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 136 of 325
Found at i:43837044 original size:89 final size:90
Alignment explanation
Indices: 43836891--43837070 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 90
43836881 TTGAAGAGGG
*
43836891 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAAGTTGACTTGTTTCTGAAA
1 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
43836956 TGATGCTATTGAAAGTGTGGCACGC
66 TGATGCTATTGAAAGTGTGGCACGC
* *
43836981 TTTTTCTAAAAATTGTTTTTTT-GAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTTTGAAA
1 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
*
43837045 TGATGCTATTGAAGGTGTGGCACGC
66 TGATGCTATTGAAAGTGTGGCACGC
43837070 T
1 T
43837071 AAGTCTCCGG
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 65 0.76
90 21 0.24
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (90 bp):
TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
TGATGCTATTGAAAGTGTGGCACGC
Found at i:43850753 original size:15 final size:15
Alignment explanation
Indices: 43850735--43850777 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
43850725 TCTAAGACAT
43850735 AGAAATCCAAGATAA
1 AGAAATCCAAGATAA
**
43850750 AGAAACTCCCAAGATTC
1 AGAAA-T-CCAAGATAA
43850767 AGAAATCCAAG
1 AGAAATCCAAG
43850778 TTACAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:43855212 original size:44 final size:45
Alignment explanation
Indices: 43855126--43855250 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 45
43855116 CTGGTACGCA
* * *
43855126 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTG-G
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGAG
* * * *
43855170 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTG----A-G
43855220 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
43855251 TCAAAGTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
44 36 0.55
50 30 0.45
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (45 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGAG
Found at i:43855244 original size:50 final size:50
Alignment explanation
Indices: 43855169--43855744 Score: 426
Period size: 50 Copynumber: 11.5 Consensus size: 50
43855159 TATCAATCTG
* *
43855169 GTAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACAT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
* * ** * * * **
43855219 GTAGTAGCCTACACTTAGTACTACACACGTGA-TCAAAGTTAACGGGTAGGC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA-CCATCTGATACAC
* * * * * * * *
43855270 ATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
*
43855320 GTAGTAGCCTGCACTTAGTACAACACACGTGACTTAACCATCTGATACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
* * * * ** * * *
43855370 GTAGTAGCTTGCACTTAGTACTACAAACGT-AATCAAAGTTAACGGATACGC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA-CCATCTGATACAC
* * *
43855421 ATAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
* * * ** * * *
43855471 GTAGTAGCCTACCCTTAGTACTACACACGTGA-TCAAAGTTAACGGGTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA-CCATCTGATACAC
* * * * * * * *
43855522 ATAGTAG-CTACACTTAGTACTACACATGCGACCTATCAATCTGGTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
* * * *
43855571 GTAGGAACCTGTACTTAGTACTACACACGTGAATTAACCATCTGATACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
* * * ** * * * *
43855621 GTAGTAGCCTACACTTAGTACTACACACATGA-TCGAAGTTAACGGGTACGC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA-CCATCTGATACAC
* * * * * *
43855672 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTCTG-TACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA-TCTGATACAC
43855722 GTAGTAGCCTGCACTTAGTACTA
1 GTAGTAGCCTGCACTTAGTACTA
43855745 TATAAGTGAC
Statistics
Matches: 396, Mismatches: 116, Indels: 28
0.73 0.21 0.05
Matches are distributed among these distances:
49 18 0.05
50 257 0.65
51 119 0.30
52 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
GTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACAC
Found at i:43855313 original size:101 final size:99
Alignment explanation
Indices: 43855169--43855744 Score: 437
Period size: 101 Copynumber: 5.7 Consensus size: 99
43855159 TATCAATCTG
* * * * *
43855169 GTAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTACACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGATACACGTAGTAGCCTACACT
* * **
43855234 TAGTACTACACACGTGATCAAAGTTAACGGGTAGGC
66 TAGTACTACACACGTGA-C-AAGTCAACTGGTACAC
* * * * * * *
43855270 ATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGATACACGTAGTAGCCTACACT
* * * *
43855335 TAGTACAACACACGTGACTTAA-CCATCTGATACAC
66 TAGTACTACACACGTGAC--AAGTCAACTGGTACAC
* * * * * * * * *
43855370 GTAGTAGCTTGCACTTAGTACTACAAACGTAATCAAAGTTAA-CGGATACGCATAGTAGCCTGCA
1 GTAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAATCTGATACACGTAGTAGCCTACA
** * * * *
43855434 CTTAGTACTACACACGTGACTTGACCATCTGATAGAC
64 CTTAGTACTACACACGTGACAAG-TCAACTGGTACAC
* * * * * * *
43855471 GTAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACACATAGTAG-CTACA
1 GTAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAATCTGATACACGTAGTAGCCTACA
* * *
43855534 CTTAGTACTACACATGCGACCTA-TCAATCTGGTACAC
64 CTTAGTACTACACACGTGA-CAAGTCAA-CTGGTACAC
* * * * *
43855571 GTAGGAACCTGTACTTAGTACTACACACGTGA-ATTAACCATCTGATACACGTAGTAGCCTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACA-TATCAATCTGATACACGTAGTAGCCTACAC
* * * *
43855635 TTAGTACTACACACATGATCGAAGTTAACGGGTACGC
65 TTAGTACTACACACGTGA-C-AAGTCAACTGGTACAC
* * * * *
43855672 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTCTG-TACACGTAGTAGCCTGCAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA-TCTGATACACGTAGTAGCCTACAC
43855736 TTAGTACTA
65 TTAGTACTA
43855745 TATAAGTGAC
Statistics
Matches: 380, Mismatches: 81, Indels: 28
0.78 0.17 0.06
Matches are distributed among these distances:
98 2 0.01
99 16 0.04
100 111 0.29
101 241 0.63
102 10 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (99 bp):
GTAGTAGCCTGCACTTAGTACTACACACGTGACATATCAATCTGATACACGTAGTAGCCTACACT
TAGTACTACACACGTGACAAGTCAACTGGTACAC
Found at i:43855391 original size:151 final size:150
Alignment explanation
Indices: 43855118--43855502 Score: 539
Period size: 151 Copynumber: 2.6 Consensus size: 150
43855108 GAAGCTCTCT
*
43855118 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCT-G----GTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTAACGTAGTAGCC
* *
43855178 TGCACTTAATACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTACACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTAC
* *
43855243 ACACGTGATCAAAGTTAACG
131 AAACGTAATCAAAGTTAACG
* *
43855263 GGTAGGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTA-ACGTAGTAGC
* * *
43855328 CTGCACTTAGTACAACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
43855393 CAAACGTAATCAAAGTTAACG
130 CAAACGTAATCAAAGTTAACG
* * * * * *
43855414 GATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTGA-CCATCTGATAGACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATCTGGTA-ACGTAGTAG
* *
43855478 CCTACCCTTAGTACTACACACGTGA
64 CCTGCACTTAGTACTACACACGTGA
43855503 TCAAAGTTAA
Statistics
Matches: 211, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
145 47 0.22
146 1 0.00
151 162 0.77
152 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTAACGTAGTAGCC
TGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTAC
AAACGTAATCAAAGTTAACG
Found at i:43855631 original size:150 final size:151
Alignment explanation
Indices: 43855428--43855744 Score: 512
Period size: 150 Copynumber: 2.1 Consensus size: 151
43855418 CGCATAGTAG
* * * *
43855428 CCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACT
1 CCTGCACTTAGTACTACACACGTGAATTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
*
43855493 ACACACGTGATCAAAGTTAACGGGTACACATAGTAG-CTACACTTAGTACTACACATGCGACCTA
66 ACACACATGATCAAAGTTAACGGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTA
43855557 TCAA-TCTGGTACACGTAGGAA
131 TCAATTCT-GTACACGTAGGAA
*
43855578 CCTGTACTTAGTACTACACACGTGAATTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
1 CCTGCACTTAGTACTACACACGTGAATTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
* * *
43855643 ACACACATGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA
66 ACACACATGATCAAAGTTAACGGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTA
* *
43855708 TCAATTCTGTACACGTAGTAG
131 TCAATTCTGTACACGTAGGAA
43855729 CCTGCACTTAGTACTA
1 CCTGCACTTAGTACTA
43855745 TATAAGTGAC
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
150 93 0.61
151 57 0.37
152 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
CCTGCACTTAGTACTACACACGTGAATTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
ACACACATGATCAAAGTTAACGGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTA
TCAATTCTGTACACGTAGGAA
Found at i:43856407 original size:30 final size:30
Alignment explanation
Indices: 43856371--43856427 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
43856361 AAAATCATAG
*
43856371 TTTCACAAATTTACATTTTGACCCCTAAAC
1 TTTCACAAATTTACACTTTGACCCCTAAAC
* *
43856401 TTTCACATATTTACACTTTGGCCCCTA
1 TTTCACAAATTTACACTTTGACCCCTA
43856428 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTCACAAATTTACACTTTGACCCCTAAAC
Found at i:43866443 original size:48 final size:48
Alignment explanation
Indices: 43866372--43866691 Score: 421
Period size: 48 Copynumber: 6.7 Consensus size: 48
43866362 AGTACCAATT
* * *
43866372 CCATGTCCCCGACATCGTCTTACA-T-GAATCCACATATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCGATG
* **
43866420 CCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCATCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* * * *
43866468 CCATGTCCCA-AGCATGGTCTTACACAGGAACATATATCATCGCTGATG
1 CCATGTCCCAGA-CATGGTCTTACACTGGCACACATATCATCGCCGATG
* *
43866516 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* * * *
43866564 CCATGTCCTAGACATGGTCTTACACAGGAACATATATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
*
43866612 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAGCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
* *
43866660 CCATGTCCTAGACATGGTCTTACACAGGCACA
1 CCATGTCCCAGACATGGTCTTACACTGGCACA
43866692 TTTAGCATGG
Statistics
Matches: 237, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.00
48 232 0.98
49 2 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATG
Found at i:43866536 original size:96 final size:96
Alignment explanation
Indices: 43866405--43866692 Score: 488
Period size: 96 Copynumber: 3.0 Consensus size: 96
43866395 ATGAATCCAC
* *
43866405 ATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCATCGATGCC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGCC
*
43866470 ATGTCCCA-AGCATGGTCTTACACAGGAACAT
66 ATGTCCTAGA-CATGGTCTTACACAGGAACAT
* *
43866501 ATATCATCGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGCC
43866566 ATGTCCTAGACATGGTCTTACACAGGAACAT
66 ATGTCCTAGACATGGTCTTACACAGGAACAT
* *
43866597 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAGCGCCGATGCC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGCC
*
43866662 ATGTCCTAGACATGGTCTTACACAGGCACAT
66 ATGTCCTAGACATGGTCTTACACAGGAACAT
43866693 TTAGCATGGT
Statistics
Matches: 181, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
96 180 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (96 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCGATGCC
ATGTCCTAGACATGGTCTTACACAGGAACAT
Found at i:43869995 original size:37 final size:37
Alignment explanation
Indices: 43869945--43870018 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
43869935 CTCCCAAGAC
43869945 ATCCAGACATTGCTGTGAAACGACTATGAACTTCTTT
1 ATCCAGACATTGCTGTGAAACGACTATGAACTTCTTT
43869982 ATCCAGACATTGCTGTGAAACGACTATGAACTTCTTT
1 ATCCAGACATTGCTGTGAAACGACTATGAACTTCTTT
43870019 CATGTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (37 bp):
ATCCAGACATTGCTGTGAAACGACTATGAACTTCTTT
Found at i:43872032 original size:23 final size:23
Alignment explanation
Indices: 43872002--43872045 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
43871992 CTCCTAACTG
43872002 AAATTAGACCTAAAGAAATACTA
1 AAATTAGACCTAAAGAAATACTA
43872025 AAATTAGACCTAAAGAAATAC
1 AAATTAGACCTAAAGAAATAC
43872046 CATAGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (23 bp):
AAATTAGACCTAAAGAAATACTA
Found at i:43884684 original size:300 final size:300
Alignment explanation
Indices: 43884142--43884748 Score: 1133
Period size: 300 Copynumber: 2.0 Consensus size: 300
43884132 ATTTTATTAT
* *
43884142 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
*
43884207 GAATACTTAATTTGAGAAAAAGGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGAGAAAAAGGACTAAATCACGTAAAGTACAAAAGTGATGTTCTAATAGCTAA
* *
43884272 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTTCTTATCTGGTAAATATACCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTAGTAAATATACCATTGTTAAT
43884337 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
43884402 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
43884442 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
* *
43884507 GAATACTTAATTTGATAAAAAGGACTAAATTACGTAAAGTACAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGAGAAAAAGGACTAAATCACGTAAAGTACAAAAGTGATGTTCTAATAGCTAA
* *
43884572 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTGTCTAGTAAATATATCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTAGTAAATATACCATTGTTAAT
43884637 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
43884702 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
43884742 TATTTTA
1 TATTTTA
43884749 GTCCATTTTC
Statistics
Matches: 298, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
300 298 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (300 bp):
TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
GAATACTTAATTTGAGAAAAAGGACTAAATCACGTAAAGTACAAAAGTGATGTTCTAATAGCTAA
AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTCCTTATCTAGTAAATATACCATTGTTAAT
ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
Found at i:43887116 original size:20 final size:19
Alignment explanation
Indices: 43887069--43887116 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
43887059 AGCGTGTGTC
43887069 TCTTGTAGTTTGAAAAAATT
1 TCTTG-AGTTTGAAAAAATT
* *
43887089 TC-TAAGTTTCGTAAAAATT
1 TCTTGAGTTT-GAAAAAATT
43887108 TCTTGAGTT
1 TCTTGAGTT
43887117 ATCGGTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.22
19 11 0.48
20 7 0.30
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (19 bp):
TCTTGAGTTTGAAAAAATT
Found at i:43903723 original size:14 final size:13
Alignment explanation
Indices: 43903690--43903733 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
43903680 TTTGTGTTTA
*
43903690 TTATGTGTGAATT
1 TTATGTGTTAATT
43903703 TATATGTGTTAATT
1 T-TATGTGTTAATT
*
43903717 TTCATGTTTTAATT
1 TT-ATGTGTTAATT
43903731 TTA
1 TTA
43903734 CTGTTTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 24 0.89
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (13 bp):
TTATGTGTTAATT
Found at i:43908051 original size:40 final size:38
Alignment explanation
Indices: 43907974--43908117 Score: 130
Period size: 40 Copynumber: 3.7 Consensus size: 38
43907964 GTAACTCATT
* **
43907974 CAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCA
1 CAATGCCTTCGGGACTTAACCCGGA-ATTAGTACTCGCA
43908013 CGAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 C-AATGCCTTCGGGACTTAACCCGGAATTAGTA-CTCGCA
* ** *
43908053 CAAAGGCCTTC-GGACTTAGTCCGG-ATATAGTCACTTAGCA
1 C-AATGCCTTCGGGACTTAACCCGGAAT-TAGT-AC-TCGCA
* *
43908093 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAATGCCTTCGGGACTTAACCCGGA
43908118 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.33
40 57 0.65
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAATGCCTTCGGGACTTAACCCGGAATTAGTACTCGCA
Found at i:43915790 original size:27 final size:27
Alignment explanation
Indices: 43915760--43915937 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43915750 ATATTGAGTC
* * * *
43915760 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43915787 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43915814 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43915842 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43915869 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43915896 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43915923 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43915938 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43915899 original size:82 final size:81
Alignment explanation
Indices: 43915781--43915936 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43915771 TGCTATATAA
* *
43915781 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43915846 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43915863 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43915927 CACTTAGTGC
65 CACTTAGTGC
43915937 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43918387 original size:49 final size:51
Alignment explanation
Indices: 43918288--43918391 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 51
43918278 CTCCAAAATG
* ** **
43918288 AAAATGAAAATGGAGAAAATAAAATCATTTGGAAATGAATGTGGTTTTCTC
1 AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
* *
43918339 AAAATGAAAAT-GAG-AAATCAATTCATTTAGAAATGAACATGGAATTCTC
1 AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
43918388 AAAA
1 AAAA
43918392 ATGATTGGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
49 32 0.70
50 3 0.07
51 11 0.24
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAAATAAAATCATTTAGAAATGAACATGGAATTCTC
Found at i:43924353 original size:23 final size:21
Alignment explanation
Indices: 43924309--43924359 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
43924299 AAAGTTTTGG
43924309 GGGTTTG-GGGAGAAGTAAAA
1 GGGTTTGAGGGAGAAGTAAAA
*
43924329 GGGTTTGAGGGAGGGAAGTAGAA
1 GGGTTTGAGGGA--GAAGTAAAA
43924352 GGGTTTGA
1 GGGTTTGA
43924360 TATTTGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
21 4 0.15
23 16 0.59
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (21 bp):
GGGTTTGAGGGAGAAGTAAAA
Found at i:43926453 original size:20 final size:21
Alignment explanation
Indices: 43926428--43926478 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
43926418 ATTAATTATT
*
43926428 TATAAAATT-TAATTTGAATA
1 TATAAAATTATAATTTAAATA
*
43926448 TAT-AAATTATATTTTAAATA
1 TATAAAATTATAATTTAAATA
43926468 T-TAAAA-TATAA
1 TATAAAATTATAA
43926479 CCAATAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAAAATTATAATTTAAATA
Found at i:43930872 original size:13 final size:14
Alignment explanation
Indices: 43930836--43930874 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
43930826 CCTTCCTATC
43930836 AGTTTTGGGAATTAT
1 AGTTTTGGG-ATTAT
43930851 AGATTTTGGGATTA-
1 AG-TTTTGGGATTAT
43930865 AGTTTTGGGA
1 AGTTTTGGGA
43930875 GGTTAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 6 0.26
16 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
AGTTTTGGGATTAT
Found at i:43935526 original size:16 final size:17
Alignment explanation
Indices: 43935505--43935539 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43935495 TTCGTTTTTA
*
43935505 TGATATAT-ATTTAATT
1 TGATATATGAATTAATT
43935521 TGATATATGAATTAATT
1 TGATATATGAATTAATT
43935538 TG
1 TG
43935540 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
TGATATATGAATTAATT
Found at i:43937363 original size:57 final size:59
Alignment explanation
Indices: 43937283--43937432 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 59
43937273 CGAGCCACAT
* * *
43937283 ATCATATTACAGGATTACTAGTCCAGGCTAAATCCATTA-TGTAACGTATACTCAGA-AGAG
1 ATCATA-T-CAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACT-AGAGAGAG
* * * * *
43937343 ATCA-ATTAGGATTACCAGTCCAGGCTAAA-CCCTAATTGTAACATATGCTTGAGAGGG
1 ATCATATCAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACTAGAGAGAG
* *
43937400 ATTATATCAGGATTACCCGTCCAGGCTAAATCC
1 ATCATATCAGGATTACCAGTCCAGGCTAAATCC
43937433 TTTCCATAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
56 6 0.08
57 38 0.51
58 24 0.32
59 3 0.04
60 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (59 bp):
ATCATATCAGGATTACCAGTCCAGGCTAAATCCATAATTGTAACATATACTAGAGAGAG
Found at i:43940153 original size:37 final size:37
Alignment explanation
Indices: 43940112--43940280 Score: 320
Period size: 37 Copynumber: 4.6 Consensus size: 37
43940102 ATATGAAGTT
43940112 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
43940149 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
*
43940186 ATCGGGTCTTACCCGGACATAATCTCCACACATAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
43940223 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
*
43940260 ATCGGGTCTTACCAGGACATA
1 ATCGGGTCTTACCCGGACATA
43940281 TTTCCAAGTT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 129 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
Found at i:43940546 original size:47 final size:47
Alignment explanation
Indices: 43940484--43940917 Score: 625
Period size: 47 Copynumber: 9.1 Consensus size: 47
43940474 ACACGTTTCG
* * * **
43940484 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
43940531 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
43940578 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
43940625 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
43940672 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
43940723 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
43940770 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
43940821 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
43940868 CAGTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
43940915 CAT
1 CAT
43940918 AAAATCCTAA
Statistics
Matches: 354, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 266 0.75
49 2 0.01
51 86 0.24
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:43940749 original size:98 final size:98
Alignment explanation
Indices: 43940484--43940895 Score: 651
Period size: 98 Copynumber: 4.3 Consensus size: 98
43940474 ACACGTTTCG
* *
43940484 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
43940545 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
** *
43940578 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
43940639 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
43940672 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
43940737 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
43940770 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
43940835 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* *
43940868 CAGTGGCCATTCAGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
43940896 CGCATGTTCA
Statistics
Matches: 296, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
92 2 0.01
94 103 0.35
95 1 0.00
96 3 0.01
98 187 0.63
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:43940754 original size:145 final size:142
Alignment explanation
Indices: 43940484--43940917 Score: 647
Period size: 145 Copynumber: 3.0 Consensus size: 142
43940474 ACACGTTTCG
* * * *
43940484 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
43940549 ATC-TCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
66 ATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
43940613 TCACATTCATCA
131 TCACATTCATCA
**
43940625 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
43940690 ATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCAC-C--ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
43940755 TGTTCACATTCATCA
128 TGTTCACATTCATCA
*
43940770 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
* * * * *
43940835 CCTTATCA-CACATACGCATGTTCACATCCATCACAGTGGCCATTCAGCCTTATCACACATACGC
62 CCTTATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
43940899 ATGTTCACATCCATCA
127 ATGTTCACATTCATCA
43940915 CAT
1 CAT
43940918 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
141 63 0.24
143 1 0.00
145 165 0.62
147 1 0.00
149 36 0.14
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:43946972 original size:46 final size:46
Alignment explanation
Indices: 43946922--43947097 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43946912 TGGTTGAGCA
43946922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43946968 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43947013 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43947061 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43947098 GCTGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43947078 original size:93 final size:93
Alignment explanation
Indices: 43946919--43947090 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43946909 GGATGGTTGA
* *
43946919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43946984 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
43947012 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43947077 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43947091 CTTATGGGCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43949140 original size:65 final size:65
Alignment explanation
Indices: 43949069--43949210 Score: 266
Period size: 65 Copynumber: 2.2 Consensus size: 65
43949059 GATTATTGGG
43949069 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
1 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
**
43949134 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATGGTATTTTTT
1 AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
43949199 AAAATTAATTTT
1 AAAATTAATTTT
43949211 CAAGTCAAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (65 bp):
AAAATTAATTTTGATCAAGTAAAATTAAATTAACCAAATTAATTAAAATTAATATAATATTTTTT
Found at i:43950825 original size:2 final size:2
Alignment explanation
Indices: 43950818--43950868 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
43950808 CTATAAAATA
* * *
43950818 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AC AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43950860 AT AT A- AT AT
1 AT AT AT AT AT
43950869 CATCCCAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43951079 original size:2 final size:2
Alignment explanation
Indices: 43951072--43951144 Score: 58
Period size: 2 Copynumber: 37.0 Consensus size: 2
43951062 CTATAAAATA
* * * * * *
43951072 AT AT AT AT AT AC AC AT AT AT AT GT GT AT AT AT AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
43951114 AT AT AT GT GT AT AT AT AT AT GT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43951145 CATCCCAATG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:43951101 original size:26 final size:26
Alignment explanation
Indices: 43951072--43951133 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
43951062 CTATAAAATA
43951072 ATATATATATACACATATATATGTGT
1 ATATATATATACACATATATATGTGT
43951098 ATATATATATACACATATATATGTGT
1 ATATATATATACACATATATATGTGT
43951124 ATATATATAT
1 ATATATATAT
43951134 GTATATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (26 bp):
ATATATATATACACATATATATGTGT
Found at i:43965087 original size:29 final size:30
Alignment explanation
Indices: 43965024--43965103 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
43965014 ATCCGAAAAC
*
43965024 TATACATGAACTTTGGTTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
43965055 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
43965084 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
43965104 GATTCAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.38
30 10 0.22
31 18 0.40
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:43983949 original size:43 final size:44
Alignment explanation
Indices: 43983889--43983974 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
43983879 ATATTTTATG
* *
43983889 TTATCTTTTAGTAGTTTATT-AGAATAAGGGAACTATTTTCCCC
1 TTATCTTTTAATAGTTTATTAAGAATAAGGAAACTATTTTCCCC
* *
43983932 TTATGTTTTAATAGTTTATTAAGAATAAGGAAATTATTTTCCC
1 TTATCTTTTAATAGTTTATTAAGAATAAGGAAACTATTTTCCC
43983975 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 18 0.47
44 20 0.53
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (44 bp):
TTATCTTTTAATAGTTTATTAAGAATAAGGAAACTATTTTCCCC
Found at i:43997685 original size:27 final size:27
Alignment explanation
Indices: 43997655--43997711 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
43997645 TCATGTATAT
43997655 ATAGTTGTATGTATTTCTAAGAAATAC
1 ATAGTTGTATGTATTTCTAAGAAATAC
43997682 ATAGTTGTATGTATTTCTAAGAAATAC
1 ATAGTTGTATGTATTTCTAAGAAATAC
43997709 ATA
1 ATA
43997712 CTTTGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (27 bp):
ATAGTTGTATGTATTTCTAAGAAATAC
Found at i:44005476 original size:23 final size:23
Alignment explanation
Indices: 44005448--44005493 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44005438 GACTTGGTCC
44005448 AGGTTGAGGTAATCCAAAACTAT
1 AGGTTGAGGTAATCCAAAACTAT
44005471 AGGTTGAGGTAATCCAAAACTAT
1 AGGTTGAGGTAATCCAAAACTAT
44005494 CTTTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (23 bp):
AGGTTGAGGTAATCCAAAACTAT
Found at i:44017078 original size:16 final size:16
Alignment explanation
Indices: 44017057--44017108 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
44017047 TTTGGTTCGT
44017057 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
44017073 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
44017089 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
44017105 TGTA
1 TGTA
44017109 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44017155 original size:45 final size:44
Alignment explanation
Indices: 44017089--44017183 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
44017079 GGATTAGAGG
* *
44017089 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
44017134 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
44017178 TGTAAT
1 TGTAAT
44017184 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:44017353 original size:25 final size:25
Alignment explanation
Indices: 44017321--44017375 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
44017311 TAATTTAATC
*
44017321 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
44017345 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
44017370 ATATAT
1 ATATAT
44017376 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:44020724 original size:16 final size:16
Alignment explanation
Indices: 44020703--44020770 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
44020693 TTTGGTTCGC
44020703 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
44020719 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
44020735 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
*
44020751 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
44020767 TGTA
1 TGTA
44020771 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44021066 original size:24 final size:22
Alignment explanation
Indices: 44021036--44021084 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
44021026 AATTTGATAA
44021036 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
44021060 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
44021082 AAT
1 AAT
44021085 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:44021075 original size:15 final size:15
Alignment explanation
Indices: 44021055--44021108 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
44021045 ATTTATTAAA
44021055 ATTATAATATATAAT
1 ATTATAATATATAAT
*
44021070 ATTATAAAATATAAT
1 ATTATAATATATAAT
*
44021085 -TTAAAATA-ATAATT
1 ATTATAATATATAA-T
44021099 ATTA-AATATA
1 ATTATAATATA
44021109 ATTTAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.12
14 11 0.33
15 18 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAATATATAAT
Found at i:44021077 original size:41 final size:40
Alignment explanation
Indices: 44021015--44021253 Score: 133
Period size: 41 Copynumber: 6.2 Consensus size: 40
44021005 ATATAATTTT
*
44021015 TTATAATATATAAT-TTGATAAAATATATGAATTTATTAAAA
1 TTATAATATATAATATT-ATAAAATATAT-AATTTAATAAAA
44021056 TTATAATATATAATATTAT-AAA-ATATAATTTAAAATAATAA
1 TTATAATATATAATATTATAAAATATATAATTT--AATAA-AA
*
44021097 TTATTAA-ATATAAT-TTAACAAAAATATATAATTTAATAAAA
1 TTA-TAATATATAATATT-A-TAAAATATATAATTTAATAAAA
* * * *
44021138 TTCTTAGTAT-TAAATATTCT----TATATGAATTTACTAAAA
1 TT-ATAATATAT-AATATTATAAAATATAT-AATTTAATAAAA
* * * *
44021176 TCATAATATATAATACTATAAAATA-ATTA-TT-ATTAAA
1 TTATAATATATAATATTATAAAATATATAATTTAATAAAA
*
44021213 -TATAAT-T-T-A-A-CA-AAAATATATAATTTAATAAAA
1 TTATAATATATAATATTATAAAATATATAATTTAATAAAA
44021246 TTA-AATAT
1 TTATAATAT
44021254 TCTTATGATT
Statistics
Matches: 155, Mismatches: 19, Indels: 55
0.68 0.08 0.24
Matches are distributed among these distances:
30 6 0.04
31 4 0.03
32 3 0.02
33 9 0.06
34 4 0.03
35 1 0.01
36 5 0.03
37 20 0.13
38 20 0.13
39 5 0.03
40 11 0.07
41 38 0.25
42 15 0.10
43 5 0.03
44 9 0.06
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (40 bp):
TTATAATATATAATATTATAAAATATATAATTTAATAAAA
Found at i:44021082 original size:17 final size:16
Alignment explanation
Indices: 44021005--44021138 Score: 62
Period size: 17 Copynumber: 8.0 Consensus size: 16
44020995 TTATTATTAA
* *
44021005 ATATAATTTTTTATAAT
1 ATATAA-TTTATAAAAT
44021022 ATATAATTTGATAAAAT
1 ATATAATTT-ATAAAAT
44021039 ATATGAATTTATTAAAAT
1 ATAT-AATTTA-TAAAAT
* *
44021057 -TATAATATATAATATT
1 ATATAATTTATAA-AAT
* *
44021073 ATAAAATATAATTTAAAAT
1 ATATAAT-T--TATAAAAT
*
44021092 A-ATAA-TTAT-TAA-
1 ATATAATTTATAAAAT
*
44021104 ATATAATTTAACAAAAAT
1 ATATAATTT-A-TAAAAT
44021122 ATATAATTTAATAAAAT
1 ATATAATTT-ATAAAAT
44021139 TCTTAGTATT
Statistics
Matches: 89, Mismatches: 14, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
12 1 0.01
13 6 0.07
14 4 0.04
15 4 0.04
16 11 0.12
17 31 0.35
18 25 0.28
19 3 0.03
20 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
ATATAATTTATAAAAT
Found at i:44021098 original size:13 final size:13
Alignment explanation
Indices: 44021054--44021111 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
44021044 AATTTATTAA
*
44021054 AATTATAATATAT
1 AATTATAAAATAT
44021067 AATATTATAAAATAT
1 -A-ATTATAAAATAT
44021082 AATT-TAAAATAAT
1 AATTATAAAAT-AT
*
44021095 AATTATTAAATAT
1 AATTATAAAATAT
44021108 AATT
1 AATT
44021112 TAACAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.15
13 15 0.38
14 7 0.18
15 11 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTATAAAATAT
Found at i:44021105 original size:26 final size:25
Alignment explanation
Indices: 44021065--44021127 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
44021055 ATTATAATAT
44021065 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
44021090 ATAATAATTATTAAATATAATTTAACA
1 ATAAT-ATTATAAAATATAATTTAA-A
*
44021117 AAAATA-TATAA
1 ATAATATTATAA
44021128 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 9 0.27
26 19 0.58
27 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:44023591 original size:14 final size:14
Alignment explanation
Indices: 44023572--44023600 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44023562 ATGACATTAG
44023572 GATGGACAAAGGGT
1 GATGGACAAAGGGT
44023586 GATGGACAAAGGGT
1 GATGGACAAAGGGT
44023600 G
1 G
44023601 TCATAGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.45, T:0.14
Consensus pattern (14 bp):
GATGGACAAAGGGT
Found at i:44025769 original size:47 final size:47
Alignment explanation
Indices: 44025717--44026031 Score: 567
Period size: 47 Copynumber: 6.6 Consensus size: 47
44025707 GATAATTGTG
* *
44025717 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44025764 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44025813 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44025862 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44025909 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44025956 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44026003 ATGTGAAAGTGTATAAATGTGATAAGGCC
1 ATGTGAAAGTGTATATATGTGATAAGGCC
44026032 CGAAGGGCAT
Statistics
Matches: 263, Mismatches: 3, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
47 167 0.63
49 96 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44026203 original size:37 final size:37
Alignment explanation
Indices: 44026147--44026225 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44026137 CCGAGCTCTA
* * *
44026147 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44026184 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44026221 AAGAC
1 AAGAC
44026226 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44028092 original size:103 final size:104
Alignment explanation
Indices: 44027894--44028098 Score: 367
Period size: 103 Copynumber: 2.0 Consensus size: 104
44027884 TTCTCACCTG
* *
44027894 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGGTTTTTTTTTTTAGTAAAGAGGCTTT
1 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGGTTTTATTTTTAAGTAAAGAGGCTTT
*
44027959 CAAAATTTTGTATTGAATTCTCATTATTAGGAAAAATCT
66 CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAATCT
*
44027998 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGG-TTTATTTTTAAGTAAGGAGGCTTT
1 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGGTTTTATTTTTAAGTAAAGAGGCTTT
44028062 CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAAT
66 CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAAT
44028099 TTTGGAATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 57 0.59
104 40 0.41
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (104 bp):
CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGGTTTTATTTTTAAGTAAAGAGGCTTT
CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAATCT
Found at i:44031143 original size:29 final size:30
Alignment explanation
Indices: 44031087--44031149 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
44031077 TGTATTGGGT
44031087 CTAATTAAACGTGTTTTTTGAAATTTTAAC
1 CTAATTAAACGTGTTTTTTGAAATTTTAAC
44031117 CTAATTAAACGTG-TTTTTGAAATTTTAAC
1 CTAATTAAACGTGTTTTTTGAAATTTTAAC
44031146 CTAA
1 CTAA
44031150 CACGTTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (30 bp):
CTAATTAAACGTGTTTTTTGAAATTTTAAC
Found at i:44037566 original size:16 final size:16
Alignment explanation
Indices: 44037545--44037578 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44037535 CCAATATCCA
* *
44037545 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
44037561 ATTATCACATTTACAC
1 ATTATCACATTTACAC
44037577 AT
1 AT
44037579 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:44038102 original size:26 final size:26
Alignment explanation
Indices: 44038072--44038152 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
44038062 AATTTAGTCC
44038072 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
* *
44038098 CTATTATTCAATATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
44038124 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
44038150 CTA
1 CTA
44038153 CAATTTAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (26 bp):
CTATTACTCAAAATTTATAATTTGTT
Found at i:44038411 original size:14 final size:14
Alignment explanation
Indices: 44038386--44038424 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
44038376 GTTGAACCTT
44038386 CTTTTC-TTCTTTC
1 CTTTTCTTTCTTTC
*
44038399 TTTTTCTTTCTTTC
1 CTTTTCTTTCTTTC
44038413 CTTTTCTTTCTT
1 CTTTTCTTTCTT
44038425 AGTTTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTCTTTCTTTC
Found at i:44042977 original size:18 final size:18
Alignment explanation
Indices: 44042943--44043130 Score: 94
Period size: 18 Copynumber: 10.1 Consensus size: 18
44042933 TCATTAACTC
* *
44042943 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
44042960 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* **
44042978 TCGGTAACAATCAAATAT
1 TCAGTAACAATCAGTTAT
* * *
44042996 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
44043014 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
44043040 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
44043058 TCAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
* *
44043075 TCAGTAACAATTAAGTTGT
1 TCAGTAACAA-TCAGTTAT
* *
44043094 TTAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
44043112 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
44043130 T
1 T
44043131 TTATACCTTT
Statistics
Matches: 123, Mismatches: 35, Indels: 25
0.67 0.19 0.14
Matches are distributed among these distances:
17 20 0.16
18 71 0.58
19 15 0.12
21 2 0.02
22 1 0.01
23 2 0.02
26 12 0.10
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:44043363 original size:45 final size:45
Alignment explanation
Indices: 44043304--44043450 Score: 228
Period size: 45 Copynumber: 3.3 Consensus size: 45
44043294 AACAGTAACA
* *
44043304 GTAACAGT-ATAGTAACAATATCCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
44043348 GTAACGGTAACAGTAACAATATTCGACACAC--AGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
44043391 GTAATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
44043436 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
44043451 GCGGTAACAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
43 41 0.44
44 7 0.08
45 45 0.48
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:44045008 original size:5 final size:5
Alignment explanation
Indices: 44045000--44045049 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
44044990 TTTAGTTTAT
44045000 ATATA ATATA ATATA ATATA ATATA ATA-A ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44045049 A
1 A
44045050 AACATAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 40 0.91
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:44045031 original size:24 final size:25
Alignment explanation
Indices: 44045005--44045092 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 25
44044995 TTTATATATA
44045005 ATATAATATAATATAATATAATAA-
1 ATATAATATAATATAATATAATAAC
44045029 ATATAATATAATATAATATAA-AAC
1 ATATAATATAATATAATATAATAAC
** * *
44045053 ATA-AAGTATCTTTATTATATAATAAT
1 ATATAA-TAT-AATATAATATAATAAC
44045079 ATAATAATATAATA
1 AT-ATAATATAATA
44045093 ATATACTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.08
24 27 0.52
25 9 0.17
26 6 0.12
27 4 0.08
28 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (25 bp):
ATATAATATAATATAATATAATAAC
Found at i:44045082 original size:8 final size:8
Alignment explanation
Indices: 44045069--44045097 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44045059 TATCTTTATT
44045069 ATATAATA
1 ATATAATA
44045077 ATATAATA
1 ATATAATA
44045085 ATATAATA
1 ATATAATA
44045093 ATATA
1 ATATA
44045098 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:44045095 original size:19 final size:19
Alignment explanation
Indices: 44045007--44045095 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 19
44044997 TATATATAAT
44045007 ATAATATAAT-ATAATATA
1 ATAATATAATAATAATATA
44045025 ATAAATATAAT-ATAATATA
1 AT-AATATAATAATAATATA
*
44045044 AT-ATA-AA-ACATAAAGTATC
1 ATAATATAATA-AT-AA-TATA
* *
44045063 TTTAT-TATATAATAATATA
1 ATAATATA-ATAATAATATA
44045082 ATAATATAATAATA
1 ATAATATAATAATA
44045096 TACTAAACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
16 2 0.04
17 5 0.09
18 4 0.07
19 34 0.61
20 7 0.12
21 3 0.05
22 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAATATAATAATAATATA
Found at i:44049137 original size:50 final size:51
Alignment explanation
Indices: 44049068--44049197 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
44049058 ATAGGGTACG
* **
44049068 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
* * * * *
44049118 CGTAGTAGCTTGTACTTAGTACTACACATGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCT-AAACCATCTGAAACA
*
44049170 CATAGTAGCCTGTACATAGTACTACACA
1 CATAGTAGCCTGTACTTAGTACTACACA
44049198 AGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
Found at i:44058168 original size:54 final size:55
Alignment explanation
Indices: 44058096--44058202 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
44058086 TTCGTTAAAG
*
44058096 ATTTATAATATTTTAATGAA-TTTCATGAAAATTGCCATAAACATGTTAAAAAAA
1 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAAAA
*
44058150 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTGAAAA
1 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAA
44058203 TTTTGATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 20 0.40
55 30 0.60
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (55 bp):
ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAAAA
Found at i:44078487 original size:21 final size:21
Alignment explanation
Indices: 44078461--44078507 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
44078451 AATAAACGAT
44078461 GTTGGAAAGCTTTTAGGTATA
1 GTTGGAAAGCTTTTAGGTATA
44078482 GTTGGAAAGCTTTTAGGTATA
1 GTTGGAAAGCTTTTAGGTATA
44078503 GTTGG
1 GTTGG
44078508 CATGCCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.38
Consensus pattern (21 bp):
GTTGGAAAGCTTTTAGGTATA
Found at i:44084933 original size:171 final size:170
Alignment explanation
Indices: 44084624--44084944 Score: 405
Period size: 171 Copynumber: 1.9 Consensus size: 170
44084614 AACAATTCAT
*
44084624 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTGCATCCTTATTGTGCCATCAT
1 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTTATTGTGCCATCAT
* * *
44084689 CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGTCAAAAGTCCTAAGAGACTTA
66 CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGCCAAAAGTCCCAAGAGACTCA
44084754 TCATATCAAATGATGCACAAAAGATCAAGTCTTAGATGCAA
131 TCATATC-AATGATGCACAAAAGATCAAGTCTTAGATGCAA
** * * * * *
44084795 AAACAAATTAGCGATGCATTAATTTGATCATATTA-TAGAAATTTATAT-TTTAGTTGTGCTATC
1 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTA-AAATTTACATCCTTA-TTGTGCCATC
* * * ** * *
44084858 ATCAAATCAACTTGACGATGAATATCAATCAATTAATAAACAACTGCCAAAA-TCCCCAAGAGGC
64 ATCAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGCCAAAAGT-CCCAAGAGAC
* *
44084922 TCATTATATCAATGATGTACAAA
128 TCATCATATCAATGATGCACAAA
44084945 GGTAAAATCT
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
170 18 0.14
171 109 0.86
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (170 bp):
AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTTATTGTGCCATCAT
CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGCCAAAAGTCCCAAGAGACTCA
TCATATCAATGATGCACAAAAGATCAAGTCTTAGATGCAA
Found at i:44086086 original size:19 final size:20
Alignment explanation
Indices: 44086058--44086096 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
44086048 TCTTATTTTT
*
44086058 TATTTGTTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
44086077 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
44086097 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:44086103 original size:19 final size:19
Alignment explanation
Indices: 44086064--44086104 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44086054 TTTTTATTTG
*
44086064 TTTTTTGTTTTAATATTTA
1 TTTTTTGTTTTAATATGTA
44086083 TTTTTATGTTTTAA-ATGTA
1 TTTTT-TGTTTTAATATGTA
44086102 TTT
1 TTT
44086105 GATTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTGTTTTAATATGTA
Found at i:44086114 original size:25 final size:23
Alignment explanation
Indices: 44086077--44086122 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
44086067 TTTGTTTTAA
*
44086077 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
44086100 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
44086123 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:44086612 original size:15 final size:16
Alignment explanation
Indices: 44086594--44086627 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
44086584 CGGTTTAAAT
44086594 TTTAAT-TTTTTATAA
1 TTTAATATTTTTATAA
44086609 TTT-ATATTTTTATAA
1 TTTAATATTTTTATAA
44086624 TTTA
1 TTTA
44086628 TAGAGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTAATATTTTTATAA
Found at i:44086628 original size:15 final size:15
Alignment explanation
Indices: 44086600--44086629 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44086590 AAATTTTAAT
44086600 TTTTTATAATTTATA
1 TTTTTATAATTTATA
44086615 TTTTTATAATTTATA
1 TTTTTATAATTTATA
44086630 GAGAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:44086770 original size:17 final size:17
Alignment explanation
Indices: 44086748--44086784 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44086738 TTGGGGAAGG
44086748 CCGGGAC-CTATGCCAGC
1 CCGGGACTC-ATGCCAGC
44086765 CCGGGACTCATGCCAGC
1 CCGGGACTCATGCCAGC
44086782 CCG
1 CCG
44086785 CCTGGTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.16, C:0.43, G:0.30, T:0.11
Consensus pattern (17 bp):
CCGGGACTCATGCCAGC
Found at i:44087125 original size:29 final size:31
Alignment explanation
Indices: 44087087--44087159 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
44087077 TACATATTGT
44087087 TTTTAAAAAATATAAAAAATTA-A-TTTAATA
1 TTTT-AAAAATATAAAAAATTATATTTTAATA
* *
44087117 TTTTAAAAATA-ATAAAATTATATTTTTATA
1 TTTTAAAAATATAAAAAATTATATTTTAATA
**
44087147 TCATAAAAATATA
1 TTTTAAAAATATA
44087160 TAATTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 8 0.22
29 8 0.22
30 19 0.53
31 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTAAAAATATAAAAAATTATATTTTAATA
Found at i:44091408 original size:13 final size:13
Alignment explanation
Indices: 44091390--44091415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44091380 AAACAGGATA
44091390 GGGAAGCAATAAC
1 GGGAAGCAATAAC
44091403 GGGAAGCAATAAC
1 GGGAAGCAATAAC
44091416 AATTGTAGTA
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:0.46, C:0.15, G:0.31, T:0.08
Consensus pattern (13 bp):
GGGAAGCAATAAC
Found at i:44100701 original size:16 final size:15
Alignment explanation
Indices: 44100677--44100706 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44100667 AACTGTTTTA
44100677 TTACAAATTTCACTC
1 TTACAAATTTCACTC
44100692 TTACATAATTTCACT
1 TTACA-AATTTCACT
44100707 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:44101041 original size:50 final size:50
Alignment explanation
Indices: 44100906--44101195 Score: 294
Period size: 50 Copynumber: 5.8 Consensus size: 50
44100896 AACTGAAGCT
* **** *
44100906 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
44100955 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* ** * * * **
44101005 ATCTGATACATGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * * *
44101056 GTCAGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
44101106 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
*** * *
44101158 ATCTTAAACACATAGTAGCCTGCACATAGTGCTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
44101196 TGTGTTCTCA
Statistics
Matches: 196, Mismatches: 41, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 38 0.19
50 86 0.44
51 36 0.18
52 36 0.18
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:44101093 original size:101 final size:101
Alignment explanation
Indices: 44100967--44101148 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
44100957 CCGGTACACG
* ** *
44100967 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
44101032 AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
* * * *
44101068 TAGTAGCCTGCACTTAGTATTACACATGCGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
44101133 AGTACTACACACGTGA
66 AGTACTACACACGTGA
44101149 CCTAAAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
Found at i:44101149 original size:151 final size:151
Alignment explanation
Indices: 44100910--44101195 Score: 430
Period size: 151 Copynumber: 1.9 Consensus size: 151
44100900 GAAGCTATCT
*
44100910 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCGGTACACATAGTAGCC
* ** * *
44100975 TGCACTTAGTACTACACACGTGACCT-AACCATCTGATACATGTAGTAGCCTGTACTTAGTACTA
66 TGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
44101039 CACACGTGATCGAAGTTGTCA
131 CACACGTGATCGAAGTTGTCA
* * * * *
44101060 GGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACTATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACC-AACAATCCGGTACACATAGTAGC
* *
44101125 CTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTGC
65 CTGCACTTAGTACTACACACGTGACCT-AAACCATCTGAAACACATAGTAGCCTGCACATAGTAC
44101190 TACACA
129 TACACA
44101196 TGTGTTCTCA
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
150 38 0.32
151 47 0.39
153 35 0.29
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
CACACGTGATCGAAGTTGTCA
Found at i:44104671 original size:45 final size:45
Alignment explanation
Indices: 44104621--44104708 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
44104611 CCAAAACATG
*
44104621 TGCCACATACATCATGAACTCAGACCATAACTCAATAAGTTCAAA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAAA
* *
44104666 TGCCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCA
44104709 GATCACATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (45 bp):
TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAAA
Found at i:44106278 original size:3 final size:3
Alignment explanation
Indices: 44106263--44106296 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
44106253 GCTTCCTTTT
*
44106263 TTA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44106297 TTTAGTTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44106894 original size:25 final size:25
Alignment explanation
Indices: 44106847--44106895 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44106837 TACTTAAACC
*
44106847 TTTTAGATATAATAGTATGTATATT
1 TTTTAGATATAATAGTATATATATT
*
44106872 TTTTAGATTTATATA-TATATATAT
1 TTTTAGATATA-ATAGTATATATAT
44106896 ATGGTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (25 bp):
TTTTAGATATAATAGTATATATATT
Found at i:44110863 original size:19 final size:20
Alignment explanation
Indices: 44110820--44110873 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
44110810 ATATGTCAAG
44110820 ATGCACTTTGTGTGCCAAAT
1 ATGCACTTTGTGTGCCAAAT
*
44110840 ATGCACTTTGTGTGCC-AGT
1 ATGCACTTTGTGTGCCAAAT
*
44110859 ATGCACTTTATGTGC
1 ATGCACTTTGTGTGC
44110874 TAGTTTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
ATGCACTTTGTGTGCCAAAT
Found at i:44111836 original size:28 final size:28
Alignment explanation
Indices: 44111805--44111886 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
44111795 TCCCGTTCAA
* *
44111805 TTTCAACATAATAAGTGCAAACACTTAT
1 TTTCAACATAATAAATGCAGACACTTAT
*
44111833 TTTCAACATAATAAATGCGGACACTTAT
1 TTTCAACATAATAAATGCAGACACTTAT
*
44111861 TTCCAACATAATAAATGCAGACACTT
1 TTTCAACATAATAAATGCAGACACTT
44111887 TATCAATCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
TTTCAACATAATAAATGCAGACACTTAT
Found at i:44115112 original size:54 final size:55
Alignment explanation
Indices: 44114998--44115203 Score: 149
Period size: 55 Copynumber: 3.8 Consensus size: 55
44114988 TGGAGGTTCA
* * * *
44114998 GGTGGACTGTACAGAGA-TTCTTATATATGTTAAATTATTTCTTTGTAGAGGCTAG
1 GGTGGGCTGTACTGAGATTTC-TATATATGTTAAATTATGTCTTTATAGAGGCTAG
* *
44115053 GGTGGGTTGTACTGAGATTTCTATATATGTT-AATTATGGT-TTTATATAGGCTTA-
1 GGTGGGCTGTACTGAGATTTCTATATATGTTAAATTAT-GTCTTTATAGAGGC-TAG
* * *** *
44115107 GGTGGGCTGT-TTGGAGATTTC--TATATGTTAAATTATGACTTTGCGGAGGCTTG
1 GGTGGGCTGTACT-GAGATTTCTATATATGTTAAATTATGTCTTTATAGAGGCTAG
* * * * * *
44115160 GGTGGGTTGTA-TGAAGGTTTCTCTATGTATTAAACTATGTCTTT
1 GGTGGGCTGTACTG-AGATTTCTATATATGTTAAATTATGTCTTT
44115204 GCGGAGGTTT
Statistics
Matches: 120, Mismatches: 20, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
52 11 0.09
53 30 0.25
54 32 0.27
55 44 0.37
56 3 0.03
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.43
Consensus pattern (55 bp):
GGTGGGCTGTACTGAGATTTCTATATATGTTAAATTATGTCTTTATAGAGGCTAG
Found at i:44115164 original size:53 final size:53
Alignment explanation
Indices: 44115021--44115210 Score: 161
Period size: 53 Copynumber: 3.5 Consensus size: 53
44115011 GAGATTCTTA
* * *
44115021 TATATGTTAAATTATTTCTTTGTAGAGGCTAGGGTGGGTTGTACT-GAGATTTC
1 TATATGTTAAATTATGTCTTTGCAGAGGCTTGGGTGGGTTGTA-TGGAGATTTC
** * * * *
44115074 TATATATGTT-AATTATGGT-TTTATATAGGCTTAGGTGGGCTGTTTGGAGATTTC
1 --TATATGTTAAATTAT-GTCTTTGCAGAGGCTTGGGTGGGTTGTATGGAGATTTC
* * * *
44115128 TATATGTTAAATTATGACTTTGCGGAGGCTTGGGTGGGTTGTATGAAGGTTTC
1 TATATGTTAAATTATGTCTTTGCAGAGGCTTGGGTGGGTTGTATGGAGATTTC
* * *
44115181 TCTATGTATTAAACTATGTCTTTGCGGAGG
1 TATATG--TTAAATTATGTCTTTGCAGAGG
44115211 TTTGAATGGT
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
52 9 0.08
53 38 0.35
54 33 0.30
55 29 0.27
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (53 bp):
TATATGTTAAATTATGTCTTTGCAGAGGCTTGGGTGGGTTGTATGGAGATTTC
Found at i:44117422 original size:32 final size:32
Alignment explanation
Indices: 44117386--44117465 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
44117376 TATATGATTC
*
44117386 TGCGACCTGTATCTATAAGAACTGTACAATTT
1 TGCGAACTGTATCTATAAGAACTGTACAATTT
* * * **
44117418 TGCGAACTATATCTGTATGAGTTGTACAATTT
1 TGCGAACTGTATCTATAAGAACTGTACAATTT
*
44117450 TGTGAACTGTATCTAT
1 TGCGAACTGTATCTAT
44117466 GCTAGTTGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (32 bp):
TGCGAACTGTATCTATAAGAACTGTACAATTT
Found at i:44117473 original size:32 final size:31
Alignment explanation
Indices: 44117408--44117475 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 31
44117398 CTATAAGAAC
44117408 TGTACAATTTTGCGAACTATATCTGTATGAGT
1 TGTACAATTTTGCGAACTATATC-GTATGAGT
* *
44117440 TGTACAATTTTGTGAACTGTATC-TATGCTAGT
1 TGTACAATTTTGCGAACTATATCGTATG--AGT
44117472 TGTA
1 TGTA
44117476 TGATTATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.12
32 28 0.88
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (31 bp):
TGTACAATTTTGCGAACTATATCGTATGAGT
Found at i:44123464 original size:34 final size:34
Alignment explanation
Indices: 44123398--44123464 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
44123388 CCGGAAAATA
* *
44123398 TTAAGTTCTATTTGAATGATGAATTTTAATGGAG
1 TTAAGTTCCATTTGAATGATGAATTTCAATGGAG
* *
44123432 TTAAGTTCCGTTTGAATGATGAATTTCGATGGA
1 TTAAGTTCCATTTGAATGATGAATTTCAATGGA
44123465 TATATGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (34 bp):
TTAAGTTCCATTTGAATGATGAATTTCAATGGAG
Found at i:44124658 original size:23 final size:20
Alignment explanation
Indices: 44124632--44124689 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
44124622 TTAGATGTCA
44124632 GAATTGACTTGGTTATAATGTTT
1 GAATTG-CTTGG-TAT-ATGTTT
*
44124655 GAATTGGTTGGTATATGTTT
1 GAATTGCTTGGTATATGTTT
*
44124675 GCAATT-ATTGGTATA
1 G-AATTGCTTGGTATA
44124690 GATTGTTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 15 0.47
21 7 0.22
22 4 0.12
23 6 0.19
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (20 bp):
GAATTGCTTGGTATATGTTT
Found at i:44124674 original size:20 final size:20
Alignment explanation
Indices: 44124649--44124689 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44124639 CTTGGTTATA
*
44124649 ATGTTTG-AATTGGTTGGTAT
1 ATGTTTGCAATT-ATTGGTAT
44124669 ATGTTTGCAATTATTGGTAT
1 ATGTTTGCAATTATTGGTAT
44124689 A
1 A
44124690 GATTGTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (20 bp):
ATGTTTGCAATTATTGGTAT
Found at i:44151943 original size:30 final size:30
Alignment explanation
Indices: 44151908--44151965 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
44151898 TAGGCACTTC
* *
44151908 CACACAGGT-GATCCACATGCCCGTGTGTGA
1 CACACAAGTAGAT-CACACGCCCGTGTGTGA
44151938 CACACAAGTAGATCACACGCCCGTGTGT
1 CACACAAGTAGATCACACGCCCGTGTGT
44151966 CATGGCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (30 bp):
CACACAAGTAGATCACACGCCCGTGTGTGA
Found at i:44156501 original size:102 final size:102
Alignment explanation
Indices: 44156320--44156523 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
44156310 TTTAACAGTG
*
44156320 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAGATTGGTTGTATGTATG
1 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
44156385 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
66 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
44156422 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
1 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
*
44156487 GCATGATTTGCTGAAATCTGAGTTTATGCATGATATA
66 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
44156524 ATTGCCTGGA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (102 bp):
TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
Found at i:44156933 original size:27 final size:28
Alignment explanation
Indices: 44156894--44156951 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
44156884 GATTATATCG
*
44156894 CATTATTTGTTATTCGGCAGTTTTACTA
1 CATTATTTGTTATTCGGCAGTTTTACCA
**
44156922 CATTA-TTGTTATTCGGTGGTTTTACCA
1 CATTATTTGTTATTCGGCAGTTTTACCA
44156949 CAT
1 CAT
44156952 CAAGCTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (28 bp):
CATTATTTGTTATTCGGCAGTTTTACCA
Found at i:44168801 original size:42 final size:42
Alignment explanation
Indices: 44168690--44168853 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 42
44168680 TAAGATGCCA
* * * * ** *
44168690 ATGCCATATCCCAGATATGGTTTTACATGGGATTACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
* ** **
44168732 ATGCCGATAG-CCCAG-CTATAGTCTTACACGATGTCTTATATCG
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCACATATCG
*
44168775 ATGCCATGTCCCAGACATGGTCTTACACAAAATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
* * * *
44168817 ATGCCATATACCTGATATGGTCTTACACGAAATCACA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACA
44168854 CATAAGCCTA
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 64 0.67
43 30 0.32
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:44172583 original size:48 final size:47
Alignment explanation
Indices: 44172508--44173112 Score: 478
Period size: 48 Copynumber: 12.7 Consensus size: 47
44172498 TGATATGTGT
* *
44172508 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATCATATTATAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCAT-TTATAAGA
* ***
44172556 GCCAGTGTAAGACCATGTTTGGAACATGGCATCG-GCGATGTTGCGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGC-AT-TTATAAGA
* * * * * *
44172604 GCCAGTATAAGACCATGTCTGGGACATGGCATCG-GTATTGATATGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCATTTATAAGA
* * ***
44172650 GCCTAGTGTAAGACCATGTCTGGGACA-GGCAT-TAGCGATGTTGCGAGA
1 GCC-AGTGTAAGACCATGTTTGGGACATGGCATCGAGC-AT-TTATAAGA
** *
44172698 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG-GCATTGATATGTGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCATT--TATAAGA
* * *
44172746 GCCAGTGTAAGACCATGTCTGGGACATGGCAT-TAGCCACATTATAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAG-CA-TTTATAAGA
* * **
44172794 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGA-CAATGTTGCAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGC-AT-TTATAAGA
* * *
44172842 GCCAGTGTAAGACCATGTTTGGGACATGGCATC-AGCATTGATATGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCATTTATAAGA
* *
44172888 GCGCTAGTGTAAGACCATGTTTGGGACATGGCTTCGACCATATTATAAGA
1 GC-C-AGTGTAAGACCATGTTTGGGACATGGCATCGAGCAT-TTATAAGA
* * * * * *
44172938 GCCAGTGTAAGACCATATTTGGAATATAGCATC-AACGATGTTGTAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGC-AT-TTATAAGA
* * * * *
44172986 GCCAGAGTAAGACCATGTTTGAGACATGGCATCG-GCATTGATATGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCATTTATAAGA
* * * * *
44173032 GCGCTAG-GTAAGACCATGTCTGGGACATTGCATCG-GTATTGAGACGAGA
1 GC-C-AGTGTAAGACCATGTTTGGGACATGGCATCGAGCATTTATA--AGA
** *
44173081 GTTAGTGTAAGACCATGTTTGGAACATGGCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCAT
44173113 TGGCAATTCA
Statistics
Matches: 442, Mismatches: 88, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
46 23 0.05
47 95 0.21
48 306 0.69
49 10 0.02
50 8 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGAGCATTTATAAGA
Found at i:44172809 original size:96 final size:96
Alignment explanation
Indices: 44172508--44173117 Score: 541
Period size: 96 Copynumber: 6.4 Consensus size: 96
44172498 TGATATGTGT
* * *
44172508 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATCA-T-ATTATAAGAGCCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG-GCATTGA-TATGAGAGCCAGTGTAAGACCA
* * * **
44172571 TGTTTGGAACATGGCATCGGCGATGTTGCGAGA
64 TGTCTGGGACATGGCATCAGCGATGTTGTAAGA
* * * *
44172604 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGTATTGATAT--GTGCCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCC-AGTGTAAGACCAT
* **
44172667 GTCTGGGACA-GGCATTAGCGATGTTGCGAGA
65 GTCTGGGACATGGCATCAGCGATGTTGTAAGA
* *
44172698 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTAAGACCATG
* * ** *
44172763 TCTGGGACATGGCATTAGCCACATTATAAGA
66 TCTGGGACATGGCATCAGCGATGTTGTAAGA
* * * *
44172794 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAATG-T-TGCAAGAGCCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATG--AGAGCCAGTGTAAGACCA
* *
44172857 TGTTTGGGACATGGCATCAGC-ATTGATATGT--GC
64 TGTCTGGGACATGGCATCAGCGA-TG-T-TGTAAGA
* * * *
44172890 GCTAGTGTAAGACCATGTTTGGGACATGGCTTCGACCA-T-ATTATAAGAGCCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG-GCATTGA-TATGAGAGCCAGTGTAAGACCA
* * * * * *
44172953 TATTTGGAATATAGCATCAACGATGTTGTAAGA
64 TGTCTGGGACATGGCATCAGCGATGTTGTAAGA
* * * * *
44172986 GCCAGAGTAAGACCATGTTTGAGACATGGCATCGGCATTGATATGTGCGCTAG-GTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTAAGACCATG
* * *
44173050 TCTGGGACATTGCATC-G-G-TATTGAGACGAGA
66 TCTGGGACATGGCATCAGCGATGTTG-TA--AGA
** * *
44173081 GTTAGTGTAAGACCATGTTTGGAACATGGCATTGGCA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
44173118 ATTCACCCTC
Statistics
Matches: 429, Mismatches: 62, Indels: 47
0.80 0.12 0.09
Matches are distributed among these distances:
92 4 0.01
93 2 0.00
94 69 0.16
95 106 0.25
96 238 0.55
97 7 0.02
98 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCAGCGATGTTGTAAGA
Found at i:44172870 original size:144 final size:143
Alignment explanation
Indices: 44172511--44173112 Score: 673
Period size: 144 Copynumber: 4.2 Consensus size: 143
44172501 TATGTGTGCC
* * * * **
44172511 AGTGTAAGACCATGTCTGGGACATGGCATCGATC-ATATTATAAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGAGCGATGTTGCAAGAGCCAGTGTAAGACCATGTT
* * ** * * * **
44172575 TGGAACATGGCATCGGCGA-TGTTGCGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGG
66 TGGGACATGGCATCGGC-ATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCCA
* *
44172639 TATTGATATGTGCCT
130 TATTGATAAGAG-CT
* * * *
44172654 AGTGTAAGACCATGTCTGGGACA-GGCAT-TAGCGATGTTGCGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGAGCGATGTTGCAAGAGCCAGTGTAAGACCATGTT
*
44172717 TGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGC
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCA-T--C
*
44172782 CACATT-ATAAGAGCT
128 CATATTGATAAGAGCT
*
44172797 AGTGTAAGACCATGTTTGGAACATGGCATCGA-CAATGTTGCAAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGAGCGATGTTGCAAGAGCCAGTGTAAGACCATGTT
* * * *
44172861 TGGGACATGGCATCAGCATTGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGCTTCGAC
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCAT---C
*
44172926 CATATT-ATAAGAGCC
128 CATATTGATAAGAGCT
* * * * * *
44172941 AGTGTAAGACCATATTTGGAATATAGCATC-AACGATGTTGTAAGAGCCAGAGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGAGCGATGTTGCAAGAGCCAGTGTAAGACCATGTT
* * * **
44173005 TGAGACATGGCATCGGCATTGATATGTGCGCTAG-GTAAGACCATGTCTGGGACATTGCATCGGT
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCCAT
* *
44173069 ATTGAGACGAGAGTT
131 ATTGATA--AGAGCT
44173084 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTTTGGAACATGGCAT
44173113 TGGCAATTCA
Statistics
Matches: 396, Mismatches: 51, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
140 5 0.01
141 5 0.01
142 82 0.21
143 102 0.26
144 197 0.50
145 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (143 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGAGCGATGTTGCAAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCCAT
ATTGATAAGAGCT
Found at i:44174376 original size:21 final size:21
Alignment explanation
Indices: 44174330--44174379 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
44174320 GACGACACAT
*
44174330 GGGCATGTCACTTTTCGACAC
1 GGGCGTGTCACTTTTCGACAC
44174351 GGGCGTGTCACTTTTCGACAC
1 GGGCGTGTCACTTTTCGACAC
44174372 GGGCGTGT
1 GGGCGTGT
44174380 GCCCTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (21 bp):
GGGCGTGTCACTTTTCGACAC
Found at i:44177470 original size:48 final size:48
Alignment explanation
Indices: 44177397--44177564 Score: 196
Period size: 48 Copynumber: 3.5 Consensus size: 48
44177387 ATGAGATTCT
* * * *
44177397 GTGTAAGACCATGTCTGGGAGATGGCATCGGGGATAATATGTATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
* * * *
44177445 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATGTATGTGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
* * *
44177493 GTGTAAGACCATGTTTAGGACATGGCATCGACGATGATATGTGGAT-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT--ATGTCA
*
44177542 -TGTAAGACCATGTCGGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
44177565 ACATTGGTCC
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
48 97 0.97
49 2 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
Found at i:44180085 original size:21 final size:21
Alignment explanation
Indices: 44180061--44180111 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
44180051 ATAACTTGGC
*
44180061 CACACAACCATGTAACTCTGT
1 CACACAACCATGTAACTCAGT
** **
44180082 CACACAGGCATGTGTCTCAGT
1 CACACAACCATGTAACTCAGT
44180103 CACACAACC
1 CACACAACC
44180112 GTGTGTTTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (21 bp):
CACACAACCATGTAACTCAGT
Found at i:44191015 original size:53 final size:53
Alignment explanation
Indices: 44190930--44191136 Score: 148
Period size: 53 Copynumber: 3.8 Consensus size: 53
44190920 TTTCTTTTTA
* * * * *
44190930 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAGG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAGG
*
44190983 AACTCACCATTGCCATGCCTT-AGCATGGTCTTACATGGGATCCTTGCCTTATAGT
1 AACTCACCATTGCCATGCCTTGA-CATGGTCTTACATGGGATCCTTGCC-T-TAGG
** * * * * *** * *
44191038 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCGTT-GTAA
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAG--G
* * * * * *
44191092 AACTTACCAATGCCATGCCTTGGCATGATCTTACTTGGTATCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTT
44191137 AAACCTTAAT
Statistics
Matches: 122, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 42 0.34
54 38 0.31
55 39 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAGG
Found at i:44191069 original size:55 final size:53
Alignment explanation
Indices: 44190942--44191136 Score: 151
Period size: 55 Copynumber: 3.6 Consensus size: 53
44190932 CTTACCATTT
* * *
44190942 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAGGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAGGAACTCACCAATG
* * ** * *
44190995 CCATGCCTT-AGCATGGTCTTACATGGGATCCTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGA-CATGGTCTTACATGGGATCCTTGCC-T-TAGGAACTCACCAATG
*** * * *
44191050 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCGTT-GTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAG--GAACTCACCAATG
* * * * *
44191104 CCATGCCTTGGCATGATCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
44191137 AAACCTTAAT
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 32 0.29
54 38 0.34
55 39 0.35
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAGGAACTCACCAATG
Found at i:44208679 original size:29 final size:29
Alignment explanation
Indices: 44208629--44208687 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
44208619 AGTCAATGAG
44208629 TAGAAGAACATACCTTTAATCCAAGTTGA
1 TAGAAGAACATACCTTTAATCCAAGTTGA
* *
44208658 TAGAAGAACATACTTTTGATCCAAGTTGA
1 TAGAAGAACATACCTTTAATCCAAGTTGA
44208687 T
1 T
44208688 TTAATGGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (29 bp):
TAGAAGAACATACCTTTAATCCAAGTTGA
Found at i:44213204 original size:56 final size:56
Alignment explanation
Indices: 44213113--44213226 Score: 185
Period size: 56 Copynumber: 2.0 Consensus size: 56
44213103 AATTTTACAA
* *
44213113 TTGTTTTTATTGTGTTTTAAAGTTTAGATTGTAATTTTATTTTCTAGTTATTAATT
1 TTGTTTTTATTGTGGTTTAAAGTTTAGATTGTAATTTTATTTTATAGTTATTAATT
*
44213169 TTGTTTTTATTGTGGTTTAAAGTTTATAGTT-TAATTTTATTTTATAGTTATTAATT
1 TTGTTTTTATTGTGGTTTAAAGTTTAGA-TTGTAATTTTATTTTATAGTTATTAATT
44213225 TT
1 TT
44213227 TTATTTGATC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 52 0.96
57 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.12, T:0.63
Consensus pattern (56 bp):
TTGTTTTTATTGTGGTTTAAAGTTTAGATTGTAATTTTATTTTATAGTTATTAATT
Found at i:44219415 original size:27 final size:27
Alignment explanation
Indices: 44219385--44219561 Score: 94
Period size: 27 Copynumber: 6.6 Consensus size: 27
44219375 ATATTGAGCC
* * *
44219385 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
* * *
44219412 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* * *
44219439 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
*** ** *
44219467 CGCCACACTT--TGCCGTATGGTCAATT
1 CG-CACACTTAGTGCTACATAATCAAAT
* * **
44219493 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
*
44219520 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-AAT
44219547 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44219562 TACAATTTAA
Statistics
Matches: 113, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
25 6 0.05
26 6 0.05
27 89 0.79
28 5 0.04
29 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:44226626 original size:27 final size:27
Alignment explanation
Indices: 44226596--44226773 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
44226586 ATATTGAGCC
* *
44226596 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
44226623 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44226650 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
44226678 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
44226705 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44226732 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
44226759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44226774 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44226708 original size:55 final size:54
Alignment explanation
Indices: 44226596--44226773 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
44226586 ATATTGAGCC
* * *
44226596 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
44226650 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
44226705 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
44226759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44226774 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:44228451 original size:22 final size:22
Alignment explanation
Indices: 44228389--44228582 Score: 136
Period size: 22 Copynumber: 9.0 Consensus size: 22
44228379 ACATTATACC
*
44228389 AGTAGGCACCGAAGTGC---TG
1 AGTAGGCACCGAAGTGCTAATT
* *
44228408 AGCAGGCACCGTAA-TGCAAATT
1 AGTAGGCACCG-AAGTGCTAATT
*
44228430 AGTAGACACCGAAGTGCTAATT
1 AGTAGGCACCGAAGTGCTAATT
* *
44228452 AGTAGGCATC-ACAGTGCAAATCT
1 AGTAGGCACCGA-AGTGCTAAT-T
* *
44228475 -GTAGGCATCGAAGTGCTAATC
1 AGTAGGCACCGAAGTGCTAATT
** * *
44228496 AGTACACACCGTAGTGCAAATT
1 AGTAGGCACCGAAGTGCTAATT
**
44228518 AGTACACACC-ATAGTGCTAATT
1 AGTAGGCACCGA-AGTGCTAATT
*
44228540 AGTAGGCACC-ATAGTGCAAATT
1 AGTAGGCACCGA-AGTGCTAATT
44228562 AGTAGGCACCGTAA-TGCTAAT
1 AGTAGGCACCG-AAGTGCTAAT
44228583 CCTGTACAAG
Statistics
Matches: 141, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
19 13 0.09
20 2 0.01
21 3 0.02
22 119 0.84
23 3 0.02
24 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCTAATT
Found at i:44228487 original size:44 final size:44
Alignment explanation
Indices: 44228411--44228582 Score: 188
Period size: 44 Copynumber: 3.9 Consensus size: 44
44228401 AGTGCTGAGC
* *
44228411 AGGCACCGTAATGCAAATTAGTAGACACCGAAGTGCTAATTAGT
1 AGGCACCATAGTGCAAATTAGTAGACACCGAAGTGCTAATTAGT
* * * * *
44228455 AGGCATCACAGTGCAAATCT-GTAGGCATCGAAGTGCTAATCAGT
1 AGGCACCATAGTGCAAAT-TAGTAGACACCGAAGTGCTAATTAGT
** * *
44228499 ACACACCGTAGTGCAAATTAGTACACACC-ATAGTGCTAATTAGT
1 AGGCACCATAGTGCAAATTAGTAGACACCGA-AGTGCTAATTAGT
*
44228543 AGGCACCATAGTGCAAATTAGTAGGCACCGTAA-TGCTAAT
1 AGGCACCATAGTGCAAATTAGTAGACACCG-AAGTGCTAAT
44228583 CCTGTACAAG
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
43 2 0.02
44 97 0.95
45 2 0.02
46 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (44 bp):
AGGCACCATAGTGCAAATTAGTAGACACCGAAGTGCTAATTAGT
Found at i:44228536 original size:88 final size:88
Alignment explanation
Indices: 44228414--44228583 Score: 247
Period size: 88 Copynumber: 1.9 Consensus size: 88
44228404 GCTGAGCAGG
* *
44228414 CACCGTAATGCAAATTAGTAGACACCGAAGTGCTAATTAGTAGGCATCACAGTGCAAATCT-GTA
1 CACCGTAATGCAAATTAGTACACACCGAAGTGCTAATTAGTAGGCACCACAGTGCAAAT-TAGTA
*
44228478 GGCATCG-AAGTGCTAATCAGTACA
65 GGCACCGTAA-TGCTAATCAGTACA
* *
44228502 CACCGTAGTGCAAATTAGTACACACC-ATAGTGCTAATTAGTAGGCACCATAGTGCAAATTAGTA
1 CACCGTAATGCAAATTAGTACACACCGA-AGTGCTAATTAGTAGGCACCACAGTGCAAATTAGTA
44228566 GGCACCGTAATGCTAATC
65 GGCACCGTAATGCTAATC
44228584 CTGTACAAGC
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
87 2 0.03
88 70 0.95
89 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (88 bp):
CACCGTAATGCAAATTAGTACACACCGAAGTGCTAATTAGTAGGCACCACAGTGCAAATTAGTAG
GCACCGTAATGCTAATCAGTACA
Found at i:44228556 original size:66 final size:66
Alignment explanation
Indices: 44228411--44228574 Score: 170
Period size: 66 Copynumber: 2.5 Consensus size: 66
44228401 AGTGCTGAGC
* * * * ** *
44228411 AGGCACCGTAATGCAAATTAGTAGACACCGAAGTGCTAATTAGTAGGCATCACAGTGCAAATCTG
1 AGGCACCATAGTGCAAATTAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCTG
44228476 T
66 T
* * * * * *
44228477 AGGCATCGA-AGTGCTAATCAGTACACACCGTAGTGCAAATTAGTACACACCATAGTGCTAAT-T
1 AGGCA-CCATAGTGCAAATTAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCT
44228540 AGT
65 -GT
*
44228543 AGGCACCATAGTGCAAATTAGTAGGCACCGTA
1 AGGCACCATAGTGCAAATTAGTAGACACCGTA
44228575 ATGCTAATCC
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
65 3 0.04
66 73 0.95
67 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (66 bp):
AGGCACCATAGTGCAAATTAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCTG
T
Found at i:44234528 original size:25 final size:25
Alignment explanation
Indices: 44234441--44234522 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
44234431 ATACATGTAT
*
44234441 GCTCATACGAGCTGTAAATCGGTAA
1 GCTCATACGAGCTGAAAATCGGTAA
44234466 GCTCATACGAGCT-AAGAATCGGTAA
1 GCTCATACGAGCTGAA-AATCGGTAA
* *
44234491 GCT-TTCACGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTGAAAATCGGTAA
44234516 GCTCATA
1 GCTCATA
44234523 TAAGCTTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAAAATCGGTAA
Found at i:44236924 original size:16 final size:16
Alignment explanation
Indices: 44236882--44236935 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
44236872 TGAATTACTG
44236882 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* * * * *
44236898 ACTATAGCTCTGTTCA
1 ATTACAACTCTATTCC
44236914 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
44236930 ATTACA
1 ATTACA
44236936 GTGAATCAAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:44240716 original size:208 final size:208
Alignment explanation
Indices: 44240358--44240774 Score: 789
Period size: 208 Copynumber: 2.0 Consensus size: 208
44240348 CTACACTCCA
*
44240358 AGTAGTATCAAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTGTT
1 AGTAGTATCAAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
44240423 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATACCCACATGGAG
66 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATACCCACATGGAG
*
44240488 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTGT
131 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTAT
44240553 TACTGCTACTAGT
196 TACTGCTACTAGT
* *
44240566 AGTAGTATCGAATGCGGCACAAAATAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
1 AGTAGTATCAAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
*
44240631 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
66 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATACCCACATGGAG
44240696 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTAT
131 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTAT
44240761 TACTGCTACTAGT
196 TACTGCTACTAGT
44240774 A
1 A
44240775 CTGTGATGGG
Statistics
Matches: 204, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 204 1.00
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.30
Consensus pattern (208 bp):
AGTAGTATCAAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATACCCACATGGAG
TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTAT
TACTGCTACTAGT
Found at i:44248370 original size:15 final size:15
Alignment explanation
Indices: 44248340--44248368 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44248330 ACTATTAATA
44248340 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
44248355 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
44248369 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:44249670 original size:36 final size:37
Alignment explanation
Indices: 44249589--44249683 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
44249579 GTCTCAGATA
* *
44249589 TTACAATTATATGTTTATTTTTTATTAGTCCAAAAGG
1 TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
*
44249626 TTACAATTATGTGTTTATTTTTTATTACTCCTAAA-G
1 TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
* * *
44249662 TTATAATTATGCGTTAATTTTT
1 TTACAATTATGTGTTTATTTTT
44249684 ATTTAATGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 20 0.38
37 32 0.62
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.53
Consensus pattern (37 bp):
TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
Found at i:44250438 original size:25 final size:25
Alignment explanation
Indices: 44250391--44250438 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
44250381 TACACTGATT
* *
44250391 AGAGTTTAAGTGGGAAACTAAAAAC
1 AGAGTTTAAATGGGAAACGAAAAAC
44250416 AGAGTTTAAATGGGAGAA-GAAAA
1 AGAGTTTAAATGGGA-AACGAAAA
44250439 GCCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.50, C:0.04, G:0.27, T:0.19
Consensus pattern (25 bp):
AGAGTTTAAATGGGAAACGAAAAAC
Found at i:44253028 original size:49 final size:49
Alignment explanation
Indices: 44252975--44253200 Score: 267
Period size: 49 Copynumber: 4.6 Consensus size: 49
44252965 ATCTGGTATG
44252975 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
** ** * *
44253024 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACA
* * * * * *
44253074 CGTAATAGCCTG-ACTTAGTACTACACACGTG-ATCAAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACA
*
44253124 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
* *
44253173 CGTAGTAGCCTGCACTTAATACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
44253201 CGTGACCTCA
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
49 88 0.60
50 41 0.28
51 17 0.12
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
Found at i:44253122 original size:100 final size:99
Alignment explanation
Indices: 44252980--44253205 Score: 305
Period size: 100 Copynumber: 2.3 Consensus size: 99
44252970 GTATGCATAG
*
44252980 TAGCCTGCACTTAGTACTACACA--TGCAACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACACGTG-AACAAATTATCCGGTACACATAGTAGCCTGCACTTAG
* *
44253043 TACTACACATGTGACCTAACCATCTGATACACGTAA
65 TACTACACATGCGACC-AACCATCCGATACACGTAA
* * *
44253079 TAGCCTG-ACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACACGTGAACAAA-TTATCCGGTACACATAGTAGCCTGCACTTAG
** * *
44253143 TACTACACATGCGACCAATTATCCGGTACACGTAG
65 TACTACACATGCGACCAACCATCCGATACACGTAA
*
44253178 TAGCCTGCACTTAATACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
44253206 CCTCACAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
98 15 0.13
99 32 0.29
100 65 0.58
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACACGTGAACAAATTATCCGGTACACATAGTAGCCTGCACTTAGT
ACTACACATGCGACCAACCATCCGATACACGTAA
Found at i:44253483 original size:27 final size:27
Alignment explanation
Indices: 44253453--44253506 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44253443 TCATACAACC
* *
44253453 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
44253480 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
44253507 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Done.