Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 308 of 322
Found at i:102265212 original size:22 final size:22
Alignment explanation
Indices: 102265178--102265240 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
102265168 TACTTGACAC
102265178 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
102265199 AGGGGCAACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
102265221 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
102265241 ATCAATTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 6 0.15
22 35 0.85
ACGTcount: A:0.21, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:102266463 original size:47 final size:47
Alignment explanation
Indices: 102266394--102266561 Score: 159
Period size: 47 Copynumber: 3.6 Consensus size: 47
102266384 GCCAATGCGG
* *
102266394 TGTCCCAGACACGGTCTTACACTGGCTCAT-ATCTCAAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGAA-CCA
* * * *
102266441 TGTCCCAGACATGGTCATACACTGACT-ATCGTTTCATAGCCG-ACACA
1 TGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-AGCCGAAC-CA
* *
102266488 TGTCCCAGACAT-GTCTTACACTAGCAC-TCATCTCAAGGCC-AATTCCA
1 TGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GCCGAA--CCA
*
102266535 TGTCCCATACATGGTCTTACACTGGCT
1 TGTCCCAGACATGGTCTTACACTGGCT
102266562 TACACAAGTG
Statistics
Matches: 97, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 23 0.24
47 56 0.58
48 17 0.18
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGAACCA
Found at i:102268767 original size:8 final size:8
Alignment explanation
Indices: 102268754--102268791 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
102268744 GCTAACAAAC
102268754 AACCAATT
1 AACCAATT
102268762 AACCAATT
1 AACCAATT
102268770 AACCAATT
1 AACCAATT
102268778 AACCAATT
1 AACCAATT
*
102268786 ATCCAA
1 AACCAA
102268792 CAATTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (8 bp):
AACCAATT
Found at i:102269034 original size:11 final size:11
Alignment explanation
Indices: 102269018--102269058 Score: 57
Period size: 10 Copynumber: 3.7 Consensus size: 11
102269008 CTAAAATTGA
102269018 AAAGAAAAAGG
1 AAAGAAAAAGG
102269029 AAAG-AAAAGG
1 AAAGAAAAAGG
*
102269039 AAAGGAAAAGAG
1 AAAGAAAAAG-G
102269051 AAAGAAAA
1 AAAGAAAA
102269059 CCTATGCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.37
11 9 0.33
12 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGG
Found at i:102269046 original size:22 final size:22
Alignment explanation
Indices: 102269016--102269058 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102269006 AACTAAAATT
102269016 GAAAAGAAAA-AGGAAAGAAAAG
1 GAAAAGAAAAGA-GAAAGAAAAG
*
102269038 GAAAGGAAAAGAGAAAGAAAA
1 GAAAAGAAAAGAGAAAGAAAA
102269059 CCTATGCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
GAAAAGAAAAGAGAAAGAAAAG
Found at i:102277183 original size:43 final size:43
Alignment explanation
Indices: 102277121--102277205 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
102277111 CTAATTTTTC
*
102277121 GTTTGTTTTCTTCTGGCAGGTTCTTTTGGTTTATGACTAGAGT
1 GTTTGTTTTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAGT
102277164 GTTTGTTTTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAG
1 GTTTGTTTTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAG
102277206 GAAACTCGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.13, C:0.12, G:0.25, T:0.51
Consensus pattern (43 bp):
GTTTGTTTTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAGT
Found at i:102277203 original size:24 final size:24
Alignment explanation
Indices: 102277136--102277203 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 24
102277126 TTTTCTTCTG
102277136 GCAGGTTCTTTTGGTTTATGACTA
1 GCAGGTTCTTTTGGTTTATGACTA
* * * *
102277160 G-A-G-T-GTTTGTTTTCT-TCTA
1 GCAGGTTCTTTTGGTTTATGACTA
102277179 GCAGGTTCTTTTGGTTTATGACTA
1 GCAGGTTCTTTTGGTTTATGACTA
102277203 G
1 G
102277204 AGGAAACTCG
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
19 4 0.13
20 9 0.29
21 2 0.06
22 2 0.06
23 9 0.29
24 5 0.16
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.49
Consensus pattern (24 bp):
GCAGGTTCTTTTGGTTTATGACTA
Found at i:102278010 original size:12 final size:12
Alignment explanation
Indices: 102277993--102278020 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
102277983 CACACATGCT
102277993 CGTGTGCTAGGC
1 CGTGTGCTAGGC
102278005 CGTGTGCTAGGC
1 CGTGTGCTAGGC
102278017 CGTG
1 CGTG
102278021 CCAAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.43, T:0.25
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:102279079 original size:28 final size:28
Alignment explanation
Indices: 102279047--102279120 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
102279037 TTACTCAATG
* *
102279047 CCTCGCACACTAAGTGCCATACTTGATA
1 CCTCGCACACTAAGTGCCACACTCGATA
102279075 CCTCGCACACTAAGTGCCACACTCGATA
1 CCTCGCACACTAAGTGCCACACTCGATA
*
102279103 TCTCGCACACTAAGTGCC
1 CCTCGCACACTAAGTGCC
102279121 GCACATAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (28 bp):
CCTCGCACACTAAGTGCCACACTCGATA
Found at i:102279175 original size:40 final size:39
Alignment explanation
Indices: 102279105--102279252 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 39
102279095 ACTCGATATC
** *
102279105 TCGCACACTAAGTGCCGCACATAGCCGAAGCTATCTCAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
** * * ** * *
102279144 CTCATACACTAAGTGCCTTCTATAGTTGAAGCTATGTCGAG
1 -TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-AA
*
102279185 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTTCATA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA-A
* * *
102279225 TCGGACACTAAGTGCCATAAATAACCGA
1 TCGCACACTAAGTGCCATATATAGCCGA
102279253 TTTGTCATCG
Statistics
Matches: 85, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 1 0.01
40 83 0.98
41 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
Found at i:102282678 original size:25 final size:25
Alignment explanation
Indices: 102282623--102282718 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
102282613 GAGCTGTAAA
* * *
102282623 CGGTAAGCTCCTTCGAGCTGAATAAT
1 CGGTAAGCTCATGCGAGCTGAGT-AT
* *
102282649 -AGTAAGCTCATGCGAGCTGAGTTT
1 CGGTAAGCTCATGCGAGCTGAGTAT
*
102282673 CGGTAAGCTTATGCGAGCTGAGTAT
1 CGGTAAGCTCATGCGAGCTGAGTAT
*
102282698 CGGTAAGCTCATACGAGCTGA
1 CGGTAAGCTCATGCGAGCTGA
102282719 AATCAGTAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.02
25 58 0.98
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (25 bp):
CGGTAAGCTCATGCGAGCTGAGTAT
Found at i:102286126 original size:99 final size:99
Alignment explanation
Indices: 102286008--102286399 Score: 757
Period size: 99 Copynumber: 4.0 Consensus size: 99
102285998 GCCTTCAGCC
* * *
102286008 GATACTATGTGTGCCAAAAAACCAACTTCTCGGAGTCAAAACTCACATTTGTTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
102286073 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
102286107 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
102286172 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
102286206 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
102286271 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
102286305 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
102286370 TAGTTGTTTATCTCGTAGAGTTTGCAGAAT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAAT
102286400 AATTCTCAAA
Statistics
Matches: 290, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 290 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (99 bp):
GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCATATTTGCTAAATTTAGCAAA
TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
Found at i:102286786 original size:33 final size:33
Alignment explanation
Indices: 102286744--102286814 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
102286734 TTATTGAGCA
*
102286744 AACTCAACCTCTCTGACTGGTGGTAATCCAAGT
1 AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
*
102286777 AACTCAACCTCTCTGACTGGAGGTAATCCAGGT
1 AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
102286810 AACTC
1 AACTC
102286815 CTCTGGAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (33 bp):
AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
Found at i:102292619 original size:13 final size:13
Alignment explanation
Indices: 102292601--102292625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102292591 GTGCAGACTT
102292601 CACACGCCCATGA
1 CACACGCCCATGA
102292614 CACACGCCCATG
1 CACACGCCCATG
102292626 TCTGAGGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.48, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGCCCATGA
Found at i:102313464 original size:40 final size:40
Alignment explanation
Indices: 102313273--102313448 Score: 316
Period size: 40 Copynumber: 4.4 Consensus size: 40
102313263 GGACTAAGAT
102313273 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
102313313 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
102313353 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
* * *
102313393 CCGAAGGCATTTGTCCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
102313433 CCGAAGGCATTCGTGC
1 CCGAAGGCATTTGTGC
102313449 GAGTTGCTAT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
Found at i:102321264 original size:40 final size:40
Alignment explanation
Indices: 102321216--102321341 Score: 157
Period size: 40 Copynumber: 3.2 Consensus size: 40
102321206 GGACTAAGAT
*
102321216 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
102321256 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * * * *
102321296 TCGAAGACATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
102321335 CCGAAGG
1 CCGAAGG
102321342 TACTTGGGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
39 12 0.16
40 60 0.81
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:102325441 original size:40 final size:40
Alignment explanation
Indices: 102325386--102325492 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
102325376 TGATGACATA
102325386 TCAGCTAAATATGGCACTTAGTATGCGATTT-AGTATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAG-ATAGCT
* *
102325426 TCAGCTAAATGTGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
** * *
102325466 TCAGCTATGTATAGCACTTAGTGTGCG
1 TCAGCTAAATATGGCACTTAGTATGCG
102325493 GGATATCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
Found at i:102327593 original size:22 final size:22
Alignment explanation
Indices: 102327567--102327608 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
102327557 TTGTAACCTC
*
102327567 TTTCTCTTCTTATTTGTTTGTG
1 TTTCTCTTCTTATTAGTTTGTG
*
102327589 TTTCTCTTCTTGTTAGTTTG
1 TTTCTCTTCTTATTAGTTTG
102327609 CTCGGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.14, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTCTCTTCTTATTAGTTTGTG
Found at i:102328554 original size:26 final size:26
Alignment explanation
Indices: 102328518--102328568 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
102328508 CCTATTAATA
*
102328518 TTTAACCTAGCATTAACCTTTTTGCT
1 TTTAACCTAGCATTAACCATTTTGCT
102328544 TTTAACCTAGCATTAACCATTTTGC
1 TTTAACCTAGCATTAACCATTTTGC
102328569 CCTTAAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTAACCTAGCATTAACCATTTTGCT
Found at i:102328574 original size:26 final size:26
Alignment explanation
Indices: 102328519--102328574 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
102328509 CTATTAATAT
* **
102328519 TTAACCTAGCATTAACCTTTTTGCTT
1 TTAACCTAGCATTAACCATTTTGCCC
102328545 TTAACCTAGCATTAACCATTTTGCCC
1 TTAACCTAGCATTAACCATTTTGCCC
102328571 TTAA
1 TTAA
102328575 GCAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (26 bp):
TTAACCTAGCATTAACCATTTTGCCC
Found at i:102328853 original size:41 final size:41
Alignment explanation
Indices: 102328808--102328895 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
102328798 ATATTTTCTG
*
102328808 CATGTTTAGGCCAGCATCGACCCTCTACAAAACTCAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
102328849 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
*
102328890 CTTGTT
1 CATGTT
102328896 AGGTTCCCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (41 bp):
CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
Found at i:102330375 original size:12 final size:12
Alignment explanation
Indices: 102330358--102330384 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
102330348 TGCAAAACAG
102330358 GTTTTTAGCGGC
1 GTTTTTAGCGGC
102330370 GTTTTTAGCGGC
1 GTTTTTAGCGGC
102330382 GTT
1 GTT
102330385 CGAATAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:102331864 original size:46 final size:46
Alignment explanation
Indices: 102331814--102331989 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
102331804 TGGTTGAGCA
102331814 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
102331860 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
102331905 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
102331953 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
102331990 GCGGGTTACA
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:102331970 original size:93 final size:93
Alignment explanation
Indices: 102331811--102331982 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
102331801 GGATGGTTGA
* *
102331811 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
102331876 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
102331904 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
102331969 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
102331983 CTTATGGGCG
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:102334049 original size:14 final size:14
Alignment explanation
Indices: 102334032--102334083 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
102334022 TTAAAACTCT
102334032 AACCCCTAAACCCC
1 AACCCCTAAACCCC
102334046 AACCCCTAAACCCC
1 AACCCCTAAACCCC
*
102334060 AACCCTTAAACCCC
1 AACCCCTAAACCCC
*
102334074 AAGCCCTAAA
1 AACCCCTAAA
102334084 ACTAACCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.38, C:0.50, G:0.02, T:0.10
Consensus pattern (14 bp):
AACCCCTAAACCCC
Found at i:102341111 original size:40 final size:40
Alignment explanation
Indices: 102341056--102341143 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
102341046 TATTCGGATG
*
102341056 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
102341096 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
102341136 ATAACCGG
1 ATATCCGG
102341144 GTTAAGTCCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:102341185 original size:40 final size:40
Alignment explanation
Indices: 102341112--102341212 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
102341102 GGACTAAGAT
**
102341112 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGG-AATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
102341152 CC-AAGGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAA-GGAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
102341192 CCGAAGGAATTCGTGCTGGTT
1 CCGAAGGAATTCGTGCGGGTT
102341213 GTTACATCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 5 0.09
40 46 0.87
41 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
CCGAAGGAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:102342727 original size:17 final size:18
Alignment explanation
Indices: 102342705--102342739 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
102342695 GACATGATAC
*
102342705 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
102342722 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
102342740 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:102343037 original size:23 final size:22
Alignment explanation
Indices: 102342994--102343051 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
102342984 AAAATGTATC
* *
102342994 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
102343015 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
102343038 TGCATATCATATCT
1 TACAAATCATATCT
102343052 AAGATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:102343054 original size:19 final size:19
Alignment explanation
Indices: 102343030--102343120 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
102343020 AATCATATCT
102343030 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
102343049 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
102343067 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
102343084 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
102343103 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
102343121 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:102343277 original size:21 final size:20
Alignment explanation
Indices: 102343239--102343278 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
102343229 TTGGACTTCG
**
102343239 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
102343259 TTTTTATTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
102343279 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:102348553 original size:48 final size:48
Alignment explanation
Indices: 102348490--102348619 Score: 183
Period size: 47 Copynumber: 2.7 Consensus size: 48
102348480 GCGAGTTATG
* *
102348490 CCTTGATTTGGCTTCGGGCCATGGTATAGGCACTTCGAAGGA-AAATTT
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCG-AGGATAAATTA
* *
102348538 CCTTGATTTGGCTTCGGGCCATGGT-TAGGTACTCCGAGGATAAGTTA
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGAGGATAAATTA
* *
102348585 CCTTGATTTGCCTACGGGCCATGGTATAGGTACTT
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
102348620 ATCTATTGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 4 0.05
47 36 0.49
48 33 0.45
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (48 bp):
CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGAGGATAAATTA
Found at i:102350040 original size:38 final size:38
Alignment explanation
Indices: 102349958--102350144 Score: 198
Period size: 38 Copynumber: 4.8 Consensus size: 38
102349948 TCCAGTCACT
* * *
102349958 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* * *
102349998 AGCACTAGGCCTGTGGGATTTAACCCGGACATAATTCC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATTCC
* *
102350036 AGCACGAAGCCTGCGGAATTTAACCCGGATAT-ATTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATT-CC
* *
102350074 AGCAATAAGCCTGCGGGATTTAACCCGGATAT-ATTACA
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATT-CC
* *
102350112 AGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCACTAAGCCTGCGGG-ATTTAA-CCCGGATA
102350145 CACATCAAAT
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
37 3 0.02
38 89 0.71
39 10 0.08
40 24 0.19
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:102350086 original size:76 final size:77
Alignment explanation
Indices: 102349958--102350127 Score: 218
Period size: 76 Copynumber: 2.2 Consensus size: 77
102349948 TCCAGTCACT
* * * * * *
102349958 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGTGGGATTTAACC
1 AGCACGAAGCCTGC-GGAATTTAAGCCCAGATATAATACCAGCAATAAGCCTGCGGGATTTAACC
*
102350023 CGGACATAATT-CC
65 CGGACAT-ATTACA
* *
102350036 AGCACGAAGCCTGCGGAATTTAA-CCCGGATATATTACCAGCAATAAGCCTGCGGGATTTAACCC
1 AGCACGAAGCCTGCGGAATTTAAGCCCAGATATAATACCAGCAATAAGCCTGCGGGATTTAACCC
*
102350100 GGATATATTACA
66 GGACATATTACA
102350112 AGCACGAAGCCTGCGG
1 AGCACGAAGCCTGCGG
102350128 GTCTTTAAGC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
75 3 0.04
76 57 0.70
77 8 0.10
78 13 0.16
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (77 bp):
AGCACGAAGCCTGCGGAATTTAAGCCCAGATATAATACCAGCAATAAGCCTGCGGGATTTAACCC
GGACATATTACA
Found at i:102359630 original size:50 final size:48
Alignment explanation
Indices: 102359571--102359744 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 48
102359561 GAGTATTAAG
**
102359571 TTGGCTTCGGGCCATGATATCA-GCACTTCGG-GTGCGAGTTATGCCTTGAT
1 TTGGCTTCGGGCCATGATAT-AGGCACTTCGGAG-G-GAAAT-TGCCTTGAT
* *
102359621 TTGGCTTCGGGCCATGGTATAGGCACTTCGGAGGTAAATTGCCTTGAT
1 TTGGCTTCGGGCCATGATATAGGCACTTCGGAGGGAAATTGCCTTGAT
* * ** * *
102359669 TTGTCTTCGGGCCATGGTATAGTTAC-TCTG-GGGATAAGTTACCTTGAT
1 TTGGCTTCGGGCCATGATATAGGCACTTCGGAGGGA-AA-TTGCCTTGAT
* * *
102359717 TTGGCTACGGGCCATGGTATAGGTACTT
1 TTGGCTTCGGGCCATGATATAGGCACTT
102359745 ATCGATTGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.03
47 5 0.05
48 64 0.60
49 4 0.04
50 29 0.27
51 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (48 bp):
TTGGCTTCGGGCCATGATATAGGCACTTCGGAGGGAAATTGCCTTGAT
Found at i:102359683 original size:48 final size:49
Alignment explanation
Indices: 102359612--102359744 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 49
102359602 GTGCGAGTTA
*
102359612 TGCCTTGATTTGGCTTCGGGCCATGGTATAGGCACTTC-GGAGG-TAAAT
1 TGCCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCTGG-GGATAAAT
* * *
102359660 TGCCTTGATTTGTCTTCGGGCCATGGTATAGTTAC-TCTGGGGATAAGT
1 TGCCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCTGGGGATAAAT
* *
102359708 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT
1 TGCCTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
102359745 ATCGATTGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 4 0.05
48 69 0.93
49 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (49 bp):
TGCCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCTGGGGATAAAT
Found at i:102366962 original size:19 final size:19
Alignment explanation
Indices: 102366938--102366976 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
102366928 GGTTTTAGTC
102366938 ATTGTATCAAAAAGAGTAA
1 ATTGTATCAAAAAGAGTAA
102366957 ATTGTATCAAAAAGAGTAA
1 ATTGTATCAAAAAGAGTAA
102366976 A
1 A
102366977 AATGATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
ATTGTATCAAAAAGAGTAA
Found at i:102366987 original size:19 final size:19
Alignment explanation
Indices: 102366940--102366987 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
102366930 TTTTAGTCAT
* *
102366940 TGTATCAAAAAGAGTAAAT
1 TGTATAAAAAAGAGTAAAA
*
102366959 TGTATCAAAAAGAGTAAAAA
1 TGTATAAAAAAGAGT-AAAA
102366979 TG-ATAAAAA
1 TGTATAAAAA
102366988 TTTATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (19 bp):
TGTATAAAAAAGAGTAAAA
Found at i:102368330 original size:73 final size:73
Alignment explanation
Indices: 102368237--102368381 Score: 163
Period size: 72 Copynumber: 2.0 Consensus size: 73
102368227 TAATACTAAT
* * * * *
102368237 AATAACAAAAATAATAAAGTTTGAGACTGTA-AAAATG-GTATAAATAAGTAAATAATATTAATA
1 AATAACAAAAATAATAAAGTTAGA-AAT-TATAAAA-GAGAATAAATAAATAAATAATACTAATA
102368300 T-TAATAACAA
63 TATAATAACAA
* *
102368310 AATAACAAATAAT-CTAAAGTTAGAAATTATAAAAGAGAATAAATAAATAAATAATGCTAATATA
1 AATAACAAA-AATAATAAAGTTAGAAATTATAAAAGAGAATAAATAAATAAATAATACTAATATA
102368374 TAATAACA
65 TAATAACA
102368382 TTAAATGTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
71 3 0.05
72 29 0.48
73 26 0.43
74 3 0.05
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (73 bp):
AATAACAAAAATAATAAAGTTAGAAATTATAAAAGAGAATAAATAAATAAATAATACTAATATAT
AATAACAA
Found at i:102368578 original size:3 final size:3
Alignment explanation
Indices: 102368533--102368891 Score: 76
Period size: 3 Copynumber: 118.3 Consensus size: 3
102368523 GTGATAATAC
** * * *
102368533 AAT AAT AAT ACATT AAT AAT AAT AAT AGG AAA AAGA AAC AAT AAT -AT
1 AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * * * * *
102368580 ATT AAC AAG AAT AAT TAT AGT -AT AAC AAAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * * *
102368625 ATT AAT AAA AAG AAT AA- AA- AAT AA- AAA AAT GAAT -GT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * *
102368667 AAC ATAT AAT AAT AAT GA- AAT AAC ACT AAT AAT AAA AAT -GT AGA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * *
102368711 AGAT AAT AAA AAT AAT AAA AAT AAA AAT AAT GAT ACGTT AAC AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT
* * * *
102368759 GAC AAT AA- AA- AAA AAGC AAAT AAT AAT ATAT GAAT AAT AAT GAA-
1 AAT AAT AAT AAT AAT AA-T AA-T AAT AAT A-AT -AAT AAT AAT -AAT
* * * * * *
102368803 AAT AAT AAT AAT AGT AAA AAA AAT AGAA AAT AGT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * * * *
102368849 AAG AAT AAT ATT TAT AAT AAT ACT AGT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
102368892 TTAAAGTTAA
Statistics
Matches: 251, Mismatches: 81, Indels: 48
0.66 0.21 0.13
Matches are distributed among these distances:
2 18 0.07
3 203 0.81
4 25 0.10
5 5 0.02
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:102368758 original size:41 final size:42
Alignment explanation
Indices: 102368713--102368815 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 42
102368703 AATGTAGAAG
* * * *
102368713 ATAATAAAAATAATAAAAATAA-AAATAATGATACGTTAACA
1 ATAATGAAAATAATAAAAATAACAAATAATAATACATGAACA
* * *
102368754 ATAATGACAATAA-AAAAA-AAGCAAATAATAATATATGAATA
1 ATAATGAAAATAATAAAAATAA-CAAATAATAATACATGAACA
*
102368795 ATAATGAAAATAATAATAATA
1 ATAATGAAAATAATAAAAATA
102368816 GTAAAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.04
40 5 0.10
41 37 0.76
42 4 0.08
43 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (42 bp):
ATAATGAAAATAATAAAAATAACAAATAATAATACATGAACA
Found at i:102368855 original size:28 final size:28
Alignment explanation
Indices: 102368777--102368855 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
102368767 AAAAAAAGCA
* *
102368777 AATAATAATATATGAATAATAAT-GAAAAT
1 AATAATAATAGA-AAATAA-AATAGAAAAT
102368806 AATAATAATAGTAAAA-AAAATAGAAAAT
1 AATAATAATAG-AAAATAAAATAGAAAAT
*
102368834 AGTAATAATA-AAAATAAGAATA
1 AATAATAATAGAAAATAA-AATA
102368856 ATATTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
26 4 0.09
27 5 0.12
28 21 0.49
29 12 0.28
30 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (28 bp):
AATAATAATAGAAAATAAAATAGAAAAT
Found at i:102369211 original size:24 final size:25
Alignment explanation
Indices: 102369184--102369235 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
102369174 ATCTCGTGTA
*
102369184 TTTCTTGTATT-GAAAGTCTCTCCT
1 TTTCTTGTATTCGAAACTCTCTCCT
*
102369208 TTTCTTGTATTCGAATCTCTCTCCT
1 TTTCTTGTATTCGAAACTCTCTCCT
102369233 TTT
1 TTT
102369236 TTTCTCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.54
Consensus pattern (25 bp):
TTTCTTGTATTCGAAACTCTCTCCT
Found at i:102369378 original size:13 final size:13
Alignment explanation
Indices: 102369360--102369387 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102369350 AGTTAGTAGT
102369360 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
102369373 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
102369386 TG
1 TG
102369388 TTAATTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.54, T:0.39
Consensus pattern (13 bp):
TGGTTTAGTGGGG
Found at i:102370070 original size:91 final size:91
Alignment explanation
Indices: 102369793--102370071 Score: 409
Period size: 91 Copynumber: 3.1 Consensus size: 91
102369783 GGAAATAGGG
* * *
102369793 TTTGTTTTGATCTACTCCACTACAACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCC
1 TTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAT-A-TTATAACTTCAATCC
102369857 GTCCCACTGCAACTTCAGGGGAAT-ATGA
64 GTCCCACTGCAACTTCAGGGGAATAAT-A
* * * * *
102369885 TTTATTTTGATCTGCTCTTCTGCAAATTCAGAGAGATAAGATCTGATATTATAACTTCAATTCGT
1 TTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGATATTATAACTTCAATCCGT
* *
102369950 CCTACTGCAACTTCAGGGGAATAAGA
66 CCCACTGCAACTTCAGGGGAATAATA
*
102369976 TTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATATGATATTATAACTTCAATCCGT
1 TTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGATATTATAACTTCAATCCGT
*
102370041 CCCACTACAACTTCAGGGGAATAATA
66 CCCACTGCAACTTCAGGGGAATAATA
102370067 TTTGT
1 TTTGT
102370072 GGTCTTCAGT
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
91 124 0.75
92 41 0.25
93 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (91 bp):
TTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGATATTATAACTTCAATCCGT
CCCACTGCAACTTCAGGGGAATAATA
Found at i:102370259 original size:45 final size:44
Alignment explanation
Indices: 102370074--102370259 Score: 196
Period size: 45 Copynumber: 4.2 Consensus size: 44
102370064 ATATTTGTGG
** * *
102370074 TCTTCAGTCTGTTCCACTACAACTTTAGGGAGATAAGACTTGCTA
1 TCTTCAGTCTGTTCCACTGTAACTTCAGGGAGATAAGTC-TGCTA
** * * * *
102370119 -CTTCAACCTGTTCTACTGTAACTTTAGAGAGATAAGGTTTGCTA
1 TCTTCAGTCTGTTCCACTGTAACTTCAGGGAGATAA-GTCTGCTA
* *
102370163 TCTTC-GATCTATTCCACTGTAACTTCAGGGAGATAAGATCTACTA
1 TCTTCAG-TCTGTTCCACTGTAACTTCAGGGAGATAAG-TCTGCTA
*
102370208 TCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGTCCTGCTA
1 TCTTCAGTCTGTTCCACTGTAACTTCAGGGAGATAAGT-CTGCTA
102370253 TCTTCAG
1 TCTTCAG
102370260 CCTACTCCCT
Statistics
Matches: 116, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
44 36 0.31
45 79 0.68
46 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (44 bp):
TCTTCAGTCTGTTCCACTGTAACTTCAGGGAGATAAGTCTGCTA
Found at i:102370281 original size:45 final size:45
Alignment explanation
Indices: 102370175--102370289 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
102370165 TTCGATCTAT
* * *
102370175 TCCACTGTAACTTCAGGGAGATAAGATCTACTATCTTCAGTCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTACTATCTTCAGCCTAC
* *
102370220 TCCACTGTAACTTCAGGGAGATAAG-TCCTGCTATCTTCAGCCTAC
1 TCCACTGTAACCTCAGGGAGATAAGAT-CTACTATCTTCAGCCTAC
102370265 TCC-CTTGCT-ACCTCAGGGAGATAAG
1 TCCAC-TG-TAACCTCAGGGAGATAAG
102370290 GCTAATGGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
44 2 0.03
45 60 0.95
46 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTACTATCTTCAGCCTAC
Found at i:102370528 original size:178 final size:177
Alignment explanation
Indices: 102370189--102370603 Score: 433
Period size: 178 Copynumber: 2.3 Consensus size: 177
102370179 CTGTAACTTC
* * * * * * * * *
102370189 AGGGAGATAAGATCTACTATCTTCAGTCTGCTCCAC-TG-TAACTTCAGGGAGATAAGTCCTGCT
1 AGGGAGACAAGATCTACAATCTTCAGTTTGCTCC-CTTGCT-ACCTCAAGAAGATAAG-ACTACA
* * * * *
102370252 ATCTTCAGCCTACTCCCTTGCTACCTCAGGGAGATAAGGCTAATGGCTAAAATCTGCTCCCCTGC
63 ATCTTTAACCTACTCCCTTACTACCTCAGAGAAATAAGGCTAATGGCTAAAATCTGCTCCCCTGC
* * ** *
102370317 TACCTCAAGAAGATAAGATTCGCCATTTTCGATCTTCTCCACTGTTATCTCG
128 TACCTCAAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACT-GCT-G
* *
102370369 A-GGAGACAAGATCTATAATCTTCAGTTTTCTCCCTTGCTACCTCAAGAAGATAAGACTACAATC
1 AGGGAGACAAGATCTACAATCTTCAGTTTGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATC
* * * *
102370433 TTTAACCTATTCCCTTACTACTTCAGAGAAATAAGGCTGATGGCTGAAATCT-CTTCCCCTGCTA
66 TTTAACCTACTCCCTTACTACCTCAGAGAAATAAGGCTAATGGCTAAAATCTGC-TCCCCTGCTA
* ** * * *
102370497 CTTCGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTT
130 CCTCAAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTG
* * * *
102370545 AGGGAGATAAGATCTACAATCTTCAGTTTGCTTCCTTGCTACTTCAGGAAGATAAGACT
1 AGGGAGACAAGATCTACAATCTTCAGTTTGCTCCCTTGCTACCTCAAGAAGATAAGACT
102370604 GGTGGCTTAA
Statistics
Matches: 194, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
176 1 0.01
177 54 0.28
178 95 0.49
179 42 0.22
180 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (177 bp):
AGGGAGACAAGATCTACAATCTTCAGTTTGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATC
TTTAACCTACTCCCTTACTACCTCAGAGAAATAAGGCTAATGGCTAAAATCTGCTCCCCTGCTAC
CTCAAGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTG
Found at i:102370743 original size:135 final size:132
Alignment explanation
Indices: 102370421--102370805 Score: 406
Period size: 135 Copynumber: 2.9 Consensus size: 132
102370411 TCAAGAAGAT
* * * * *
102370421 AAGA-CTACAATCTTTAACCT-ATTCCCTTACTACTTCAGAGAA-ATAAGGCTGATGGCTGAAAT
1 AAGATCTACAATCTTCAACCTGCTT-CCTTGCTACTTCAG-GAAGATAAGGCTGGTGGCTTAAAT
* * * * *
102370483 CTCTTCCCCTGCTACTTCGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGG
64 CTC-TCCCCTGCTACCTCGGGAAGATAAGATTCGTCGTCTTTGATCTACTCCACTACTACTTAAG
*
102370548 GAGAT
128 GAGAG
*** *
102370553 AAGATCTACAATCTTCAGTTTGCTTCCTTGCTACTTCAGGAAGATAAGACTGGTGGCTTAAATCT
1 AAGATCTACAATCTTCAACCTGCTTCCTTGCTACTTCAGGAAGATAAGGCTGGTGGCTTAAATCT
* * * *
102370618 ACTCCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTACTCCAGTTGCTACTTTAAG
66 -CTCCCCTGCTACCTCGGGAAGATAAGATTCGTCGTCTTTGATCTACTCCA-CTACTAC-TTAAG
102370683 GAGACG
128 GAGA-G
* *
102370689 AA-ATCTACAATTTTCAACCTGCTTCCTTGCTACCTCAGGAAGATAAGGCTGGTGGC-TAGAATC
1 AAGATCTACAATCTTCAACCTGCTTCCTTGCTACTTCAGGAAGATAAGGCTGGTGGCTTA-AATC
* * *
102370752 TCCTCCCGTGCTATCTC-GAAAGGATAAGATTTC-TCGTCTTTGATCTACTCCACT
65 T-CTCCCCTGCTACCTCGGGAA-GATAAGA-TTCGTCGTCTTTGATCTACTCCACT
102370806 TGTTATTTCA
Statistics
Matches: 211, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
132 7 0.03
133 88 0.42
134 13 0.06
135 98 0.46
136 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
AAGATCTACAATCTTCAACCTGCTTCCTTGCTACTTCAGGAAGATAAGGCTGGTGGCTTAAATCT
CTCCCCTGCTACCTCGGGAAGATAAGATTCGTCGTCTTTGATCTACTCCACTACTACTTAAGGAG
AG
Found at i:102372115 original size:17 final size:17
Alignment explanation
Indices: 102372073--102372115 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
102372063 TTTTCCTTTC
*
102372073 TTCTTTTTTTTTTATTT
1 TTCTTTTTTTATTATTT
*
102372090 TT-TGATTTTTATTATTT
1 TTCT-TTTTTTATTATTT
102372107 TTCTTTTTT
1 TTCTTTTTT
102372116 CTTTTTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (17 bp):
TTCTTTTTTTATTATTT
Found at i:102377227 original size:51 final size:51
Alignment explanation
Indices: 102377172--102377322 Score: 257
Period size: 51 Copynumber: 3.0 Consensus size: 51
102377162 TTCAGCTAGC
102377172 CTTGTTGAAGCTAGAGCAATAAAGTAATAATTCCGGATGAAATATGAAGCT
1 CTTGTTGAAGCTAGAGCAATAAAGTAATAATTCCGGATGAAATATGAAGCT
* * *
102377223 CTTGTTGAAGCTAGAGTAATAAAGTAATAATTTCGAATGAAATATGAAGCT
1 CTTGTTGAAGCTAGAGCAATAAAGTAATAATTCCGGATGAAATATGAAGCT
* *
102377274 CTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGGATGAAGTATGAAG
1 CTTGTTGAAGCTAGAGCAATAAAGTAATAATTCCGGATGAAATATGAAG
102377323 TAAGTTTGAG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 92 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.28
Consensus pattern (51 bp):
CTTGTTGAAGCTAGAGCAATAAAGTAATAATTCCGGATGAAATATGAAGCT
Found at i:102378180 original size:46 final size:46
Alignment explanation
Indices: 102378138--102378946 Score: 977
Period size: 46 Copynumber: 17.6 Consensus size: 46
102378128 ATGAAATGTG
* * * **
102378138 TAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378184 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* *
102378230 CAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
* * * **
102378276 TAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378322 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378368 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378414 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378460 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378506 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378552 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378598 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378644 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378690 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378736 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378782 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
* * * * **
102378828 CAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
*
102378874 TAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGA-AACGTGACATGAAAAGAA
*
102378920 CAAGACCATGGTTGAAAGATACCATGG
1 TAAGACCATGGTTGAAAGATACCATGG
102378947 CAATGCACAA
Statistics
Matches: 639, Mismatches: 108, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
45 16 0.03
46 609 0.95
47 14 0.02
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAA
Found at i:102378224 original size:25 final size:25
Alignment explanation
Indices: 102378196--102378271 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 25
102378186 AGACCGTGGT
102378196 TGAAAGATACCATGACAACGTGACA
1 TGAAAGATACCATGACAACGTGACA
* * **
102378221 TGAAAAGA-A-CAAGAC--CATG-GT
1 TG-AAAGATACCATGACAACGTGACA
*
102378242 TGAAAGATACCATGGCAACGTGACA
1 TGAAAGATACCATGACAACGTGACA
102378267 TGAAA
1 TGAAA
102378272 AGAATAAGAC
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
20 5 0.14
21 3 0.08
22 7 0.19
24 8 0.22
25 8 0.22
26 5 0.14
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (25 bp):
TGAAAGATACCATGACAACGTGACA
Found at i:102378288 original size:92 final size:92
Alignment explanation
Indices: 102378128--102378946 Score: 1453
Period size: 92 Copynumber: 8.9 Consensus size: 92
102378118 GTTTTCTGAA
* * * * *** *
102378128 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA-AACATGATATGAAATGTGTAAGACCG
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCAT-GACAACGTGACATGAAAAGAACAAGACCA
* *
102378192 TGGTTGAAAGATACCAT-GACAACGTGAC
65 TGGTTGAAAGATACCATGGA-AACATGAT
* *** * * *
102378220 ATGAAAAGAACAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378285 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378312 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378377 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378404 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378469 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378496 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378561 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378588 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378653 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378680 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378745 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378772 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378837 GGTTGAAAGATACCATGGAAACATGAT
66 GGTTGAAAGATACCATGGAAACATGAT
102378864 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
1 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
102378929 GGTTGAAAGATACCATGG
66 GGTTGAAAGATACCATGG
102378947 CAATGCACAA
Statistics
Matches: 705, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
91 1 0.00
92 702 1.00
93 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGACAACGTGACATGAAAAGAACAAGACCAT
GGTTGAAAGATACCATGGAAACATGAT
Found at i:102378958 original size:34 final size:34
Alignment explanation
Indices: 102378919--102378983 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
102378909 CATGAAAAGA
102378919 ACAAGACCATGGTT-GAAAGATACCATGGCAATGC
1 ACAAGACCAT-GTTCGAAAGATACCATGGCAATGC
102378953 ACAAGACCATGTTCGAAAGATACCATGGCAA
1 ACAAGACCATGTTCGAAAGATACCATGGCAA
102378984 CATGACAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 3 0.10
34 27 0.90
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (34 bp):
ACAAGACCATGTTCGAAAGATACCATGGCAATGC
Found at i:102397867 original size:12 final size:12
Alignment explanation
Indices: 102397850--102397876 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
102397840 ATTCCGAAGT
102397850 ATATATATATAC
1 ATATATATATAC
102397862 ATATATATATAC
1 ATATATATATAC
102397874 ATA
1 ATA
102397877 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:102403567 original size:40 final size:40
Alignment explanation
Indices: 102403476--102403645 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
102403466 TCCTCGTTCA
* * * * *
102403476 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
102403515 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
102403555 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
102403595 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
102403635 AAGGCCTTCGG
1 AATGCCTTCGG
102403646 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:102415236 original size:33 final size:32
Alignment explanation
Indices: 102415198--102415263 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
102415188 CAACCCTTTC
102415198 CAAAACTCGGAGCATTGCCTGGGACAGAGCGT
1 CAAAACTCGGAGCATTGCCTGGGACAGAGCGT
* *
102415230 CNAAAACTCGGAGCGTTGCCTGGGGCAGAGCGT
1 C-AAAACTCGGAGCATTGCCTGGGACAGAGCGT
102415263 C
1 C
102415264 GTCCCCGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.15
Consensus pattern (32 bp):
CAAAACTCGGAGCATTGCCTGGGACAGAGCGT
Found at i:102416748 original size:27 final size:26
Alignment explanation
Indices: 102416700--102416751 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
102416690 GCGAGGCTGC
*
102416700 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
102416726 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
102416752 TTACAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:102420641 original size:15 final size:15
Alignment explanation
Indices: 102420621--102420650 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102420611 GCCATCAGAG
102420621 TTGCAAAAGATCCAT
1 TTGCAAAAGATCCAT
102420636 TTGCAAAAGATCCAT
1 TTGCAAAAGATCCAT
102420651 AATGTGTTCC
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:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
TTGCAAAAGATCCAT
Found at i:102426016 original size:20 final size:20
Alignment explanation
Indices: 102425988--102426025 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102425978 AATTAATCTT
102425988 GTTTAATTA-ACTTAATTTAG
1 GTTTAATTATAC-TAATTTAG
*
102426008 GTTTTATTATACTAATTT
1 GTTTAATTATACTAATTT
102426026 TACTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
GTTTAATTATACTAATTTAG
Found at i:102428736 original size:42 final size:41
Alignment explanation
Indices: 102428688--102428851 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 41
102428678 TTAGGGTTAC
* * *
102428688 TGAGATTATGTGTCAGACCATATCTGGGATATGACATCTATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCTATA
*
102428730 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATATGGCATCTATA
* * *
102428772 TAAGACTTCGTGTAACACCAT-TGCTGGGCTATTGGCAT-TGATA
1 TGAGA-TTCGTGTAAGACCATAT-CTGGGATA-TGGCATCT-ATA
* *
102428815 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCAT
102428852 TGTTATGGTA
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 68 0.67
43 32 0.31
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCTATA
Found at i:102432694 original size:42 final size:42
Alignment explanation
Indices: 102432648--102432797 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
102432638 ATGAGTTTAA
* *
102432648 GTGTAAGACCATATCTGGGATATGGCATCGTTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* **
102432690 GTGTAAGACCATGTCTGGGACCTGGCATCGATATGAGA-ATC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * * * * **
102432731 GTGTAAGAACATAGCTGGGCTATTAGCATCAATATGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATATC
*
102432774 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCTGGGATATG
102432798 ACATTGGTAT
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 18 0.21
42 49 0.57
43 19 0.22
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
Found at i:102435003 original size:48 final size:48
Alignment explanation
Indices: 102434932--102435026 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
102434922 TGTGTGCTAC
*
102434932 TGTAAGACCATGTCTGAGACATGGAATCGACCACATAATGAGAGCCAT
1 TGTAAGACCATGTCTGAGACATGGAATCGACAACATAATGAGAGCCAT
* * * * *
102434980 TGTAAGACCATGTTTG-GAGCATGGCATGGACAATATTATGAGAGCCA
1 TGTAAGACCATGTCTGAGA-CATGGAATCGACAACATAATGAGAGCCA
102435027 GAGTAAGGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGAGACATGGAATCGACAACATAATGAGAGCCAT
Found at i:102455723 original size:46 final size:47
Alignment explanation
Indices: 102455616--102455773 Score: 175
Period size: 46 Copynumber: 3.4 Consensus size: 47
102455606 GGTTATTATG
* *
102455616 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-G-ATGA
1 AGCCAGTGTAAGACCATGTTTGGGACAT-GCATCGGCCTCGAGGCAT-A
* * *
102455663 GAGCTAATGTAAGA-CATGTTTGGGACATGCATCAGCCTCGAGGCATA
1 -AGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGGCATA
* *
102455710 AGCCAGTGTAAGA-CATGTCTT-GGACATGCAT-GGCCTCAAGACATA
1 AGCCAGTGTAAGACCATGT-TTGGGACATGCATCGGCCTCGAGGCATA
102455755 AGCCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACCATGT
102455774 CTAGAACATG
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
45 24 0.25
46 41 0.43
47 18 0.19
48 13 0.14
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGGCATA
Found at i:102455774 original size:46 final size:47
Alignment explanation
Indices: 102455670--102455887 Score: 169
Period size: 46 Copynumber: 4.6 Consensus size: 47
102455660 TGAGAGCTAA
* * * *
102455670 TGTAAGA-CATGTTTGGGACATGCATCAGCCTCGAGGCATAAGCCAG
1 TGTAAGACCATGTCTAGGACATGCATCAGCCTCAAGACATAAGCCAG
* *
102455716 TGTAAGA-CATGTCTTGGACATGCAT-GGCCTCAAGACATAAGCCAG
1 TGTAAGACCATGTCTAGGACATGCATCAGCCTCAAGACATAAGCCAG
* * * * *
102455761 TGTAAGACCATGTCTAGAACATGGCATTAG-CACAA-ATATGTGAGAGCTAG
1 TGTAAGACCATGTCTAGGACAT-GCATCAGCCTCAAGACA--T-A-AGCCAG
* * * * *
102455811 TGTAAGACCATGTCTGGGACATGACGTCGGCCTCGATGACGAT-AGTCAG
1 TGTAAGACCATGTCTAGGACATG-CATCAGCCTC-AAGAC-ATAAGCCAG
102455860 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGACCATGTCTAGGACAT-GCATC
102455888 GGCATTCTAC
Statistics
Matches: 136, Mismatches: 23, Indels: 23
0.75 0.13 0.13
Matches are distributed among these distances:
45 24 0.18
46 37 0.27
47 8 0.06
48 2 0.01
49 30 0.22
50 29 0.21
51 2 0.01
52 2 0.01
53 1 0.01
54 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGCATCAGCCTCAAGACATAAGCCAG
Found at i:102461814 original size:28 final size:28
Alignment explanation
Indices: 102461774--102461866 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
102461764 ATGTACTAGA
*
102461774 ATACCCCTATGTATGCAAAATTATCATT
1 ATACCCCTATGTATGCAAAATTACCATT
102461802 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
102461830 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
102461858 ATACCCCTA
1 ATACCCCTA
102461867 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:102462014 original size:27 final size:29
Alignment explanation
Indices: 102461972--102462033 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
102461962 AGGAAGCGTC
* **
102461972 CTGGTGGCCCTACCAC-GTATATCTGT-T
1 CTGGTGGCACTACCACAAAATATCTGTAT
*
102461999 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTACCACAAAATATCTGTAT
102462028 CTGGTG
1 CTGGTG
102462034 ACTCTGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.48
28 8 0.28
29 7 0.24
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (29 bp):
CTGGTGGCACTACCACAAAATATCTGTAT
Found at i:102462044 original size:29 final size:28
Alignment explanation
Indices: 102461990--102462044 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
102461980 CCTACCACGT
*
102461990 ATATCTGTTCTGGTGGCACTGCCACAAA
1 ATATCTGTTCTGGTGACACTGCCACAAA
* *
102462018 ATATCTGTATCTGGTGACTCTGTCACA
1 ATATCTGT-TCTGGTGACACTGCCACA
102462045 TTTTCTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (28 bp):
ATATCTGTTCTGGTGACACTGCCACAAA
Found at i:102462519 original size:19 final size:19
Alignment explanation
Indices: 102462497--102462535 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
102462487 TTTGAATTAT
* *
102462497 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
102462516 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
102462535 T
1 T
102462536 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:102469689 original size:28 final size:28
Alignment explanation
Indices: 102469646--102469738 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
102469636 ATGTACTAGA
*
102469646 ATACCCCTATGTATGCAAAATTATCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
102469674 ATACCCCTATGCATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
102469702 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
102469730 ATACCCCTA
1 ATACCCCTA
102469739 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:102469885 original size:28 final size:27
Alignment explanation
Indices: 102469844--102469904 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
102469834 AGGAAGCGTC
*
102469844 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCATGCCACAAA-TATCTGTT
* **
102469872 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCATGCCACAAATATCTGTT
102469899 CTGGTG
1 CTGGTG
102469905 ACTCTGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (27 bp):
CTGGTGGCCATGCCACAAATATCTGTT
Found at i:102470392 original size:19 final size:19
Alignment explanation
Indices: 102470368--102470406 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
102470358 TTTTAATTAT
* *
102470368 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
102470387 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
102470406 T
1 T
102470407 ATGATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:102473921 original size:13 final size:13
Alignment explanation
Indices: 102473903--102473929 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
102473893 TCAGCAACAG
102473903 CATTAGCCTTTCC
1 CATTAGCCTTTCC
102473916 CATTAGCCTTTCC
1 CATTAGCCTTTCC
102473929 C
1 C
102473930 GGGTGATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (13 bp):
CATTAGCCTTTCC
Found at i:102480103 original size:43 final size:42
Alignment explanation
Indices: 102479958--102480117 Score: 205
Period size: 42 Copynumber: 3.8 Consensus size: 42
102479948 TTAGGGTTAC
* * **
102479958 TGAGATTACGTGCAAGACCATATCTGGGATATGGAATTTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
*
102480000 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
102480042 TGAGACTT-CGTGTGAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
102480085 CGAGATTACATGTAAGACCATATCTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
102480118 TCATTGTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 66 0.65
43 36 0.35
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:102482417 original size:27 final size:27
Alignment explanation
Indices: 102482379--102482431 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
102482369 ATATATACGA
*
102482379 CATATAGGGGCAAAACAGTCATCTTAC
1 CATATAAGGGCAAAACAGTCATCTTAC
102482406 CATATAAGGGCAAAACAGTCATCTTA
1 CATATAAGGGCAAAACAGTCATCTTA
102482432 TCATTCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
CATATAAGGGCAAAACAGTCATCTTAC
Found at i:102482674 original size:17 final size:18
Alignment explanation
Indices: 102482637--102482677 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
102482627 CCAATAATTT
*
102482637 CCACATGCCCATGTAGGGC
1 CCACAAGCCCATG-AGGGC
102482656 CCACAAGCCCATG-GGGC
1 CCACAAGCCCATGAGGGC
102482673 CCACA
1 CCACA
102482678 CGGTACAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
19 12 0.57
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.10
Consensus pattern (18 bp):
CCACAAGCCCATGAGGGC
Found at i:102490449 original size:20 final size:19
Alignment explanation
Indices: 102490402--102490449 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
102490392 AGTAAGCTCG
102490402 GTTGAGCTCAAATGAGCTA
1 GTTGAGCTCAAATGAGCTA
***
102490421 AAAGAAGCTCAAATGAGCTGA
1 GTTG-AGCTCAAATGAGCT-A
102490442 GTTGAGCT
1 GTTGAGCT
102490450 GGACAGAGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 3
0.70 0.20 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.86
21 2 0.10
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (19 bp):
GTTGAGCTCAAATGAGCTA
Found at i:102491343 original size:22 final size:22
Alignment explanation
Indices: 102491315--102491367 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
102491305 GTGCCAAAGG
*
102491315 CACACGGGTGTGTCCCTATGTC
1 CACACGGGCGTGTCCCTATGTC
102491337 CACACGGGCGTGTCCCTATGTC
1 CACACGGGCGTGTCCCTATGTC
102491359 CACACGGGC
1 CACACGGGC
102491368 ATGTGACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTCCCTATGTC
Found at i:102493143 original size:14 final size:15
Alignment explanation
Indices: 102493118--102493156 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
102493108 GGTATCATGA
102493118 TTGGATTTTCTT-GTT
1 TTGGA-TTTCTTCGTT
102493133 TTGGATTTCTTCGTT
1 TTGGATTTCTTCGTT
*
102493148 ATGGATTTC
1 TTGGATTTC
102493157 CTTACCGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.10, C:0.10, G:0.21, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTCGTT
Found at i:102499517 original size:509 final size:509
Alignment explanation
Indices: 102498560--102500012 Score: 2804
Period size: 509 Copynumber: 2.9 Consensus size: 509
102498550 TTATACAAAT
102498560 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
102498625 AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
102498690 TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACGT
102498755 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGAT
196 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGAT
102498820 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCTAGCTATT
261 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCTAGCTATT
102498885 GTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATA
326 GTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATA
102498950 CTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCAT
391 CTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCAT
102499015 ACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAG
456 ACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAG
102499069 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
* *
102499134 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTATATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
*
102499199 TAAATATTCAATAGC-AGTAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACG
131 TAAATATTCAATAGCGA-TAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACG
*
102499263 TGGCATTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGA
195 TGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGA
*
102499328 TTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTAGAGAGAAGG-TCAGCTA
260 TTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCT-AGCTA
* *
102499392 TTGTTGTAATTATAATGGACAAGCAAGCAACATATATGGTAATAAAATTAATACATACTTATTCA
324 TTGTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCA
102499457 TACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTC
389 TACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTC
102499522 ATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAG
454 ATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAG
102499578 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
102499643 AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
102499708 TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACGT
102499773 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGAT
196 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGAT
102499838 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCTAGCTATT
261 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCTAGCTATT
102499903 GTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATA
326 GTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATA
102499968 CTTAAGTTGAATCAAATAATAATTAAGTTGAACC-AAATATAAAAA
391 CTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAA
102500013 AATTAATTTG
Statistics
Matches: 926, Mismatches: 14, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
508 13 0.01
509 911 0.98
510 2 0.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (509 bp):
ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATAT
AATAATATCAAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATTATACGT
GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCATCAGAT
TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGCTAGCTATT
GTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATA
CTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCAT
ACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAG
Found at i:102500162 original size:15 final size:15
Alignment explanation
Indices: 102500142--102500170 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
102500132 ACAATTTTGA
102500142 AATAAAACGTACCTT
1 AATAAAACGTACCTT
102500157 AATAAAACGTACCT
1 AATAAAACGTACCT
102500171 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:102504436 original size:15 final size:15
Alignment explanation
Indices: 102504416--102504447 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102504406 AAATAATAAT
*
102504416 TTATATATATTTATC
1 TTATATACATTTATC
102504431 TTATATACATTTATC
1 TTATATACATTTATC
102504446 TT
1 TT
102504448 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:102505314 original size:14 final size:14
Alignment explanation
Indices: 102505288--102505332 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
102505278 TAAACCTGCT
*
102505288 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
102505302 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
102505316 TAAACCTTAAACTA
1 TAAACCTTAAACCA
102505330 TAA
1 TAA
102505333 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:102505584 original size:40 final size:40
Alignment explanation
Indices: 102505490--102505625 Score: 209
Period size: 40 Copynumber: 3.4 Consensus size: 40
102505480 GTTATATGAC
** *
102505490 TTTTAGCGGCAATTGACCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCT-GT
*
102505531 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
*
102505571 TTTTAGCAGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
*
102505611 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
102505626 TTGATAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 53 0.61
41 34 0.39
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
Found at i:102509674 original size:35 final size:35
Alignment explanation
Indices: 102509634--102509794 Score: 153
Period size: 35 Copynumber: 4.6 Consensus size: 35
102509624 GTATATACAT
* * *
102509634 ATGTGATGATATATTTAATTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
** * * *
102509669 ATGTGATTTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* * * * * *
102509704 ATGTGATGTTTTATTGAGCTTGTATATTCGATCAT
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* *
102509739 ATATGATGATATATTGAACTTGTATATTTCG-CCAT
1 ATGTGATGATATATTGAACTTGTATATTT-GACCAC
*
102509774 ATGTGATGATATAATGAACTT
1 ATGTGATGATATATTGAACTT
102509795 TGAGTATTCA
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
35 100 0.99
36 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGACCAC
Found at i:102513813 original size:25 final size:25
Alignment explanation
Indices: 102513784--102513831 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
102513774 TTATAACATG
* * *
102513784 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
102513809 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
102513832 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:102513977 original size:23 final size:23
Alignment explanation
Indices: 102513945--102514039 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
102513935 AGGAAGTGAA
102513945 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
102513968 ATAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
102513991 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
102514013 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
102514037 AAA
1 AAA
102514040 AGAGGTTGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
22 10 0.15
23 47 0.70
24 10 0.15
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:102514290 original size:31 final size:31
Alignment explanation
Indices: 102514254--102514317 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
102514244 CGTTTACAGT
*
102514254 AAAGGCTTCGGCCTAGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGAAATATGAAATATGA
***
102514285 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGAAATATGAAATATGA
102514316 AA
1 AA
102514318 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGAAATATGAAATATGA
Found at i:102517671 original size:36 final size:36
Alignment explanation
Indices: 102517624--102517694 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
102517614 ATGGAAATGG
*
102517624 GAAAGAATCACGATGGATTTTGTATCTGGGTTACCA
1 GAAAGAATCACGATGGATTTTGTATCCGGGTTACCA
* *
102517660 GAAAGAGTCACGATGGATTTTGTATCCGGTTTACC
1 GAAAGAATCACGATGGATTTTGTATCCGGGTTACC
102517695 GTTGACACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (36 bp):
GAAAGAATCACGATGGATTTTGTATCCGGGTTACCA
Found at i:102519553 original size:27 final size:27
Alignment explanation
Indices: 102519511--102519579 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
102519501 GTAGGCTAGT
* *
102519511 ATTACTAAAATACCCCTATATGGTAGA
1 ATTACTAAAATACCCCTATAAGGTAAA
* *
102519538 ATTACTGAAATGCCCCTATAAGGTAAA
1 ATTACTAAAATACCCCTATAAGGTAAA
102519565 ATTACTAAAATACCC
1 ATTACTAAAATACCC
102519580 TTGGTTTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATACCCCTATAAGGTAAA
Found at i:102519592 original size:27 final size:27
Alignment explanation
Indices: 102519562--102519938 Score: 205
Period size: 27 Copynumber: 14.0 Consensus size: 27
102519552 CCTATAAGGT
* *
102519562 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACTAAAATACCCTTGATTTGC
* * *
102519589 AAAATTACT-GAATACCCTTGGTTTAC
1 AAAATTACTAAAATACCCTTGATTTGC
* * * *
102519615 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTTGATTTGC
* * *
102519642 AAAATTA-TCAAATTACCCCTGATTTGT
1 AAAATTACT-AAAATACCCTTGATTTGC
* * ** * *
102519669 GAAATTTCTAAAATACTTTTGACTTGT
1 AAAATTACTAAAATACCCTTGATTTGC
* * * *
102519696 AAAATTAAC-GAAATA-CCTTCAACTTGT
1 AAAATT-ACTAAAATACCCTT-GATTTGC
* * * **
102519723 AAAATTACTGAAATACTCTCGATTTTT
1 AAAATTACTAAAATACCCTTGATTTGC
* * * *
102519750 AAAATTACCAAAATACCCCTAATTTGG
1 AAAATTACTAAAATACCCTTGATTTGC
* *
102519777 AAAATTA-TAGAAATACCCCTGATTTAC
1 AAAATTACTA-AAATACCCTTGATTTGC
* * *
102519804 AAAATTATTGAAATACCCTTGATTTGG
1 AAAATTACTAAAATACCCTTGATTTGC
* * * * *
102519831 AAAGTTACAAAAATACCCCTAATTTAC
1 AAAATTACTAAAATACCCTTGATTTGC
102519858 AAAATTAC-AGAAATACCCTTGACTTT-C
1 AAAATTACTA-AAATACCCTTGA-TTTGC
* *
102519885 AAAAATTAC-AGAAATACCATTGGTTTGC
1 -AAAATTACTA-AAATACCCTTGATTTGC
* *
102519913 AAAATTA-TCGAAATACCCTTGGTTTG
1 AAAATTACT-AAAATACCCTTGATTTG
102519939 GGGATTTACC
Statistics
Matches: 277, Mismatches: 58, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
26 30 0.11
27 218 0.79
28 29 0.10
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGATTTGC
Found at i:102520088 original size:20 final size:20
Alignment explanation
Indices: 102520065--102520109 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
102520055 GACTATGTTT
102520065 TGATTGAGAATG-TATGACTG
1 TGATTG-GAATGTTATGACTG
* *
102520085 TGATTGGACTGTTGTGACTG
1 TGATTGGAATGTTATGACTG
102520105 TGATT
1 TGATT
102520110 TGTATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (20 bp):
TGATTGGAATGTTATGACTG
Found at i:102520239 original size:41 final size:41
Alignment explanation
Indices: 102520194--102520359 Score: 210
Period size: 41 Copynumber: 4.0 Consensus size: 41
102520184 CGGAGGAAGA
* *
102520194 ATTGAGGATCGCATAGTTGCTTGATGAACGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGAACGTGGATCCACCG
* *
102520235 ATTGAGAATCGCATGGTTTCTTGACG-ACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGAAC-GTGGATCCACCG
* * * *
102520276 A-TGAATGATCGCATGGTTGCTTGATGACCGTGGATCCACTG
1 ATTG-AGGATCGCATGGTTGCTTGACGAACGTGGATCCACCG
* *
102520317 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGAACGTGGATCCACCG
102520358 AT
1 AT
102520360 GGGTTTTAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.04
41 101 0.94
42 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGAACGTGGATCCACCG
Found at i:102520340 original size:82 final size:82
Alignment explanation
Indices: 102520200--102520360 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 82
102520190 AAGAATTGAG
* * *
102520200 GATCGCATAGTTGCTTGATGAACGTGGATCCACCGATTGAGAATCGCATGGTTTCTTGACGACTG
1 GATCGCATAGTTGCTTGATGAACGTGGATCCACCGATTAAGAATCGCATGGTTGCTTGACGACCG
102520265 TGGATCCACCGATGAAT
66 TGGATCCACCGATGAAT
* * * *
102520282 GATCGCATGGTTGCTTGATGACCGTGGATCCACTGATTAAGGATCGCATGGTTGCTTGACGACCG
1 GATCGCATAGTTGCTTGATGAACGTGGATCCACCGATTAAGAATCGCATGGTTGCTTGACGACCG
102520347 TGGATCCACCGATG
66 TGGATCCACCGATG
102520361 GGTTTTAAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (82 bp):
GATCGCATAGTTGCTTGATGAACGTGGATCCACCGATTAAGAATCGCATGGTTGCTTGACGACCG
TGGATCCACCGATGAAT
Found at i:102522384 original size:20 final size:22
Alignment explanation
Indices: 102522334--102522384 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
102522324 GAATATAGAA
* *
102522334 ATTGTATGCTTGTGTGGTAAAT
1 ATTGTTTGCTTCTGTGGTAAAT
102522356 ATTTGTTTGCTTCTGTGGT-AAT
1 A-TTGTTTGCTTCTGTGGTAAAT
102522378 A-TGTTTG
1 ATTGTTTG
102522385 GTTGGGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
22 5 0.19
23 15 0.58
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.51
Consensus pattern (22 bp):
ATTGTTTGCTTCTGTGGTAAAT
Found at i:102522571 original size:15 final size:15
Alignment explanation
Indices: 102522553--102522590 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
102522543 TGCCCCGAAT
102522553 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
102522568 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
102522583 TTGGGCCT
1 TTGGGCCT
102522591 TGAGTATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:102524842 original size:39 final size:40
Alignment explanation
Indices: 102524696--102524858 Score: 181
Period size: 40 Copynumber: 4.1 Consensus size: 40
102524686 CAAAATTTAA
* * *
102524696 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACCAATGCCTTCGGGACTTAGC
* *
102524736 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
* *
102524776 CCGGATATAATAACTCGGA-CAATTGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACCAA-TGCCTTCGGGACTTAGC
* * *
102524815 CCGGA-ATTAGTCACTAGCACCAATGCCTTCTGGACTTAGC
1 CCGGATA-TAGTAACTCGCACCAATGCCTTCGGGACTTAGC
102524855 CCGG
1 CCGG
102524859 TTATCATCCG
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.30
40 73 0.70
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
Found at i:102525450 original size:21 final size:21
Alignment explanation
Indices: 102525426--102525465 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
102525416 ACATATAAAT
*
102525426 TGCA-TACATTTTACTAACTAA
1 TGCATTACATATTA-TAACTAA
102525447 TGCATTACATATTATAACT
1 TGCATTACATATTATAACT
102525466 CAATACGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (21 bp):
TGCATTACATATTATAACTAA
Found at i:102526907 original size:27 final size:27
Alignment explanation
Indices: 102526868--102526945 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
102526858 TTCATATCTG
* *
102526868 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* * *
102526895 TAGGGTAGAATTACTAAAATGCCGCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
*
102526922 TAGGGTAGAATTATTGAAATACCC
1 TAGGGTAGAATTACTGAAATACCC
102526946 TTGGTTTACA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:102526973 original size:26 final size:27
Alignment explanation
Indices: 102526930--102527003 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
102526920 TATAGGGTAG
* *
102526930 AATTATTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTATACAA
102526957 AATTACTG-AATACCCTTGGTATACAA
1 AATTACTGAAATACCCTTGGTATACAA
** *
102526983 AATTACCAAAATACCCCTGGT
1 AATTACTGAAATACCCTTGGT
102527004 TTGTAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 23 0.56
27 18 0.44
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTATACAA
Found at i:102527303 original size:27 final size:27
Alignment explanation
Indices: 102526938--102527303 Score: 220
Period size: 27 Copynumber: 13.6 Consensus size: 27
102526928 AGAATTATTG
* * *
102526938 AAATACCCTTGGTTTACAAAATTA-CT
1 AAATACCCTTGATTTGCAAAATTACCA
* * * *
102526964 GAATACCCTTGGTATACAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* * * *
102526991 AAATACCCCTGGTTTGTAAAATTATCA
1 AAATACCCTTGATTTGCAAAATTACCA
* * *** * *
102527018 AAATACCCCTAATTTTTGAAATTGCTA
1 AAATACCCTTGATTTGCAAAATTACCA
* ** * *
102527045 AAATACCCTCGACCTGTAAAATTACCG
1 AAATACCCTTGATTTGCAAAATTACCA
** * * * *
102527072 AAATACCCACGACTTGTAAAATTATCG
1 AAATACCCTTGATTTGCAAAATTACCA
* *
102527099 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* * * *
102527126 AAATACCCCTAATTTGGAAAATTA-TA
1 AAATACCCTTGATTTGCAAAATTACCA
* **
102527152 GAAATA-CCTCTGATTTACAAAATTACTG
1 -AAATACCCT-TGATTTGCAAAATTACCA
* * *
102527180 AAATACCCTTGATTTGGAAAGTTACAA
1 AAATACCCTTGATTTGCAAAATTACCA
* * *
102527207 AAATACCC-TAATTTACAAAATTACAA
1 AAATACCCTTGATTTGCAAAATTACCA
*
102527233 AAATACCCTTGACTTT-CAAAAATTACAA
1 AAATACCCTTGA-TTTGC-AAAATTACCA
* * *
102527261 AAATACCATTGGTTTGCAAAATTACCG
1 AAATACCCTTGATTTGCAAAATTACCA
*
102527288 AAATACCCTTGGTTTG
1 AAATACCCTTGATTTG
102527304 TGGATTTACC
Statistics
Matches: 273, Mismatches: 58, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
26 47 0.17
27 198 0.73
28 28 0.10
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGATTTGCAAAATTACCA
Found at i:102529774 original size:35 final size:35
Alignment explanation
Indices: 102529734--102529892 Score: 167
Period size: 35 Copynumber: 4.5 Consensus size: 35
102529724 GTATTTACAT
102529734 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
102529769 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
102529804 ATGTGAT-ATTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGA-TATATTGAACTTGTATATTTGGCCAC
* ** *
102529839 ATATGATGATATATTTTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
102529874 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
102529893 CTTAAGTATT
Statistics
Matches: 96, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
35 95 0.99
36 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:102531323 original size:16 final size:16
Alignment explanation
Indices: 102531302--102531333 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
102531292 AATGAGTTAA
102531302 TTTTGAATACATGTAG
1 TTTTGAATACATGTAG
102531318 TTTTGAATACATGTAG
1 TTTTGAATACATGTAG
102531334 ATTAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTTGAATACATGTAG
Found at i:102533354 original size:27 final size:27
Alignment explanation
Indices: 102533319--102533658 Score: 671
Period size: 27 Copynumber: 12.6 Consensus size: 27
102533309 GGGTTTAAAT
*
102533319 TATGCAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533346 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533373 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533400 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533427 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533454 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533481 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533508 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533535 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533562 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533589 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533616 TATGTAGCACTAAGTGTGCGAATTGAC
1 TATGTAGCACTAAGTGTGCGAATTGAC
102533643 TATGTAGCACTAAGTG
1 TATGTAGCACTAAGTG
102533659 GGAATGTGAA
Statistics
Matches: 312, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 312 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (27 bp):
TATGTAGCACTAAGTGTGCGAATTGAC
Found at i:102551489 original size:28 final size:28
Alignment explanation
Indices: 102551426--102551579 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
102551416 ATATTAAGTC
* * *
102551426 CGCACACTCAGTGCTATATTATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
102551453 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
102551481 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
102551509 CACACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
102551537 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
102551565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
102551580 GTACAATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 21 0.17
28 99 0.82
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:102551521 original size:56 final size:56
Alignment explanation
Indices: 102551426--102551604 Score: 252
Period size: 56 Copynumber: 3.2 Consensus size: 56
102551416 ATATTAAGTC
* * *
102551426 CGCACACTCAGTGCTATATTATCAA-CTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
* * *
102551481 CGCACACTTAGTGCTACATAATCAAGCTCACACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * *
102551537 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAA-TCAAACT
102551594 CGCACACTTAG
1 CGCACACTTAG
102551605 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 22 0.20
56 72 0.66
57 15 0.14
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:102556295 original size:40 final size:40
Alignment explanation
Indices: 102556206--102556469 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
102556196 TTGAATGCTG
* *
102556206 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
102556245 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
102556285 TCCGGGCTAAG-CCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
102556324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
102556364 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
102556404 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
102556445 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
102556470 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 52 0.26
40 140 0.69
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:102556487 original size:120 final size:118
Alignment explanation
Indices: 102556206--102556502 Score: 320
Period size: 119 Copynumber: 2.5 Consensus size: 118
102556196 TTGAATGCTG
* *
102556206 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
102556266 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGACATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGACATTTGTGCGAATTACTAAA
* ** * *
102556324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * * *
102556389 GTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGACATTTGTGCGAATTACTA-AA
* * *
102556445 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
102556503 TACGTGATTT
Statistics
Matches: 151, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
118 23 0.15
119 63 0.42
120 63 0.42
121 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGACATTTGTGCGAATTACTAAA
Found at i:102562909 original size:66 final size:66
Alignment explanation
Indices: 102562803--102562933 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
102562793 TTTGTCATTG
*
102562803 GTGTGGCTATCATCGAGAACCCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAGGAAGCTC
1 GTGTGGCTATCATCGAGAACCCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAAGAAGCTC
102562868 T
66 T
102562869 GTGTGGCTATCATCGAGAACCCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAAGAAGCTC
1 GTGTGGCTATCATCGAGAACCCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAAGAAGCTC
102562934 CGAACTTCGG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (66 bp):
GTGTGGCTATCATCGAGAACCCTTTTACAAATCGTCGGTAATAACCGGCGAGCCCCAAGAAGCTC
T
Found at i:102568113 original size:137 final size:137
Alignment explanation
Indices: 102567867--102568119 Score: 479
Period size: 137 Copynumber: 1.8 Consensus size: 137
102567857 ATGACAGCTA
*
102567867 ATTATTTTTATGACTCGGTTTAGCAGTCCCGAAACCCCTTCCCGACTAGGGTCAATTTTGGGCTG
1 ATTATTTTTATGACTCGGTTTAGCAGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTG
*
102567932 TCACAACTCTCCCCCACTCAAGAAATTTTCGTCCCTGAAAATCTTACCGGTAAATAGGTTTGGGT
66 TCACAACTCTCCCCCACTCAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGT
102567997 ATCACTG
131 ATCACTG
102568004 ATTATTTTTATGACTCGGTTTAGCAGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTG
1 ATTATTTTTATGACTCGGTTTAGCAGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTG
*
102568069 TCACAACTCTCCCTCACTCAAGAAATTTTCGTCCCCGAAAATCTTACCGGT
66 TCACAACTCTCCCCCACTCAAGAAATTTTCGTCCCCGAAAATCTTACCGGT
102568120 GTAATTATTT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 113 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (137 bp):
ATTATTTTTATGACTCGGTTTAGCAGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTG
TCACAACTCTCCCCCACTCAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGT
ATCACTG
Found at i:102573063 original size:26 final size:25
Alignment explanation
Indices: 102573024--102573117 Score: 109
Period size: 25 Copynumber: 3.6 Consensus size: 25
102573014 CCCTAATTGA
*
102573024 TAAAATGTCTTTTTTGCCCTTGTGG
1 TAAAATGACTTTTTTGCCCTTGTGG
*
102573049 TAAAATGACTGTTTTT-CCCTTATGTG
1 TAAAATGACT-TTTTTGCCCTTGTG-G
*
102573075 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTTTTTTGCCC-T-TGTGG
*
102573102 TAAAATGACTATTTTG
1 TAAAATGACTTTTTTG
102573118 TGCTTATATG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
25 20 0.33
26 19 0.32
27 18 0.30
28 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (25 bp):
TAAAATGACTTTTTTGCCCTTGTGG
Found at i:102573074 original size:27 final size:27
Alignment explanation
Indices: 102573024--102573153 Score: 128
Period size: 27 Copynumber: 5.0 Consensus size: 27
102573014 CCCTAATTGA
*
102573024 TAAAATGTCT-TTTTTGCCC-T-TGTGG
1 TAAAATGACTATTTTT-CCCTTATGTGG
*
102573049 TAAAATGACTGTTTTTCCCTTATGT-G
1 TAAAATGACTATTTTTCCCTTATGTGG
*
102573075 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTTCCCTTATGTGG
* *
102573102 TAAAATGACTATTTTGT-GCTTATATGG
1 TAAAATGACTATTTT-TCCCTTATGTGG
* * *
102573129 TAAGATAACTATTTTGCCC-TATGTG
1 TAAAATGACTATTTTTCCCTTATGTG
102573154 ATGTATATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.14
26 35 0.40
27 41 0.47
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTTTTCCCTTATGTGG
Found at i:102573124 original size:53 final size:53
Alignment explanation
Indices: 102573024--102573153 Score: 158
Period size: 53 Copynumber: 2.5 Consensus size: 53
102573014 CCCTAATTGA
* * * *
102573024 TAAAATGTCTTTTTTGCCCT-TGTGGTAAAATGACTGTTTTTCCCTTATGT-G
1 TAAAATGACTATTTTGCCCTATGTGGTAAAATGACTATTTTTCCCTTATATGG
*
102573075 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGT-GCTTATATGG
1 TAAAATGACTATTTTGCCC-TATGTGGTAAAATGACTATTTT-TCCCTTATATGG
* *
102573129 TAAGATAACTATTTTGCCCTATGTG
1 TAAAATGACTATTTTGCCCTATGTG
102573154 ATGTATATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
51 17 0.25
52 1 0.01
53 31 0.46
54 19 0.28
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (53 bp):
TAAAATGACTATTTTGCCCTATGTGGTAAAATGACTATTTTTCCCTTATATGG
Found at i:102589145 original size:18 final size:18
Alignment explanation
Indices: 102589122--102589158 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
102589112 TAGTGTGTCT
102589122 CACACGGCCAAAGACACA
1 CACACGGCCAAAGACACA
102589140 CACACGGCCAAAGACACA
1 CACACGGCCAAAGACACA
102589158 C
1 C
102589159 TCGTGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.41, G:0.16, T:0.00
Consensus pattern (18 bp):
CACACGGCCAAAGACACA
Found at i:102591657 original size:18 final size:17
Alignment explanation
Indices: 102591630--102591696 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
102591620 CAAATTTATA
*
102591630 TTTTTCTTTTCTTTTCT
1 TTTTTCTTTTCTCTTCT
102591647 TTTTTCATTTTCTCTTCT
1 TTTTTC-TTTTCTCTTCT
* *
102591665 TCTAT-TTTTCTTCTTCTT
1 TTTTTCTTTTC-TCTTC-T
102591683 GTTTTTCTTTTCTC
1 -TTTTTCTTTTCTC
102591697 CCCTATAGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 14 0.35
19 5 0.12
20 5 0.12
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTCTCTTCT
Found at i:102591678 original size:14 final size:13
Alignment explanation
Indices: 102591628--102591695 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 13
102591618 TGCAAATTTA
102591628 TATTTTTCTTTTC
1 TATTTTTCTTTTC
102591641 T-TTTCTT-TTTTC
1 TATTT-TTCTTTTC
102591653 -ATTTTCTCTTCTTC
1 TATTTT-TCTT-TTC
102591667 TATTTTTCTTCTTC
1 TATTTTTCTT-TTC
*
102591681 TTGTTTTTCTTTTC
1 -TATTTTTCTTTTC
102591695 T
1 T
102591696 CCCCTATAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
11 1 0.02
12 12 0.26
13 6 0.13
14 14 0.30
15 14 0.30
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (13 bp):
TATTTTTCTTTTC
Found at i:102599959 original size:40 final size:40
Alignment explanation
Indices: 102599817--102599944 Score: 215
Period size: 40 Copynumber: 3.2 Consensus size: 40
102599807 ATATATTATA
102599817 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
*
102599857 TATATCCGGGTCAAATCTCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* *
102599897 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
102599935 TATATCCGGG
1 TATATCCGGG
102599945 CTTAAAGTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
38 10 0.12
39 2 0.02
40 72 0.86
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:102605660 original size:22 final size:22
Alignment explanation
Indices: 102605588--102605662 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
102605578 TTCCACATCC
*
102605588 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
** * *
102605610 ATCACATATATACACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
102605634 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
102605657 ATCACA
1 ATCACA
102605663 CATACACATG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:102605738 original size:49 final size:48
Alignment explanation
Indices: 102605560--102606606 Score: 1285
Period size: 49 Copynumber: 21.7 Consensus size: 48
102605550 CCCTTCGAGA
* * ***
102605560 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTC-GC
***
102605607 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTC-GC
* * ****
102605654 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATCAACCATTC-GC
***
102605701 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTC-GC
* * ****
102605750 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATCAACCATTC-GC
102605797 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102605846 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102605895 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102605944 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102605993 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606042 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606091 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606140 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606189 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606238 CTTATCACATATATATACACTTTCACATTCATCACATCAACCACATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAA-C-CATTC-GC
***
102606289 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTC-GC
* * ***
102606336 CTTATCTCAT-T-TATGCA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATCAACCATTC-GC
* * ****
102606383 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATCAACCATTC-GC
*
102606430 CTTATCACATATATATACACTTTCACATTCATCACA-CATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCA---ACCATTC-GC
** * *
102606481 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606528 CTTATCAC--ATATATACACTTTCACATTCATCACATCAACCATTACGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAACCATT-CGC
102606575 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
102606607 TCAAATATAC
Statistics
Matches: 926, Mismatches: 45, Indels: 56
0.90 0.04 0.05
Matches are distributed among these distances:
46 4 0.00
47 283 0.31
48 2 0.00
49 599 0.65
50 7 0.01
51 31 0.03
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (48 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCAACCATTCGC
Done.