Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 192 of 250
Found at i:60036491 original size:14 final size:14
Alignment explanation
Indices: 60036466--60036508 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
60036456 GCTATAGGGG
*
60036466 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
60036480 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
60036494 AGAAGAAGAGAAAAT
1 AGAAGAAGA-AAAAT
60036509 GAAATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:60037836 original size:19 final size:18
Alignment explanation
Indices: 60037799--60037842 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
60037789 ATACATGCAG
60037799 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
60037816 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
60037835 TACTAATT
1 TAATAATT
60037843 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:60042316 original size:15 final size:17
Alignment explanation
Indices: 60042284--60042319 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
60042274 GTTTCGTGAC
60042284 CACACGGGCGTGTGCCA
1 CACACGGGCGTGTGCCA
60042301 CACACGGGCG-GT-CCA
1 CACACGGGCGTGTGCCA
60042316 CACA
1 CACA
60042320 ATTATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.22, C:0.39, G:0.31, T:0.08
Consensus pattern (17 bp):
CACACGGGCGTGTGCCA
Found at i:60046258 original size:15 final size:16
Alignment explanation
Indices: 60046240--60046270 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60046230 TTTTTTAATA
60046240 TATTTTT-CTTTTCTT
1 TATTTTTCCTTTTCTT
60046255 TATTTTTCCTTTTCTT
1 TATTTTTCCTTTTCTT
60046271 GTAAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTCCTTTTCTT
Found at i:60051754 original size:21 final size:21
Alignment explanation
Indices: 60051729--60051781 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
60051719 GGCCTGTTTC
60051729 CACGGCCATGT-CCCTAGTCCA
1 CACGGCCATGTGCCCTAGT-CA
* * *
60051750 CACGGGCGTGTGCCTTAGTCA
1 CACGGCCATGTGCCCTAGTCA
*
60051771 CACGGTCATGT
1 CACGGCCATGT
60051782 ACCTCACTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (21 bp):
CACGGCCATGTGCCCTAGTCA
Found at i:60051769 original size:22 final size:21
Alignment explanation
Indices: 60051743--60051830 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
60051733 GCCATGTCCC
60051743 TAGTCCACACGGGCGTGTGCCT
1 TAGT-CACACGGGCGTGTGCCT
* * *
60051765 TAGTCACACGGTCATGTACCT
1 TAGTCACACGGGCGTGTGCCT
* *
60051786 CACTTCACACGGGCGTGTGCCT
1 TA-GTCACACGGGCGTGTGCCT
* * *
60051808 CAGTCACATGGTCGTGTGTCCT
1 TAGTCACACGGGCGTGTG-CCT
60051830 T
1 T
60051831 CTTTACGCGG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
21 28 0.54
22 24 0.46
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.27
Consensus pattern (21 bp):
TAGTCACACGGGCGTGTGCCT
Found at i:60051823 original size:21 final size:21
Alignment explanation
Indices: 60051748--60051825 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
60051738 GTCCCTAGTC
* *
60051748 CACACGGGCGTGTGCCTTAGT
1 CACACGGTCGTGTGCCTCAGT
* * *
60051769 CACACGGTCATGTACCTCACTT
1 CACACGGTCGTGTGCCTCA-GT
*
60051791 CACACGGGCGTGTGCCTCAGT
1 CACACGGTCGTGTGCCTCAGT
*
60051812 CACATGGTCGTGTG
1 CACACGGTCGTGTG
60051826 TCCTTCTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.17, C:0.31, G:0.28, T:0.24
Consensus pattern (21 bp):
CACACGGTCGTGTGCCTCAGT
Found at i:60056750 original size:30 final size:30
Alignment explanation
Indices: 60056701--60056759 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
60056691 ATTTTTTTAT
*
60056701 TTTCCCTCTAAAATTTTAC-TCCCTCCCAC
1 TTTCCCCCTAAAATTTTACTTCCCTCCCAC
*
60056730 TTTCCCCCTAAAACTTTTACTTCCTTCCCA
1 TTTCCCCCTAAAA-TTTTACTTCCCTCCCA
60056760 TCCCACCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 6 0.23
31 8 0.31
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCTAAAATTTTACTTCCCTCCCAC
Found at i:60062137 original size:131 final size:130
Alignment explanation
Indices: 60061972--60062363 Score: 545
Period size: 131 Copynumber: 3.0 Consensus size: 130
60061962 AAATTTGAAG
* * * *
60061972 AACATGAGTGAAATTCTAAAGGAATACTT-GATTATTTGGAACAAACAGGAGATCGTAACCCAGC
1 AACATGAGTGAAATTCCAAAGGAATA-TTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * *
60062036 ACGATTGGGCACGATTCCCCGAATTGCAAAACATCGAACATTACCTTCGTGTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
60062101 A
130 A
* * * *
60062102 AGACATGAATGAAATTCCAAAGGAATGTTCAATTATTTTGAACAAACAGGAAATCGCAACCTAGC
1 A-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
*
60062167 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
60062232 A
130 A
* * *
60062233 AAGCATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACAAGAAATCACAACCCAGC
1 AA-CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * ** * * *
60062298 ACGATAGGGCACGATT-CCTGAATTGCCAAACACCGAGTATTGCCTTCGTTTTAAAGAATTCTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
60062362 A
130 A
60062363 A
1 A
60062364 TGAATAATTA
Statistics
Matches: 232, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
130 46 0.20
131 186 0.80
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (130 bp):
AACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCA
CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAA
Found at i:60071836 original size:4 final size:4
Alignment explanation
Indices: 60071827--60071852 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60071817 AGCTGTTGAT
60071827 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
60071853 GTCAAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:60073311 original size:36 final size:36
Alignment explanation
Indices: 60073264--60073335 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
60073254 AGGTCCATAT
60073264 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
60073300 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
60073336 GATGTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (36 bp):
TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
Found at i:60079331 original size:19 final size:20
Alignment explanation
Indices: 60079297--60079350 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
60079287 TATGACAAAT
*
60079297 AAATTATAAAAAAAATCAATA
1 AAATT-TAATAAAAATCAATA
* *
60079318 AAATTT-ATAAAAATTATTA
1 AAATTTAATAAAAATCAATA
*
60079337 AATTTTAATAAAAA
1 AAATTTAATAAAAA
60079351 ATATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.54
20 8 0.29
21 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTTAATAAAAATCAATA
Found at i:60079347 original size:20 final size:20
Alignment explanation
Indices: 60079296--60079374 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 20
60079286 GTATGACAAA
* *
60079296 TAAATTATAAAAAAAATCAAT
1 TAAATTATAATAAAAAT-TAT
*
60079317 AAAATT-T-ATAAAAATTAT
1 TAAATTATAATAAAAATTAT
* *
60079335 TAAATTTTAATAAAAAATAT
1 TAAATTATAATAAAAATTAT
* *
60079355 AAAATATATATTAAAAATTA
1 TAAAT-TATAATAAAAATTA
60079375 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 7 0.15
19 8 0.17
20 15 0.33
21 16 0.35
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATTATAATAAAAATTAT
Found at i:60079352 original size:31 final size:34
Alignment explanation
Indices: 60079317--60079387 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 34
60079307 AAAAATCAAT
** *
60079317 AAAATTTATAAAA-AT-TATTAAATTTTA-ATAA
1 AAAATTTATAAAATATATATTAAAAATTAGAAAA
60079348 AAAA--TATAAAATATATATTAAAAATTAGAAAA
1 AAAATTTATAAAATATATATTAAAAATTAGAAAA
60079380 AAAATTTA
1 AAAATTTA
60079388 AAATTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
29 7 0.22
30 2 0.06
31 14 0.44
32 7 0.22
34 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (34 bp):
AAAATTTATAAAATATATATTAAAAATTAGAAAA
Found at i:60079412 original size:30 final size:32
Alignment explanation
Indices: 60079346--60079421 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 32
60079336 AAATTTTAAT
* *
60079346 AAAAAATATAAAATATATATTAAAAATTAGAA
1 AAAAAATTTAAAATATATATTAAAAATCAGAA
* *
60079378 AAAAAATTTAAAAT-TTTA-TAAAAATCA-TA
1 AAAAAATTTAAAATATATATTAAAAATCAGAA
*
60079407 CAAAAATTATAAAAT
1 AAAAAATT-TAAAAT
60079422 GTATCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 8 0.21
30 14 0.37
31 3 0.08
32 13 0.34
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (32 bp):
AAAAAATTTAAAATATATATTAAAAATCAGAA
Found at i:60079708 original size:28 final size:28
Alignment explanation
Indices: 60079571--60079769 Score: 95
Period size: 28 Copynumber: 7.0 Consensus size: 28
60079561 TTTGGTACAA
*
60079571 TAAATTTTATATATTTTTTTATGAA-TTTTA
1 TAAATTTTATATA--TTTTTAT-AATTTTTT
** * *
60079601 TATTTCTTTACAT-TTTTTATAATTTTCT
1 TAAAT-TTTATATATTTTTATAATTTTTT
* * * * *
60079629 TATGACTTTATAAAATTTTATAGTTTTTTT
1 TA-AATTTTATATATTTTTATA-ATTTTTT
* *
60079659 CTATATTTCTATATA-TTCTATAATTTTTT
1 -TAAATTT-TATATATTTTTATAATTTTTT
* *
60079688 TACATTTTATATATTTTTAT-ATTTTTAA
1 TAAATTTTATATATTTTTATAATTTTT-T
* * *
60079716 TAAATTTTAAATATTTTAAT-ATTTTAT
1 TAAATTTTATATATTTTTATAATTTTTT
* *
60079743 TAAAATTTA-ATAATTTTTATAACTTTT
1 TAAATTTTATAT-ATTTTTATAATTTTT
60079770 ATTGTTTATA
Statistics
Matches: 128, Mismatches: 30, Indels: 24
0.70 0.16 0.13
Matches are distributed among these distances:
26 2 0.02
27 29 0.23
28 54 0.42
29 13 0.10
30 17 0.13
31 13 0.10
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TAAATTTTATATATTTTTATAATTTTTT
Found at i:60079750 original size:19 final size:20
Alignment explanation
Indices: 60079722--60079759 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
60079712 TTAATAAATT
60079722 TTAAATATTTTAAT-ATTTTA
1 TTAAATA-TTTAATAATTTTA
60079742 TTAAA-ATTTAATAATTTT
1 TTAAATATTTAATAATTTT
60079760 TATAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATATTTAATAATTTTA
Found at i:60079770 original size:19 final size:19
Alignment explanation
Indices: 60079678--60079770 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
60079668 TATATATTCT
* *
60079678 ATAATTTTTTTACATTTT-
1 ATAATTTTTATAAATTTTA
*
60079696 ATATATTTTTAT-ATTTTTA
1 ATA-ATTTTTATAAATTTTA
*
60079715 ATAAATTTTA-AATATTTTA
1 ATAATTTTTATAA-ATTTTA
*
60079734 AT-A-TTTTATTAAAATTTA
1 ATAATTTTTA-TAAATTTTA
*
60079752 ATAATTTTTATAACTTTTA
1 ATAATTTTTATAAATTTTA
60079771 TTGTTTATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.08
18 22 0.37
19 27 0.46
20 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTATAAATTTTA
Found at i:60083069 original size:20 final size:21
Alignment explanation
Indices: 60083040--60083091 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
60083030 TGTTATACTT
* * *
60083040 TGATTGATTAA-GTAAAAATA
1 TGATTAATTAAGGAAAAAACA
60083060 TGATTAATTAAGGAAAAAACA
1 TGATTAATTAAGGAAAAAACA
*
60083081 TCATTAATTAA
1 TGATTAATTAA
60083092 ATTAGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (21 bp):
TGATTAATTAAGGAAAAAACA
Found at i:60088516 original size:24 final size:24
Alignment explanation
Indices: 60088453--60088500 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60088443 GTTAAGAATT
60088453 AGTATTTTATAGAATAAATTTTTC
1 AGTATTTTATAGAATAAATTTTTC
60088477 AGTATTTTATAGAATAAATTTTTC
1 AGTATTTTATAGAATAAATTTTTC
60088501 TTATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
AGTATTTTATAGAATAAATTTTTC
Found at i:60088762 original size:26 final size:25
Alignment explanation
Indices: 60088711--60088762 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
60088701 AATTAATTTT
* *
60088711 ATTATTTTTAATTAATTATCATTTA
1 ATTATTTTTAATTAATTACCAATTA
60088736 ATTATTGTTTAA-TAATATACCAATTA
1 ATTATT-TTTAATTAAT-TACCAATTA
60088762 A
1 A
60088763 AACTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATTTTTAATTAATTACCAATTA
Found at i:60088964 original size:16 final size:16
Alignment explanation
Indices: 60088945--60088978 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
60088935 TGATATTCAA
*
60088945 TAATTTTAATATTATT
1 TAATTTTAATAATATT
60088961 TAATTTTAATAATATT
1 TAATTTTAATAATATT
60088977 TA
1 TA
60088979 CATAATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTAATAATATT
Found at i:60101458 original size:19 final size:19
Alignment explanation
Indices: 60101434--60101472 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60101424 AAGCAAAGAA
60101434 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
60101453 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
60101472 A
1 A
60101473 GTAATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
ATTCAAAACTTCGAAGTTT
Found at i:60102801 original size:78 final size:78
Alignment explanation
Indices: 60102712--60102868 Score: 251
Period size: 78 Copynumber: 2.0 Consensus size: 78
60102702 ATTCATGGCT
* *
60102712 AATCACATCTTTATAAGTATGAATTATTGTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
*
60102777 AGCTAATTAAAGG
66 AGCTAATCAAAGG
* * * *
60102790 AATCACATCTTTATAAGTGTGAATCATTCTAGTTTAGGCAAATGATTACCACTCTCAATAGAATG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
60102855 AGCTAATCAAAGG
66 AGCTAATCAAAGG
60102868 A
1 A
60102869 GAGGATTCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (78 bp):
AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
AGCTAATCAAAGG
Found at i:60111662 original size:47 final size:47
Alignment explanation
Indices: 60111600--60111725 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
60111590 CTTTACATAA
* * * *
60111600 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
60111647 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
60111694 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
60111726 AAATCACTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:60111741 original size:7 final size:7
Alignment explanation
Indices: 60111729--60111757 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
60111719 TATACAGAAA
60111729 TCACTTG
1 TCACTTG
60111736 TCACTTG
1 TCACTTG
60111743 TCACTTG
1 TCACTTG
60111750 TCACTTG
1 TCACTTG
60111757 T
1 T
60111758 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:60111791 original size:31 final size:31
Alignment explanation
Indices: 60111756--60111964 Score: 301
Period size: 31 Copynumber: 6.7 Consensus size: 31
60111746 CTTGTCACTT
* *
60111756 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** * *
60111787 GTAGCTGGTGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60111818 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60111849 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60111880 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
60111911 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60111942 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
60111965 GTTGTCATTT
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:60112041 original size:50 final size:50
Alignment explanation
Indices: 60111942--60112118 Score: 230
Period size: 50 Copynumber: 3.5 Consensus size: 50
60111932 CACTGATCAG
* * * * * *
60111942 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTAATCAGATAAGT
*
60111993 GTAGCCGAAACTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
* * * *
60112043 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
60112093 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
60112119 GTTTCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
Found at i:60114745 original size:27 final size:27
Alignment explanation
Indices: 60114685--60114832 Score: 97
Period size: 27 Copynumber: 5.4 Consensus size: 27
60114675 ATACCCCCAG
*
60114685 TTGTAAAATTA-CCAAAGTACCC-CGGGT
1 TTGTAAAATTACCCAAA-TACCCTC-GAT
* *
60114712 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGAT
**
60114739 TTGTAAAATTACTGAAATACCCTC-AGT
1 TTGTAAAATTACCCAAATACCCTCGA-T
* ** *
60114766 TTGCAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCCAAATACCCTCGAT
* * * *
60114793 ATATAAAATTA-TCAAAGTACCCTCGAA
1 TTGTAAAATTACCCAAA-TACCCTCGAT
*
60114820 TTATAAAAATTAC
1 TTGT-AAAATTAC
60114833 TATTTTACCC
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
26 5 0.05
27 80 0.81
28 14 0.14
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCGAT
Found at i:60114817 original size:81 final size:81
Alignment explanation
Indices: 60114664--60114833 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
60114654 TTAGTTTACC
* ***
60114664 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCGGGTTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCGGACATATAAAATTACCCAAA
* * *
60114729 TATCCTCGATTTGT-A
66 TACCCTCGAATTATAA
* * *
60114744 AAATTACTGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTC-GACATATAAAATTA-TC
1 AAATTACTGAAATACCCCCAG-TTGCAAAATTAC-CAAAGTACCC-CGGACATATAAAATTACCC
60114806 AAAGTACCCTCGAATTATAA
63 AAA-TACCCTCGAATTATAA
60114826 AAATTACT
1 AAATTACT
60114834 ATTTTACCCT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
80 24 0.32
81 38 0.51
82 13 0.17
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCGGACATATAAAATTACCCAAA
TACCCTCGAATTATAA
Found at i:60114845 original size:55 final size:54
Alignment explanation
Indices: 60114783--60114950 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 54
60114773 ATTACTGAAA
*
60114783 TACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCG-ATT-TACAAAATTACTATTT
** * * ***
60114838 TACCCTCGATTTACAGAATTATTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
** * * * **** *
60114892 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
60114946 TACCC
1 TACCC
60114951 CTAGGGTGTT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.02
54 70 0.71
55 27 0.27
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.38
Consensus pattern (54 bp):
TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
Found at i:60114863 original size:27 final size:27
Alignment explanation
Indices: 60114810--60114950 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 27
60114800 ATTATCAAAG
60114810 TACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCG-ATT-TACAAAATTACTATTT
* *
60114838 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
60114865 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * **
60114892 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
60114919 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
60114946 TACCC
1 TACCC
60114951 CTAGGGTGTT
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 91 0.90
28 8 0.08
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:60115484 original size:6 final size:6
Alignment explanation
Indices: 60115452--60115545 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
60115442 TTGCATTCAC
* * *
60115452 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
60115501 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
60115546 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.06
6 59 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:60115497 original size:31 final size:31
Alignment explanation
Indices: 60115452--60115531 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
60115442 TTGCATTCAC
* * *
60115452 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
60115483 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
60115514 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
60115532 ATTCTAGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:60115508 original size:25 final size:24
Alignment explanation
Indices: 60115455--60115534 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 24
60115445 CATTCACATT
60115455 CTGATTTTGATTCTG-TTACTTGATA
1 CTGATTTTGATTCTGATT-C-TGATA
60115480 CTGATTTTGATTCTGATTCTG-TCA
1 CTGATTTTGATTCTGATTCTGAT-A
* *
60115504 CCTGATTCTGATTCTGATTCTGATT
1 -CTGATTTTGATTCTGATTCTGATA
60115529 CTGATT
1 CTGATT
60115535 CTAGTTCTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.02
24 9 0.18
25 36 0.73
26 3 0.06
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.50
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTGATA
Found at i:60121261 original size:13 final size:13
Alignment explanation
Indices: 60121243--60121268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60121233 GTGCAGGGGA
60121243 CACACGGCCATGG
1 CACACGGCCATGG
60121256 CACACGGCCATGG
1 CACACGGCCATGG
60121269 GAGGGAACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (13 bp):
CACACGGCCATGG
Found at i:60139396 original size:21 final size:21
Alignment explanation
Indices: 60139370--60139410 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
60139360 GTGACATGAT
60139370 AAACTCGCAAGAAGAAAATAC
1 AAACTCGCAAGAAGAAAATAC
60139391 AAACTCGCAAGAAGAAAATA
1 AAACTCGCAAGAAGAAAATA
60139411 AAAAAAACTT
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:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (21 bp):
AAACTCGCAAGAAGAAAATAC
Found at i:60140875 original size:3 final size:3
Alignment explanation
Indices: 60140861--60140902 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
60140851 AAATAGGCAT
*
60140861 TGA TGC TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
60140903 AGAAGAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.02, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:60163936 original size:20 final size:19
Alignment explanation
Indices: 60163872--60163936 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
60163862 AATTATATTT
*
60163872 TTAAATTATTAATATAATA
1 TTAAATTATTAATTTAATA
* * *
60163891 TTAATAATATTATTTTATTA
1 TTAA-ATTATTAATTTAATA
60163911 TTAAATTATTAATTTAACTA
1 TTAAATTATTAATTTAA-TA
60163931 TTAAAT
1 TTAAAT
60163937 GACATGTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATTATTAATTTAATA
Found at i:60164025 original size:17 final size:17
Alignment explanation
Indices: 60163967--60164027 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
60163957 ATTAAATTGA
60163967 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
**
60163984 AAATATACAACTAAATT-AA-
1 AAATA-A-AA--ATTTTAAAG
60164003 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
60164020 AAATAAAA
1 AAATAAAA
60164028 TGTTGTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 15 0.44
18 2 0.06
19 7 0.21
20 2 0.06
21 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAAATTTTAAAG
Found at i:60168825 original size:45 final size:45
Alignment explanation
Indices: 60168761--60168899 Score: 269
Period size: 45 Copynumber: 3.1 Consensus size: 45
60168751 TCGGTATTCT
*
60168761 TCTTTAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
60168806 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
60168851 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
60168896 TCTT
1 TCTT
60168900 TCTTATGTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (45 bp):
TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
Found at i:60170452 original size:23 final size:24
Alignment explanation
Indices: 60170422--60170466 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
60170412 ATCATGATGT
60170422 TTTTATAAATATAT-AATTATTTA
1 TTTTATAAATATATAAATTATTTA
* *
60170445 TTTTATAATTATTTAAATTATT
1 TTTTATAAATATATAAATTATT
60170467 GATAAATTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATAAATATATAAATTATTTA
Found at i:60170465 original size:15 final size:15
Alignment explanation
Indices: 60170427--60170465 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
60170417 GATGTTTTTA
60170427 TAAATATATAATTATT
1 TAAAT-TATAATTATT
**
60170443 TATTTTATAATTATT
1 TAAATTATAATTATT
60170458 TAAATTAT
1 TAAATTAT
60170466 TGATAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAATTATAATTATT
Found at i:60170997 original size:31 final size:30
Alignment explanation
Indices: 60170962--60171020 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
60170952 TGTAATTTTT
* *
60170962 AATAATTTATATATTTATAACTTTTTAAAGA
1 AATAAATTAAATATTTATAA-TTTTTAAAGA
* *
60170993 AATAAATTAAATTTTTATTATTTTTAAA
1 AATAAATTAAATATTTATAATTTTTAAA
60171021 TAGATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATAAATTAAATATTTATAATTTTTAAAGA
Found at i:60171039 original size:30 final size:30
Alignment explanation
Indices: 60170965--60171039 Score: 71
Period size: 30 Copynumber: 2.4 Consensus size: 30
60170955 AATTTTTAAT
60170965 AATTTATATATTTATAACTTTTTAAAGAAATA
1 AATTTA-AT-TTTATAACTTTTTAAAGAAATA
* * * *
60170997 AATTAAATTTTTATTA-TTTTTAAATAGATAA
1 AATTTAA-TTTTATAACTTTTTAAAGAAAT-A
60171028 AATTTAATTTTA
1 AATTTAATTTTA
60171040 CTTTTATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
30 16 0.44
31 14 0.39
32 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
AATTTAATTTTATAACTTTTTAAAGAAATA
Found at i:60173106 original size:33 final size:33
Alignment explanation
Indices: 60173059--60173125 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
60173049 CAAAAAGTTA
60173059 GGATTTTTCAATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
*
60173092 GGATTTTTCCATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
60173125 G
1 G
60173126 AAATTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (33 bp):
GGATTTTTCAATGGATGAATATAGTTGAATTAT
Found at i:60173945 original size:26 final size:26
Alignment explanation
Indices: 60173916--60173985 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
60173906 CCTGATATAT
60173916 GGCTCTTCATGAGCTT-CTCAATTAAA
1 GGCTCTTCATGAGCTTCCT-AATTAAA
* *
60173942 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
60173968 GGCTCTTCA-GAGCTTCCT
1 GGCTCTTCATGAGCTTCCT
60173986 GATATGGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 9 0.22
26 29 0.73
27 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:60173996 original size:23 final size:23
Alignment explanation
Indices: 60173942--60174018 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 23
60173932 CTCAATTAAA
* *
60173942 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCA-GAGCTTCCTGA-T-AT
60173968 GGCTCTTCAGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
*
60173991 GGCTCTTCGGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
60174014 GGCTC
1 GGCTC
60174019 ACTTGAACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 29 0.60
24 1 0.02
25 10 0.21
26 8 0.17
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (23 bp):
GGCTCTTCAGAGCTTCCTGATAT
Found at i:60174172 original size:25 final size:25
Alignment explanation
Indices: 60174144--60174191 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
60174134 TACAGCCCGG
60174144 ATAAGCTT-CTCATTATATAGCTCAC
1 ATAAGCTTCCT-ATTATATAGCTCAC
*
60174169 ATAAGCTTCCTATTATATTGCTC
1 ATAAGCTTCCTATTATATAGCTC
60174192 GAGAGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (25 bp):
ATAAGCTTCCTATTATATAGCTCAC
Found at i:60179833 original size:21 final size:21
Alignment explanation
Indices: 60179809--60179849 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60179799 AGCTAATGTC
* *
60179809 CTTAATTTTCAACAATAAACT
1 CTTAATTTCCAAAAATAAACT
60179830 CTTAATTTCCAAAAATAAAC
1 CTTAATTTCCAAAAATAAAC
60179850 GAAGGCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
CTTAATTTCCAAAAATAAACT
Found at i:60183711 original size:6 final size:6
Alignment explanation
Indices: 60183700--60183785 Score: 75
Period size: 6 Copynumber: 13.3 Consensus size: 6
60183690 CAACCCAATC
** *
60183700 TTTATT TTTATT TTTATT TTTATT TATTATT TTCCTT TCTTTTCT TTTATT
1 TTTATT TTTATT TTTATT TTTATT T-TTATT TTTATT T-TTAT-T TTTATT
60183751 ATTTATT ATTTATT ATTT-TAT TTTATT TTTATT TT
1 -TTTATT -TTTATT -TTTAT-T TTTATT TTTATT TT
60183786 AGTTAAATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
6 37 0.54
7 30 0.43
8 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:60184149 original size:41 final size:40
Alignment explanation
Indices: 60184064--60184174 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 40
60184054 CTTCATGGTA
*
60184064 CAAACAGTTCTATATCCAGCCCA-AAGTGCCAATCCCTACTGC
1 CAAACAGTTCTAT-TCCAGCCCAGAA-T-CCAATCCCTACAGC
* *
60184106 CAAACAGTTCTATTCCAGCCCAGAATCCATATCTCTGCAGC
1 CAAACAGTTCTATTCCAGCCCAGAATCCA-ATCCCTACAGC
* *
60184147 CAAAC-GTCCTATTCCAGCCTTAGAATCC
1 CAAACAGTTCTATTCCAGCC-CAGAATCC
60184175 CCAAAACCTG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
40 16 0.26
41 30 0.49
42 15 0.25
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (40 bp):
CAAACAGTTCTATTCCAGCCCAGAATCCAATCCCTACAGC
Found at i:60185054 original size:118 final size:118
Alignment explanation
Indices: 60184827--60185039 Score: 381
Period size: 118 Copynumber: 1.8 Consensus size: 118
60184817 TGTTTTCCAT
*
60184827 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
60184892 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
** *
60184945 GGTTATGAGTATGGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
*
60185010 CTACTTTGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
60185040 TTGGGTAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:60185198 original size:11 final size:11
Alignment explanation
Indices: 60185184--60185244 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
60185174 ATAAAATTTT
60185184 AAAAAAAA-AA
1 AAAAAAAAGAA
*
60185194 GAAAAAAAGAA
1 AAAAAAAAGAA
60185205 AAAAAAAAGAA
1 AAAAAAAAGAA
**
60185216 AAAAATGAGTAA
1 AAAAAAAAG-AA
60185228 AAAAAAGAAGAA
1 AAAAAA-AAGAA
60185240 AAAAA
1 AAAAA
60185245 TGAATACTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
10 7 0.17
11 19 0.45
12 14 0.33
13 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:60188700 original size:46 final size:46
Alignment explanation
Indices: 60188640--60188913 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
60188630 TTTGACATGA
* * * * * * *
60188640 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** * *
60188686 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCAAATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
60188732 TGCCATGGTATCTTTCAACGATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60188778 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
60188824 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60188870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
60188914 AGAGCACACT
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 206 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:60192118 original size:3 final size:3
Alignment explanation
Indices: 60192110--60192144 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
60192100 AACAAGAATC
60192110 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
60192145 GGGTTGGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:60213675 original size:6 final size:6
Alignment explanation
Indices: 60213664--60213692 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
60213654 GGAGGGTCGT
60213664 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
60213693 TTAAAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.69, T:0.17
Consensus pattern (6 bp):
GTGGGA
Found at i:60214164 original size:14 final size:14
Alignment explanation
Indices: 60214145--60214182 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
60214135 TGTTTAACTC
60214145 AAAATGACTTCT-G
1 AAAATGACTTCTAG
*
60214158 AAAAATGATTTCTAG
1 -AAAATGACTTCTAG
60214173 AAAATGACTT
1 AAAATGACTT
60214183 ACGCTGCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:60227385 original size:17 final size:17
Alignment explanation
Indices: 60227363--60227399 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60227353 TAAGAAGGAA
60227363 TAATTAAAAATTTTAAT
1 TAATTAAAAATTTTAAT
**
60227380 TAATTAAATTTTTTAAT
1 TAATTAAAAATTTTAAT
60227397 TAA
1 TAA
60227400 AAATCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAAAATTTTAAT
Found at i:60241862 original size:12 final size:12
Alignment explanation
Indices: 60241845--60241869 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60241835 CAAATATACC
60241845 ACCAGATTTATT
1 ACCAGATTTATT
60241857 ACCAGATTTATT
1 ACCAGATTTATT
60241869 A
1 A
60241870 AGAATAATTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ACCAGATTTATT
Found at i:60243798 original size:13 final size:14
Alignment explanation
Indices: 60243775--60243803 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60243765 CATACCAGAG
60243775 TTATCTATTTATTA
1 TTATCTATTTATTA
60243789 TTAT-TATTTATTA
1 TTATCTATTTATTA
60243802 TT
1 TT
60243804 CTTCTGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATCTATTTATTA
Found at i:60249072 original size:5 final size:5
Alignment explanation
Indices: 60249064--60249098 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
60249054 TGGAAGACTC
60249064 TATTT TATTT TATTT TATTT TATTT TATTT ATATT
1 TATTT TATTT TATTT TATTT TATTT TATTT -TATT
60249099 AGGATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:60255776 original size:43 final size:42
Alignment explanation
Indices: 60255691--60255783 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
60255681 TATCCATACT
* * *
60255691 GCCAAACAGTCCTATTCCAGCCAAGAATGCCATATCTCTGTA
1 GCCAAACAGTCCTATTCCAGCCAAGAATCCCAAAACTCTGTA
*
60255733 GCCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGTA
1 GCCAAACAGTCCTATTCCAGCC-AAGAAT-CCCAAAACTCTGTA
60255776 GCCAAACA
1 GCCAAACA
60255784 CCCATTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 22 0.49
43 18 0.40
44 5 0.11
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCAAGAATCCCAAAACTCTGTA
Found at i:60256751 original size:118 final size:118
Alignment explanation
Indices: 60256556--60256773 Score: 364
Period size: 118 Copynumber: 1.8 Consensus size: 118
60256546 TATGAGTACA
* * *
60256556 GCTTAGATCGTGAGTGACTGAGTAACTGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCA
1 GCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCA
60256621 AAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATAGGTATG
66 AAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATAGGTATG
*
60256674 GCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTTGCGTCA
1 GCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCA
****
60256739 AAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 AAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
60256774 ACCGGAAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.30
Consensus pattern (118 bp):
GCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCA
AAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGAGGTTATAGGTATG
Found at i:60256906 original size:26 final size:26
Alignment explanation
Indices: 60256877--60256928 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
60256867 ATTCCTAAGT
*
60256877 AAATAAATAAT-AATAAAATTAAAAAA
1 AAATAAA-AATCAAAAAAATTAAAAAA
*
60256903 AAATCAAAATCAAAAAAATTAAAAAA
1 AAATAAAAATCAAAAAAATTAAAAAA
60256929 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (26 bp):
AAATAAAAATCAAAAAAATTAAAAAA
Found at i:60257560 original size:27 final size:28
Alignment explanation
Indices: 60257530--60257582 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
60257520 TATTTTATTT
60257530 ATATTAGGA-TAATTAATATTAAGATAA
1 ATATTAGGATTAATTAATATTAAGATAA
* *
60257557 ATATTAGGATTATTTAATTTTAAGAT
1 ATATTAGGATTAATTAATATTAAGAT
60257583 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTAGGATTAATTAATATTAAGATAA
Found at i:60257588 original size:27 final size:26
Alignment explanation
Indices: 60257526--60257588 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
60257516 ATTTTATTTT
60257526 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
** * *
60257553 ATAAATATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
60257581 ATTTTATT
1 ATTTTATT
60257589 TTAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:60260937 original size:54 final size:54
Alignment explanation
Indices: 60260872--60261185 Score: 434
Period size: 54 Copynumber: 5.8 Consensus size: 54
60260862 TTAGTTTACC
*
60260872 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
60260926 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* ** *
60260980 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
60261034 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
60261088 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTTGGTTTATA
* * **
60261142 AAATTATCAAAATA-CCCTAGTTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
60261186 CGACCTGTAA
Statistics
Matches: 232, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.00
53 24 0.10
54 206 0.89
55 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:60261051 original size:108 final size:108
Alignment explanation
Indices: 60260862--60261183 Score: 493
Period size: 108 Copynumber: 3.0 Consensus size: 108
60260852 TTAGAATACT
* *
60260862 TTAGTTTACCAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAA
60260927 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCA
66 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCA
* *
60260970 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCATTGGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAA
*
60261035 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
66 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCA
* * * * *
60261078 TTGGTTTACAAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCACTGGTTTGTAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAA
* * * * **
60261143 AATTATCAAAATA-CCCTAGTTTGTGAAATTACTGAAATACC
66 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC
60261184 CTCGACCTGT
Statistics
Matches: 196, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
107 24 0.12
108 172 0.88
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAA
AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCA
Found at i:60261242 original size:27 final size:27
Alignment explanation
Indices: 60260872--60261237 Score: 376
Period size: 27 Copynumber: 13.6 Consensus size: 27
60260862 TTAGTTTACC
* *
60260872 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
60260899 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
60260926 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * **
60260953 AAATTACCAAAATACCATTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
60260980 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * *
60261007 AAATTATTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
60261034 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
60261061 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
60261088 AAATTACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
60261115 AAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGGTTTGTA
* * *
60261142 AAATTATCAAAATACCC-TAGTTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
60261168 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*** **
60261195 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
60261222 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
60261238 ATTGATTTAC
Statistics
Matches: 279, Mismatches: 58, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 22 0.08
27 256 0.92
28 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:60261291 original size:27 final size:27
Alignment explanation
Indices: 60260872--60261293 Score: 248
Period size: 27 Copynumber: 15.7 Consensus size: 27
60260862 TTAGTTTACC
* *
60260872 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
60260899 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
60260926 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
60260953 AAATTACCAAAATACCAT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
60260980 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
** * * *
60261007 AAATTATTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
60261034 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
60261061 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
60261088 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
60261115 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTATA
* * * *
60261142 AAATTATCAAAATACCCTAG-TTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
** ** *
60261168 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*** * * *
60261195 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
60261222 AAATTACCAAAGTACCATTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
60261249 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
60261276 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
60261294 TGTAGGATAG
Statistics
Matches: 308, Mismatches: 73, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
26 23 0.07
27 284 0.92
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:60261310 original size:27 final size:27
Alignment explanation
Indices: 60261277--60261499 Score: 261
Period size: 27 Copynumber: 8.3 Consensus size: 27
60261267 CGATTTACAA
*
60261277 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
60261304 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
60261331 AAATACCGAAATAACCC-TGTAGGGTAG
1 AATTACCGAAAT-ACCCTTGTAGGGTAG
** * *
60261358 AATTACTAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
60261385 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
60261412 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
60261439 AATTACTGAAATACTCC-TATAAGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
* * *
60261466 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
60261493 AATTACC
1 AATTACC
60261500 ATTTTACCCC
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
26 6 0.04
27 155 0.93
28 6 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:60261362 original size:81 final size:80
Alignment explanation
Indices: 60261277--60261495 Score: 298
Period size: 81 Copynumber: 2.7 Consensus size: 80
60261267 CGATTTACAA
* * *
60261277 AATTACCGAAATACCCTTGTAGGATAGAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTTGTAGG-TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
60261342 TAACCCTGTAGGGTAG
65 TAACCCTGTAGGGTAG
* * *
60261358 AATTACTAAAATACCCCTGTATGGTAGAATTACCGAAATACTCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTTGTA-GGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
*
60261423 TACCCCTGTAGGGTAG
65 TAACCCTGTAGGGTAG
* * *
60261439 AATTACTGAAATACTCCTAT-AAGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACTGAAATAC-CCT-TGTAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAAT
60261496 TACCATTTTA
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
80 4 0.03
81 112 0.92
82 5 0.04
83 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCTTGTAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAAT
AACCCTGTAGGGTAG
Found at i:60262021 original size:6 final size:6
Alignment explanation
Indices: 60262012--60262163 Score: 91
Period size: 6 Copynumber: 24.8 Consensus size: 6
60262002 TTGCATTCAC
* * *
60262012 ATTCTG ATTCTG TTATT-TC ATACTG ATTCTA ATTCTTG -TTCTG ATTCTG
1 ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG ATTC-TG ATTCTG ATTCTG
* *
60262061 ATTCTG -TTACCTG ATACTG ATTCTG A-TCTG -TTACCTA ATTCTG ATTCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
60262110 ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTTTG ATTCTC ATTTTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
60262159 ATTCT
1 ATTCT
60262164 AGTTTTGATA
Statistics
Matches: 111, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
5 12 0.11
6 82 0.74
7 10 0.09
8 7 0.06
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:60262078 original size:43 final size:42
Alignment explanation
Indices: 60262012--60262109 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
60262002 TTGCATTCAC
** *
60262012 ATTCTGATTCTGTTATTTCATACTGATTCTAATTCTTGTT-CTG
1 ATTCTGATTCTGTTACCTCATACTGATTCTAA-TC-TGTTACTA
* *
60262055 ATTCTGATTCTGTTACCTGATACTGATTCTGATCTGTTACCTA
1 ATTCTGATTCTGTTACCTCATACTGATTCTAATCTGTTA-CTA
60262098 ATTCTGATTCTG
1 ATTCTGATTCTG
60262110 ATTTTGATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.08
42 2 0.04
43 42 0.88
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (42 bp):
ATTCTGATTCTGTTACCTCATACTGATTCTAATCTGTTACTA
Found at i:60262080 original size:19 final size:19
Alignment explanation
Indices: 60262034--60262140 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 19
60262024 TTATTTCATA
*
60262034 CTGATTCTAATTCTTGTT--
1 CTGATTCTGATTC-TGTTAC
60262052 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
* *
60262071 CTGATACTGATTCTG--AT
1 CTGATTCTGATTCTGTTAC
*
60262088 CTG-TTACCTAATTCTGATT--
1 CTGATT--CTGATTCTG-TTAC
* *
60262107 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
60262126 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
60262141 ATTTTGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
16 1 0.01
17 9 0.13
18 27 0.39
19 31 0.44
20 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:60262133 original size:31 final size:31
Alignment explanation
Indices: 60262071--60262151 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
60262061 ATTCTGTTAC
* * *
60262071 CTGATACTGATTCTGA-TCTGTTACCTAATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATT
*
60262101 CTGATTCTGATTTTGATTCTGTCACCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATT
60262132 CTGATTCTGATTTTGATTCT
1 CTGATTCTGATTTTGATTCT
60262152 CATTTTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 14 0.30
31 32 0.70
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATT
Found at i:60262161 original size:55 final size:57
Alignment explanation
Indices: 60262035--60262172 Score: 162
Period size: 55 Copynumber: 2.5 Consensus size: 57
60262025 TATTTCATAC
* *
60262035 TGATTCTAATTCTTG-TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATCTGT
1 TGATTCTAATT-TTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATCTGT
* * *
60262092 T-A-CCTAATTCTGATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGAT-T-T
1 TGATTCTAATTTTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATCTGT
*
60262145 TGATTCTCATTTTGATTCT-AGTTTTGAT
1 TGATTCTAATTTTGATTCTGA-TTTTGAT
60262173 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
53 2 0.03
54 5 0.07
55 60 0.87
56 1 0.01
57 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (57 bp):
TGATTCTAATTTTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATCTGT
Found at i:60263537 original size:56 final size:56
Alignment explanation
Indices: 60263470--60263579 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
60263460 GAGTGTGGAC
* * * *
60263470 TGTCGTGTTCTCCAAGGAATTTATTTCCGTTGGTTGCTATTCTTGAAGGTAAGGTG
1 TGTCATGTTCTCCAAGGAATTTATTGCCGTAGGTTGCAATTCTTGAAGGTAAGGTG
*
60263526 TGTCATGTTCTCCAAGGAATTTATTGCCGTAGGTTGCAATTTTTGAAGGTAAGG
1 TGTCATGTTCTCCAAGGAATTTATTGCCGTAGGTTGCAATTCTTGAAGGTAAGG
60263580 AGTTAATTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (56 bp):
TGTCATGTTCTCCAAGGAATTTATTGCCGTAGGTTGCAATTCTTGAAGGTAAGGTG
Found at i:60264824 original size:16 final size:16
Alignment explanation
Indices: 60264803--60264834 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60264793 TAGGATACCC
60264803 TATAAGAATCTATCCT
1 TATAAGAATCTATCCT
60264819 TATAAGAATCTATCCT
1 TATAAGAATCTATCCT
60264835 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TATAAGAATCTATCCT
Found at i:60265681 original size:26 final size:26
Alignment explanation
Indices: 60265652--60265733 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
60265642 TGATAAAAAT
* *
60265652 TGATAATGGGTTAGGTAAATTTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60265678 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60265704 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60265730 TGAT
1 TGAT
60265734 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60270983 original size:19 final size:20
Alignment explanation
Indices: 60270925--60270983 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
60270915 TTTAGAAATG
*
60270925 GGAGCATTACCGGAATTTAC
1 GGAGCATTACTGGAATTTAC
*
60270945 GGAGCATTACTGGAACTTAC
1 GGAGCATTACTGGAATTTAC
*
60270965 -GAGCATTACTGAAATTTAC
1 GGAGCATTACTGGAATTTAC
60270984 AAATCAGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (20 bp):
GGAGCATTACTGGAATTTAC
Found at i:60273890 original size:30 final size:30
Alignment explanation
Indices: 60273856--60273916 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60273846 TCCTTAACTC
60273856 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
60273886 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
60273916 A
1 A
60273917 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:60278219 original size:11 final size:10
Alignment explanation
Indices: 60278205--60278244 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
60278195 TTCATTTAAT
60278205 AAATTATTAAA
1 AAATTA-TAAA
60278216 AAATTAT-AA
1 AAATTATAAA
60278225 AAATTAT-AA
1 AAATTATAAA
60278234 AAATTA-AAA
1 AAATTATAAA
60278243 AA
1 AA
60278245 TAAAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 21 0.75
10 1 0.04
11 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:60278228 original size:9 final size:8
Alignment explanation
Indices: 60278210--60278252 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 8
60278200 TTAATAAATT
60278210 ATTAAAAA
1 ATTAAAAA
60278218 ATTATAAAA
1 ATTA-AAAA
60278227 ATTATAAAA
1 ATTA-AAAA
60278236 ATTAAAAA
1 ATTAAAAA
60278244 A-TAAAAA
1 ATTAAAAA
60278251 AT
1 AT
60278253 AGTCCAATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 9 0.27
9 17 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:60281940 original size:5 final size:5
Alignment explanation
Indices: 60281930--60281958 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
60281920 ATTTACTAAC
60281930 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
60281959 GTATCTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:60285143 original size:41 final size:41
Alignment explanation
Indices: 60285094--60285478 Score: 290
Period size: 41 Copynumber: 9.4 Consensus size: 41
60285084 AAAAAAAAAG
*
60285094 AGAAATAGCAGCGTTTTTGTCTAAAACGCCACTAAAAACAT
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
** * *
60285135 ATCAATAGCGGCGGTTTTATCTAAAACGCCACTAAAAAC-T
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
* ** *
60285175 A-ATCAATAGCGTCG-TTTTCACGT-AAACGCCACTAAAAACTT
1 AGA--AATAGCGGCGTTTTTGTC-TAAAACGCCACTAAAAACAT
* * **
60285216 GGGAAATAGCGACGTTTTTGTCCT-AAACGCCACT-AAAAGTT
1 -AGAAATAGCGGCGTTTTTGT-CTAAAACGCCACTAAAAACAT
** ** * * *
60285257 ATCAATAGCGGCGTTTTCATCCAAAACGCCACTAAAAAGTAG
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAA-CAT
*
60285299 AGAAATAGCGGCGTTTTTGTC-CAAACGCCACTAAAAAGCAT
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAA-CAT
* * * * * *
60285340 AGAAATAGTGGCGTTTTTTTC-CAAACACCAGTAAAAACAG
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
* * * * * *
60285380 GGAAAATAGCGGCGTTTTTATGTAAAACACCACTAAAAATAG
1 AG-AAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
*
60285422 AGAAATAGCGGCGTTTTTGT-TAAAATGCCACT-AAAAC-T
1 AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
60285460 A-ATCAATAGCGGCGTTTTT
1 AGA--AATAGCGGCGTTTTT
60285479 AGGACCAAAC
Statistics
Matches: 280, Mismatches: 49, Indels: 32
0.78 0.14 0.09
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 20 0.07
40 60 0.21
41 147 0.52
42 49 0.17
43 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (41 bp):
AGAAATAGCGGCGTTTTTGTCTAAAACGCCACTAAAAACAT
Found at i:60285306 original size:123 final size:121
Alignment explanation
Indices: 60285094--60285457 Score: 348
Period size: 123 Copynumber: 3.0 Consensus size: 121
60285084 AAAAAAAAAG
*
60285094 AGAAATAGC-AGCGTTTTTGT-CTAAAACGCCACTAAAAACATATCAATAGCGGCGGTTTTATCT
1 AGAAATAGCGA-CGTTTTTGTCCT-AAACGCCACTAAAAAGATATCAATAGCGGC-GTTTTATCT
** * *
60285157 AAAACGCCACTAAAAACTA-ATCAATAGCGTCGTTTTCACGT-AAACGCCACTAAAAA-CTT
63 AAAACGCCACTAAAAA-TAGAGAAATAGCGGCGTTTT--CGTCAAACGCCACTAAAAAGCAT
* * *
60285216 GGGAAATAGCGACGTTTTTGTCCTAAACGCCACT-AAAAGTTATCAATAGCGGCGTTTTCATCCA
1 -AGAAATAGCGACGTTTTTGTCCTAAACGCCACTAAAAAGATATCAATAGCGGCGTTTT-ATCTA
*
60285280 AAACGCCACTAAAAAGTAGAGAAATAGCGGCGTTTTTGTCCAAACGCCACTAAAAAGCAT
64 AAACGCCACTAAAAA-TAGAGAAATAGCGGCGTTTTCGT-CAAACGCCACTAAAAAGCAT
* * * * * ** * *
60285340 AGAAATAGTGGCGTTTTTTTCC-AAACACCAGTAAAAACAGGGA-AAATAGCGGCGTTTTTATGT
1 AGAAATAGCGACGTTTTTGTCCTAAACGCCACT-AAAA-AGATATCAATAGCGGCG-TTTTATCT
* * * *
60285403 AAAACACCACTAAAAATAGAGAAATAGCGGCGTTTTTGTTAAAATGCCACTAAAA
63 AAAACGCCACTAAAAATAGAGAAATAGCGGCGTTTTCG-TCAAACGCCACTAAAA
60285458 CTAATCAATA
Statistics
Matches: 205, Mismatches: 24, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
121 7 0.03
122 46 0.22
123 109 0.53
124 36 0.18
125 7 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (121 bp):
AGAAATAGCGACGTTTTTGTCCTAAACGCCACTAAAAAGATATCAATAGCGGCGTTTTATCTAAA
ACGCCACTAAAAATAGAGAAATAGCGGCGTTTTCGTCAAACGCCACTAAAAAGCAT
Found at i:60286905 original size:41 final size:40
Alignment explanation
Indices: 60286850--60286944 Score: 136
Period size: 41 Copynumber: 2.4 Consensus size: 40
60286840 CGTTTTTAAA
* *
60286850 AAAAGCGCCGCTAATTCCCTATTTTTAGCGTCGCTTTTTTT
1 AAAAGCGCCACTAATTCCCTATTTTTAGCGACGC-TTTTTT
*
60286891 AAAAGCGCCACTAATTCTCTATTTTTAGCGACGCTTTTTT
1 AAAAGCGCCACTAATTCCCTATTTTTAGCGACGCTTTTTT
**
60286931 AAAAATGCCACTAA
1 AAAAGCGCCACTAA
60286945 AAGTTTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 18 0.37
41 31 0.63
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (40 bp):
AAAAGCGCCACTAATTCCCTATTTTTAGCGACGCTTTTTT
Found at i:60287261 original size:11 final size:11
Alignment explanation
Indices: 60287242--60287279 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
60287232 AACAGTTTAT
*
60287242 TTTCGATTTCA
1 TTTCCATTTCA
60287253 TTTCCATTTCA
1 TTTCCATTTCA
60287264 TTTCCATTTCGA
1 TTTCCATTTC-A
60287276 TTTC
1 TTTC
60287280 ACTTCTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.55
Consensus pattern (11 bp):
TTTCCATTTCA
Found at i:60287271 original size:17 final size:16
Alignment explanation
Indices: 60287242--60287280 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
60287232 AACAGTTTAT
60287242 TTTCGATTTCATTTCCA
1 TTTC-ATTTCATTTCCA
*
60287259 TTTCATTTCCATTTCGA
1 TTTCATTT-CATTTCCA
60287276 TTTCA
1 TTTCA
60287281 CTTCTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTCATTTCATTTCCA
Found at i:60289698 original size:241 final size:241
Alignment explanation
Indices: 60289275--60289919 Score: 1254
Period size: 241 Copynumber: 2.7 Consensus size: 241
60289265 AGTTATAAGC
* *
60289275 AATTAAAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
60289340 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
60289405 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
60289470 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
60289516 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
60289581 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
60289646 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
60289711 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
*
60289757 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
*
60289822 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATGCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
60289887 AACAACGCCACGTATGATGAATCTTAAAAAATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATT
60289920 ACTATATTCA
Statistics
Matches: 400, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 400 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (241 bp):
AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
Found at i:60290062 original size:9 final size:9
Alignment explanation
Indices: 60290039--60290166 Score: 96
Period size: 9 Copynumber: 13.6 Consensus size: 9
60290029 ATTGATCATT
*
60290039 ACTTAAATA
1 ACTTACATA
*
60290048 AATTACATA
1 ACTTACATA
60290057 ACTTACATA
1 ACTTACATA
* *
60290066 ACTAATATA
1 ACTTACATA
60290075 ACTTACATA
1 ACTTACATA
*
60290084 ATTTACATAACA
1 ACTTACAT---A
60290096 ACTTACATA
1 ACTTACATA
*
60290105 ACTCACATA
1 ACTTACATA
*
60290114 TCTTACATA
1 ACTTACATA
*
60290123 ATTTACATA
1 ACTTACATA
* *
60290132 ACTCACTTA
1 ACTTACATA
60290141 A-TGTACATAACA
1 ACT-TACAT---A
60290153 ACTTACATA
1 ACTTACATA
60290162 ACTTA
1 ACTTA
60290167 ACTAATACAT
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
8 1 0.01
9 75 0.82
12 15 0.16
13 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
ACTTACATA
Found at i:60290119 original size:39 final size:39
Alignment explanation
Indices: 60290056--60290133 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
60290046 TAAATTACAT
*
60290056 AACTTACATAACTAATATAACTTACATAATTTACATAAC
1 AACTTACATAACTAACATAACTTACATAATTTACATAAC
* *
60290095 AACTTACATAACTCACATATCTTACATAATTTACATAAC
1 AACTTACATAACTAACATAACTTACATAATTTACATAAC
60290134 TCACTTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTAACATAACTTACATAATTTACATAAC
Found at i:60290133 original size:57 final size:57
Alignment explanation
Indices: 60290052--60290164 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
60290042 TAAATAAATT
* * *
60290052 ACATAACTTACATAACTAATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTAACATAACTCACATAATGTACATAACAACTTACATAACTC
* * * *
60290109 ACATATCTTACATAATTTACATAACTCACTTAATGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTAACATAACTCACATAATGTACATAACAACTTACATAACT
60290165 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (57 bp):
ACATAACTTACATAACTAACATAACTCACATAATGTACATAACAACTTACATAACTC
Found at i:60290158 original size:39 final size:37
Alignment explanation
Indices: 60290056--60290162 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 37
60290046 TAAATTACAT
*
60290056 AACTTACATAACTAATATAACTTACATAATTTACATAAC
1 AACTTACATAACT-A-ACAACTTACATAATTTACATAAC
*
60290095 AACTTACATAACTCACATATCTTACATAATTTACATAAC
1 AACTTACATAACTAACA-A-CTTACATAATTTACATAAC
* *
60290134 TCACTTA-ATGTACATAACAACTTACATAA
1 -AACTTACAT-AAC-TAACAACTTACATAA
60290163 CTTAACTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
37 2 0.03
38 1 0.02
39 43 0.74
40 8 0.14
41 4 0.07
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (37 bp):
AACTTACATAACTAACAACTTACATAATTTACATAAC
Found at i:60296245 original size:43 final size:43
Alignment explanation
Indices: 60296193--60296310 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
60296183 AAAAAGTGCC
* *
60296193 GCTACAAGCCGTGACTTTTAGCGGTGCTTTTCCCACAAACGCCT
1 GCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAACG-CT
*
60296237 -CTAAAAGCCGTGACTTTTAGCGGCGTTTTTCCCACAAACGCT
1 GCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAACGCT
** *
60296279 GCTAAAAGTTGTGACTTTTTAGCGGCGTTTTT
1 GCTAAAAGCCGTGAC-TTTTAGCGGCGCTTTT
60296311 TTTTTTCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.03
43 49 0.73
44 16 0.24
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (43 bp):
GCTAAAAGCCGTGACTTTTAGCGGCGCTTTTCCCACAAACGCT
Found at i:60301196 original size:5 final size:6
Alignment explanation
Indices: 60301167--60301200 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
60301157 AATGTTCAAG
60301167 GCCCAA GCCCAA GCCCAA GCCCAA -CCCAA -CCCAA
1 GCCCAA GCCCAA GCCCAA GCCCAA GCCCAA GCCCAA
60301201 TCCTTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.35, C:0.53, G:0.12, T:0.00
Consensus pattern (6 bp):
GCCCAA
Found at i:60301308 original size:13 final size:15
Alignment explanation
Indices: 60301282--60301319 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
60301272 TTATTATCCA
60301282 TAAAAAATATATATAAT
1 TAAAAAATAT-TA-AAT
60301299 TAAAAAATATTAAAT
1 TAAAAAATATTAAAT
60301314 TAAAAA
1 TAAAAA
60301320 TAATGTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.43
16 2 0.10
17 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAAATATTAAAT
Found at i:60301308 original size:15 final size:16
Alignment explanation
Indices: 60301284--60301321 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
60301274 ATTATCCATA
60301284 AAAAATATA-TATAATT
1 AAAAATATATTA-AATT
60301300 AAAAA-ATATTAAATT
1 AAAAATATATTAAATT
60301315 AAAAATA
1 AAAAATA
60301322 ATGTAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATATATTAAATT
Found at i:60304562 original size:130 final size:130
Alignment explanation
Indices: 60304329--60304590 Score: 524
Period size: 130 Copynumber: 2.0 Consensus size: 130
60304319 AAGGGGCCAT
60304329 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
1 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
60304394 TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCATTATTAAGA
66 TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCATTATTAAGA
60304459 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
1 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
60304524 TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCATTATTAAGA
66 TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCATTATTAAGA
60304589 CA
1 CA
60304591 TAGTATAAAG
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (130 bp):
CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCATTATTAAGA
Found at i:60307463 original size:13 final size:13
Alignment explanation
Indices: 60307445--60307474 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60307435 ATTTTTTTAA
*
60307445 TATAAAATATTTC
1 TATAAAATATTAC
60307458 TATAAAATATTAC
1 TATAAAATATTAC
60307471 TATA
1 TATA
60307475 GTGGAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAAAATATTAC
Found at i:60308200 original size:25 final size:24
Alignment explanation
Indices: 60308122--60308201 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
60308112 ACAAATAATT
*
60308122 TAAAATT-TTAAAATTTTC-AAAA
1 TAAAATTCTTAAAACTTTCAAAAA
* *
60308144 TAAAATGTCATAAAAACTAT-AAAAA
1 TAAAAT-TC-TTAAAACTTTCAAAAA
*
60308169 TAGAAATTCTTAAAAGTTTCAAACAA
1 TA-AAATTCTTAAAACTTTCAAA-AA
60308195 TAAAATT
1 TAAAATT
60308202 TTTTAAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
22 6 0.13
23 1 0.02
24 7 0.16
25 23 0.51
26 8 0.18
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
TAAAATTCTTAAAACTTTCAAAAA
Found at i:60312056 original size:87 final size:87
Alignment explanation
Indices: 60311910--60312080 Score: 261
Period size: 87 Copynumber: 2.0 Consensus size: 87
60311900 ACCAAGGCAC
* ** * ** * *
60311910 GGTCAAGTTGTTGGTGTCGTTGCCAGGGAGGTTTAGGTGTTAATTTGATTTAGTAGTAAATTGTG
1 GGTCAAGTTATTGGCATCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
60311975 CAGGCTAGTTAGGATAAGTCAT
66 CAGGCTAGTTAGGATAAGTCAT
*
60311997 GGTCAAGTTATTGGCATCGTTGCTAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
1 GGTCAAGTTATTGGCATCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
60312062 CAGGCTAGTTAGGATAAGT
66 CAGGCTAGTTAGGATAAGT
60312081 AGTGAATTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.26, C:0.08, G:0.30, T:0.36
Consensus pattern (87 bp):
GGTCAAGTTATTGGCATCGTTGCCAGGGAAGTTTAGGTACTAATATGATTTAATAGTAAATTGTG
CAGGCTAGTTAGGATAAGTCAT
Found at i:60315275 original size:10 final size:10
Alignment explanation
Indices: 60315260--60315308 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
60315250 AACTTTAGCT
*
60315260 TTTATCTTCA
1 TTTATCTTTA
60315270 TTTATCTTTA
1 TTTATCTTTA
*
60315280 ATTATCTTTA
1 TTTATCTTTA
60315290 TTTAT-TTGTA
1 TTTATCTT-TA
60315300 TTTATCTTT
1 TTTATCTTT
60315309 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:60317289 original size:15 final size:17
Alignment explanation
Indices: 60317263--60317294 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60317253 TATTCTCTTT
60317263 ATTATCTTTAGA-TGGA
1 ATTATCTTTAGACTGGA
60317279 ATTAT-TTTAGACTGGA
1 ATTATCTTTAGACTGGA
60317295 CTAGTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
ATTATCTTTAGACTGGA
Found at i:60330137 original size:15 final size:15
Alignment explanation
Indices: 60330117--60330147 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60330107 CTACTAATTC
60330117 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
60330132 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
60330147 A
1 A
60330148 TCTCTCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AAACAGGATTCTTCT
Found at i:60337903 original size:95 final size:96
Alignment explanation
Indices: 60337791--60337980 Score: 229
Period size: 96 Copynumber: 2.0 Consensus size: 96
60337781 TCGTATATTC
* * *
60337791 TATTACTATATTAAAATG-TTTCATTAAATTTGTGTCACCCTTAATCAAATCACCAACTCATTAA
1 TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
* * *
60337855 TGAATTTACTAAAAGCGCCTCATTTTTAATT
66 TGAATTTACCAAAAACCCCTCATTTTTAATT
* * * * * * * * *
60337886 TATTATTATATTTAAATGTTTTTATTGAGTTGGTGTGACCCTCAATTAAATTACCAATTCAATAA
1 TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
*
60337951 TGAATTTACCAAAAACCCCTCTTTTTTAAT
66 TGAATTTACCAAAAACCCCTCATTTTTAAT
60337981 AATCAATAGA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
95 16 0.21
96 62 0.79
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (96 bp):
TATTACTATATTAAAATGTTTTCATTAAATTGGTGTCACCCTCAATCAAATCACCAACTCAATAA
TGAATTTACCAAAAACCCCTCATTTTTAATT
Found at i:60338343 original size:30 final size:30
Alignment explanation
Indices: 60338307--60338367 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
60338297 CTTAATAAGG
60338307 TATGTTTATAGAAGAAGATCATGACGCATT
1 TATGTTTATAGAAGAAGATCATGACGCATT
60338337 TATGTTTATAGAAGAAGATCATGACGCATT
1 TATGTTTATAGAAGAAGATCATGACGCATT
60338367 T
1 T
60338368 CACAAGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (30 bp):
TATGTTTATAGAAGAAGATCATGACGCATT
Found at i:60343001 original size:15 final size:16
Alignment explanation
Indices: 60342957--60343001 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
60342947 TTTATATTAT
60342957 AATATAATCATATTTTA
1 AATATAAT-ATATTTTA
* *
60342974 AATATAATGTATTTTC
1 AATATAATATATTTTA
60342990 AAT-TAATATATT
1 AATATAATATATT
60343002 AAATAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATAATATATTTTA
Found at i:60343596 original size:6 final size:7
Alignment explanation
Indices: 60343578--60343607 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
60343568 TATGTAATTA
60343578 ATTTTTT
1 ATTTTTT
60343585 ATTTTTT
1 ATTTTTT
60343592 ATTTTTT
1 ATTTTTT
60343599 ATTTTTT
1 ATTTTTT
60343606 AT
1 AT
60343608 ACAATCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
ATTTTTT
Found at i:60346276 original size:34 final size:34
Alignment explanation
Indices: 60346238--60346306 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
60346228 TATAAAATAT
60346238 TATTAAACATACATAATTATTTATTTATATTTAG
1 TATTAAACATACATAATTATTTATTTATATTTAG
60346272 TATTAAACATACATAATTATTTATTTATATTTAG
1 TATTAAACATACATAATTATTTATTTATATTTAG
60346306 T
1 T
60346307 CATATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (34 bp):
TATTAAACATACATAATTATTTATTTATATTTAG
Found at i:60346329 original size:13 final size:12
Alignment explanation
Indices: 60346311--60346340 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
60346301 TTTAGTCATA
60346311 TAATAAATTATAT
1 TAATAAATTAT-T
60346324 TAATAAATTATT
1 TAATAAATTATT
60346336 TAATA
1 TAATA
60346341 TTTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:60348006 original size:6 final size:6
Alignment explanation
Indices: 60347995--60348021 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
60347985 TGGAATAATA
60347995 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
60348022 GCTGCCTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:60349092 original size:15 final size:14
Alignment explanation
Indices: 60349074--60349111 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
60349064 TTTTGGTTTT
60349074 TTTCTATTTCAACTG
1 TTTCT-TTTCAACTG
60349089 TTTCTTTTCAACT-
1 TTTCTTTTCAACTG
*
60349102 TTTTTTTTCA
1 TTTCTTTTCA
60349112 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 8 0.36
15 5 0.23
ACGTcount: A:0.16, C:0.18, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTCTTTTCAACTG
Found at i:60349099 original size:14 final size:13
Alignment explanation
Indices: 60349073--60349120 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
60349063 TTTTTGGTTT
60349073 TTTTCTATTTCAAC
1 TTTTCT-TTTCAAC
60349087 TGTTTCTTTTCAAC
1 T-TTTCTTTTCAAC
*
60349101 TTTTTTTTTC-AC
1 TTTTCTTTTCAAC
60349113 TTTT-TTTT
1 TTTTCTTTT
60349121 TAAAAAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 4 0.12
12 6 0.19
13 8 0.25
14 9 0.28
15 5 0.16
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTCTTTTCAAC
Found at i:60349114 original size:12 final size:13
Alignment explanation
Indices: 60349080--60349121 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
60349070 TTTTTTTCTA
*
60349080 TTTCAACTGTTTCT
1 TTTCAACT-TTTTT
60349094 TTTCAACTTTTTT
1 TTTCAACTTTTTT
60349107 TTTC-ACTTTTTT
1 TTTCAACTTTTTT
60349119 TTT
1 TTT
60349122 AAAAAATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 8 0.30
14 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTCAACTTTTTT
Found at i:60349572 original size:18 final size:17
Alignment explanation
Indices: 60349527--60349592 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 17
60349517 TTACTCCGGT
60349527 TTAAATAA-TTAATTTA
1 TTAAATAATTTAATTTA
*
60349543 TAAAAATAAATTTAATTATA
1 T-TAAAT-AATTTAATT-TA
60349563 TTAAATAA-TTAA--TA
1 TTAAATAATTTAATTTA
*
60349577 TTAATATAATATAATT
1 TTAA-ATAATTTAATT
60349593 ATCATAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 4 0.10
17 8 0.21
18 4 0.10
19 10 0.26
20 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATAATTTAATTTA
Found at i:60349573 original size:13 final size:15
Alignment explanation
Indices: 60349555--60349591 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
60349545 AAAATAAATT
60349555 TAATT-ATATTAA-A
1 TAATTAATATTAATA
60349568 TAATTAATATTAATA
1 TAATTAATATTAATA
60349583 TAATATAAT
1 TAAT-TAAT
60349592 TATCATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 7 0.33
15 5 0.24
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTAATATTAATA
Found at i:60349580 original size:23 final size:20
Alignment explanation
Indices: 60349528--60349581 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
60349518 TACTCCGGTT
60349528 TAAATAATTAATTTATAAAAA
1 TAAAT-ATTAATTTATAAAAA
60349549 TAAAT-TTAATTATATTAAATAA
1 TAAATATTAATT-TA-TAAA-AA
*
60349571 TTAATATTAAT
1 TAAATATTAAT
60349582 ATAATATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 9 0.32
22 6 0.21
23 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATATTAATTTATAAAAA
Done.