100431449 TTCAAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGAACCTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
100431493 AGATGCTGAG
Statistics
Matches: 229, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
70 5 0.02
71 50 0.22
73 4 0.02
75 63 0.28
76 6 0.03
77 39 0.17
78 58 0.25
79 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTCT
Found at i:100431342 original size:246 final size:229
Alignment explanation
Indices: 100430607--100431492 Score: 844
Period size: 246 Copynumber: 3.8 Consensus size: 229
100430597 TCTGTTTTTT
** **
100430607 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAA--T-
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTC
* * * * ** * * * *
100430667 TG---CTATTTGTAAAAAATCAACTCATGTTGTGGGAGGTGAGTTGAGCCTCGGGTCACATGCCA
66 TGTCTCTGTTTGT-CAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGG--ACACGCTA
* *
100430729 AGGTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
128 AGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * * *
100430794 GGACATGCTGAGGTAATTGCAATTTATATTGTCAAAA
193 GGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAA
**
100430831 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTC
* *
100430896 TGTCTCTGTTTGTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTAAGG
66 TGTCTCTGTTTGTCAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGACACGCTAAGG
*
100430961 TATTTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
131 TATTTTCAATTTCTGCTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
100431025 GCACGCTGAGGTATTTTCAATTTCTGTTTGTTTTTAAAA
195 ACACGCTGAGGTAATTTCAATTTC----TGTTTTCAAAA
* * *
100431064 AAA-CAAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTATTTTCCATTT
1 AAATC-AACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTT
* * * * *
100431128 CTGTTCTTTAATTTCTACGGTTCAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTTGA
65 CTG-TCTCT--GTT-T---G-TC---AAAATCAACTCATATTGCGAAAGATGAGTTGAGCC-TCA
* * * *
100431193 CTGACACGTTGAGGTATTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
118 -GGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
100431258 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAAAA
182 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT-TTTC---AAAA
* * * * *
100431310 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGG--GACACGCTGA-G-A---T-AATTTT
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTC
* * * * * * *
100431367 TATTTCTG-TT-TCAAAATTCAACTCATACTGCAAGAAG-TGAGTTGAGCCTCAAGACACGTTGA
66 TGTCTCTGTTTGTCAAAA-TCAACTCATATTGCGA-AAGATGAGTTGAGCCTCAGGACACGCTAA
* ** *
100431429 GGTATTTTCAATTTCTG-TCTTTCAAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGAACCTCA
129 GGTATTTTCAATTTCTGCT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
100431493 AGATGCTGAG
Statistics
Matches: 558, Mismatches: 68, Indels: 72
0.80 0.10 0.10
Matches are distributed among these distances:
224 104 0.19
225 6 0.01
226 41 0.07
227 3 0.01
228 6 0.01
229 86 0.15
231 35 0.06
232 8 0.01
233 69 0.12
234 5 0.01
236 2 0.00
237 4 0.01
238 5 0.01
239 1 0.00
240 1 0.00
241 2 0.00
242 4 0.01
243 4 0.01
244 40 0.07
245 2 0.00
246 127 0.23
247 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (229 bp):
AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATTTC
TGTCTCTGTTTGTCAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGACACGCTAAGG
TATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAA
Found at i:100431407 original size:71 final size:73
Alignment explanation
Indices: 100431152--100431486 Score: 323
Period size: 78 Copynumber: 4.5 Consensus size: 73
100431142 CTACGGTTCA
* * * * * * * *
100431152 AAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CATCA-GGACACGCTGAGATAATTTCAAT
100431217 TTCTGCCTTTC
64 TTCTG-CTTTC
* *
100431228 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGATAATTTCAATT
100431293 TCTGTCTTTC
65 TCTG-CTTTC
** **
100431303 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGGACACGCTGAGATAATTTTT
1 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGATAATTTCA
100431368 ATTTCTG-TTTC
62 ATTTCTGCTTTC
* * * * * * * * *
100431379 -AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGATAATTTCAATTT
100431443 CTGTCTTTC
66 CTG-CTTTC
* **
100431452 AAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
100431487 ACCTCAAGAT
Statistics
Matches: 219, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
71 54 0.25
73 4 0.02
75 58 0.26
76 7 0.03
77 33 0.15
78 63 0.29
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGATAATTTCAATTT
CTGCTTTC
Found at i:100431409 original size:149 final size:149
Alignment explanation
Indices: 100431148--100431486 Score: 443
Period size: 149 Copynumber: 2.3 Consensus size: 149
100431138 ATTTCTACGG
* * * * *
100431148 TTCAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTT
1 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCATTGA-GGACACGCTGAGATATTTT
* * * *
100431213 CAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
65 CAATTTCTG-CTTTC-AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCT
100431278 GAGGTAATTTCAATTTCTGTCT
128 GAGGTAATTTCAATTTCTGTCT
*
100431300 TTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTG-GGACACGCTGAGATAAT
1 TTC---AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCATTGAGGACACGCTGAGAT-AT
* * *
100431364 TTT-TATTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGT
62 TTTCAATTTCTGCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGC
*
100431426 TGAGGTATTTTCAATTTCTGTCT
127 TGAGGTAATTTCAATTTCTGTCT
**
100431449 TTCAAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGA
1 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
100431487 ACCTCAAGAT
Statistics
Matches: 166, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
146 32 0.19
149 66 0.40
151 4 0.02
152 3 0.02
153 18 0.11
154 5 0.03
155 38 0.23
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (149 bp):
TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCATTGAGGACACGCTGAGATATTTTC
AATTTCTGCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGTCT
Found at i:100431652 original size:89 final size:87
Alignment explanation
Indices: 100431433--100431758 Score: 308
Period size: 89 Copynumber: 3.7 Consensus size: 87
100431423 CGTTGAGGTA
* * ** * * *
100431433 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGTAAGAGGTGAGTTGAACC-TC-AAGA
1 TTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCTCACA
* *
100431496 TGCTGAGGTGTTTTCCA-TTTTT
66 CGCTGAGGTATTTT-CAGTTTTT
* * * *
100431518 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTAAC
1 -TT-TTCAATTTATGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--C
100431583 TCACACGCTGAGGTATTTTCAGTTTTT
61 TCACACGCTGAGGTATTTTCAGTTTTT
100431610 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGT
1 TTTTCAATTTATGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTC---T
*
100431673 CACACGCCGAGGTATTTTCAATTGATTTTT
62 CACACGCTGAGGTATTTTC-A--G-TTTTT
* * *
100431703 TTTTCAATTTAT-ACTTTGC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTATGTCTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
100431759 CGGGTCACAT
Statistics
Matches: 206, Mismatches: 16, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
86 3 0.01
87 16 0.08
88 35 0.17
89 58 0.28
90 14 0.07
91 39 0.19
92 21 0.10
93 20 0.10
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCTCACA
CGCTGAGGTATTTTCAGTTTTT
Found at i:100431755 original size:91 final size:89
Alignment explanation
Indices: 100431541--100431845 Score: 327
Period size: 89 Copynumber: 3.4 Consensus size: 89
100431531 TGTGTTTCAA
* * **** *
100431541 AAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTAACTCACACGCTGAGGTATTTTC-AG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAAG
*
100431605 TTTTTTTTTCAATTTATGTTTGTC
66 TTTTTTTTTCAATTTATCTTTGTC
100431629 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAA
100431694 TTGATTTTTTTTTCAATTTATACTTTG-C
65 --G-TTTTTTTTTCAATTTAT-CTTTGTC
* * ** *
100431722 -AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGATGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTC-AA
* * * * *
100431786 ATCTGTTTTACAAATTT-TGTTT-T-
65 GTTTTTTTTTC-AATTTATCTTTGTC
*
100431809 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
100431846 TGGCTCACGT
Statistics
Matches: 187, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
87 34 0.18
88 3 0.02
89 63 0.34
90 6 0.03
91 56 0.30
92 3 0.02
93 18 0.10
94 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAAG
TTTTTTTTTCAATTTATCTTTGTC
Found at i:100431871 original size:87 final size:86
Alignment explanation
Indices: 100431631--100431930 Score: 255
Period size: 87 Copynumber: 3.4 Consensus size: 86
100431621 TGTTTGTCAA
* * *
100431631 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGTTATTTTCAA--
* * * * *
100431696 GATTTTTTTTTC-AATTTATACTTTGC
64 AATCTATTTTACAAATTT-T--TTT-T
* * * *
100431722 AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGA-TGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGT-TATTTTCAAA
*
100431786 ATCTGTTTTACAAATTTTGTTTT
65 ATCTATTTTACAAATTTT-TTTT
* * * * * **
100431809 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGTTATGTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGTTATTTTCAAAA
** *
100431874 TCTATTTTA-ATGTCTATTTTT
66 TCTATTTTACAAAT-TTTTTTT
* * *
100431895 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGC
100431931 TCAAGATCAC
Statistics
Matches: 175, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
86 9 0.05
87 91 0.52
88 4 0.02
89 9 0.05
90 5 0.03
91 57 0.33
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGTTATTTTCAAAA
TCTATTTTACAAATTTTTTTT
Found at i:100433223 original size:25 final size:26
Alignment explanation
Indices: 100433195--100433266 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
100433185 ATTCTAAATT
*
100433195 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
100433220 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
100433245 TTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
100433267 TTTCTACATG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 34 0.89
26 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:100433302 original size:22 final size:22
Alignment explanation
Indices: 100433277--100433384 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
100433267 TTTCTACATG
*
100433277 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
100433299 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
100433324 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
100433347 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
100433367 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
100433385 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:100433333 original size:25 final size:24
Alignment explanation
Indices: 100433283--100433369 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
100433273 CATGTTATCT
*
100433283 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
100433309 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
100433334 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
100433357 TATTTATTTTTTA
1 TATGTATTTTTTA
100433370 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:100433351 original size:20 final size:20
Alignment explanation
Indices: 100433326--100433384 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
100433316 TTTTTACACT
100433326 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
100433346 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
100433369 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
100433385 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:100433523 original size:16 final size:15
Alignment explanation
Indices: 100433499--100433546 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
100433489 TAATTATTAT
*
100433499 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
100433515 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
100433530 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
100433546 T
1 T
100433547 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:100433534 original size:7 final size:8
Alignment explanation
Indices: 100433499--100433550 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
100433489 TAATTATTAT
*
100433499 TATTCTAA
1 TATTTTAA
*
100433507 TATTTTGA
1 TATTTTAA
100433515 TATTTTAA
1 TATTTTAA
100433523 TATTTT-A
1 TATTTTAA
100433530 TATTTTATA
1 TATTTTA-A
* *
100433539 TACTTTAT
1 TATTTTAA
100433547 TATT
1 TATT
100433551 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:100434992 original size:15 final size:16
Alignment explanation
Indices: 100434955--100434992 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100434945 AAATACCAAA
100434955 AAAAATTCAACACCAT
1 AAAAATTCAACACCAT
* *
100434971 CAAAATTCAAGACC-T
1 AAAAATTCAACACCAT
100434986 AAAAATT
1 AAAAATT
100434993 AAAGTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATTCAACACCAT
Found at i:100435082 original size:35 final size:33
Alignment explanation
Indices: 100435010--100435083 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 33
100435000 TTAGATAATG
100435010 ATAAAATCTCACTACTATCAAAATCTTAAAAAT
1 ATAAAATCTCACTACTATCAAAATCTTAAAAAT
* *
100435043 -TAAAATCTCACCT-CTATCATCAAATTTTAAAGAT
1 ATAAAATCTCA-CTACTATCA--AAATCTTAAAAAT
100435077 ATAAAAT
1 ATAAAAT
100435084 TATTATCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 16 0.46
33 2 0.06
34 11 0.31
35 6 0.17
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (33 bp):
ATAAAATCTCACTACTATCAAAATCTTAAAAAT
Found at i:100436176 original size:16 final size:18
Alignment explanation
Indices: 100436145--100436178 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
100436135 TGTTTTTAAG
100436145 TATTTATATATAAAATTT
1 TATTTATATATAAAATTT
100436163 TATTTA-AT-TAAAATTT
1 TATTTATATATAAAATTT
100436179 AATACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTATATATAAAATTT
Done.