Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 103 of 204
Found at i:31475104 original size:18 final size:19
Alignment explanation
Indices: 31475081--31475122 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
31475071 TTAGAAATTA
*
31475081 TTTTTATCAT-ACTAATAT
1 TTTTTATAATAACTAATAT
*
31475099 TTTTTATAATAATTAATAT
1 TTTTTATAATAACTAATAT
31475118 TTTTT
1 TTTTT
31475123 TTAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATAATAACTAATAT
Found at i:31476275 original size:25 final size:23
Alignment explanation
Indices: 31476229--31476280 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
31476219 CTTCTTTCCC
31476229 TTTTCCCCTTTATTTTCCTCTCA
1 TTTTCCCCTTTATTTTCCTCTCA
* *
31476252 TTTTCCCTCTTATCTTTTTCTCTCA
1 TTTTCCC-CTT-TATTTTCCTCTCA
31476277 TTTT
1 TTTT
31476281 TCTCCTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 3 0.12
25 15 0.60
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTCCCCTTTATTTTCCTCTCA
Found at i:31487562 original size:18 final size:18
Alignment explanation
Indices: 31487526--31487564 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31487516 CACATCTCTC
*
31487526 TCTCTCTTTCAATCACTT
1 TCTCTCTTCCAATCACTT
* *
31487544 TCTCTCTTCCATTCCCTT
1 TCTCTCTTCCAATCACTT
31487562 TCT
1 TCT
31487565 TATTTTCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCTTCCAATCACTT
Found at i:31497517 original size:15 final size:16
Alignment explanation
Indices: 31497497--31497526 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31497487 TAATAACTAA
31497497 TATATAAT-TATATTT
1 TATATAATATATATTT
31497512 TATATAATATATATT
1 TATATAATATATATT
31497527 AATCGTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:31500150 original size:14 final size:13
Alignment explanation
Indices: 31500102--31500151 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
31500092 ACTGGTCATA
31500102 GAGAGA-ATTGAG
1 GAGAGATATTGAG
* *
31500114 GAGGGATATT-TG
1 GAGAGATATTGAG
31500126 GAGAGAT-TTGAG
1 GAGAGATATTGAG
31500138 GAGAGAATATTGAG
1 GAGAG-ATATTGAG
31500152 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 18 0.60
13 5 0.17
14 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (13 bp):
GAGAGATATTGAG
Found at i:31501296 original size:27 final size:27
Alignment explanation
Indices: 31501278--31501436 Score: 205
Period size: 27 Copynumber: 5.9 Consensus size: 27
31501268 AAAATGATAT
* *
31501278 AAATACCCCTATAGGGTAAAATAATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
31501305 AAATA-CCCTCATAAGGTAAAATAACGG
1 AAATACCCCT-ATAGGGTAAAATGACCG
*
31501332 AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
31501359 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
*
31501386 AAATACCCC-ATAAGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
31501412 AAATACCTCTATAGGGTAAAATGAC
1 AAATACCCCTATAGGGTAAAATGAC
31501437 TTTTATACCC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
26 27 0.23
27 85 0.74
28 3 0.03
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:31501463 original size:80 final size:81
Alignment explanation
Indices: 31501278--31501436 Score: 241
Period size: 80 Copynumber: 2.0 Consensus size: 81
31501268 AAAATGATAT
* * * * *
31501278 AAATACCCCTATAGGGTAAAATAATCGAAATACCCTCATAAGGTAAAATAACGGAAATACCCTTA
1 AAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAAGGTAAAATAACCGAAATACCCTTA
31501343 TAGGGTAAAATGACCG
66 TAGGGTAAAATGACCG
*
31501359 AAATACCCCCATAGGGTAAAATGACCAAAATACCC-CATAAGGTAAAATGACCGAAATA-CCTCT
1 AAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAAGGTAAAATAACCGAAATACCCT-T
31501422 ATAGGGTAAAATGAC
65 ATAGGGTAAAATGAC
31501437 TTTTATACCC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.04
80 37 0.52
81 31 0.44
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (81 bp):
AAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAAGGTAAAATAACCGAAATACCCTTA
TAGGGTAAAATGACCG
Found at i:31510063 original size:21 final size:23
Alignment explanation
Indices: 31510038--31510080 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
31510028 ATAAATTATT
31510038 AAAAA-TATAAAAA-ATATAAAG
1 AAAAATTATAAAAATATATAAAG
*
31510059 AAAAATTCTAAAAATATATAAA
1 AAAAATTATAAAAATATATAAA
31510081 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAATTATAAAAATATATAAAG
Found at i:31511693 original size:2 final size:2
Alignment explanation
Indices: 31511686--31511720 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31511676 AGATTCCTGC
31511686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31511721 AGGTAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31512287 original size:16 final size:17
Alignment explanation
Indices: 31512261--31512293 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
31512251 TAAGATTAAT
31512261 TTTTCTTTAAAAATATA
1 TTTTCTTTAAAAATATA
31512278 TTTT-TTTAAAAATATA
1 TTTTCTTTAAAAATATA
31512294 ATGCACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTCTTTAAAAATATA
Found at i:31517735 original size:3 final size:3
Alignment explanation
Indices: 31517727--31517765 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
31517717 ATTTCTAGAG
*
31517727 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31517766 CTATTGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:31520462 original size:25 final size:25
Alignment explanation
Indices: 31520434--31520501 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
31520424 CGTTCCGACC
* *
31520434 CACAACTTGTGTGAGCATTCTTATT
1 CACAACTCGTGTGAGCATTCTAATT
*
31520459 CACAGCTCGTGTGAGCATTCTAATT
1 CACAACTCGTGTGAGCATTCTAATT
31520484 CACAACTCGTGTGAGCAT
1 CACAACTCGTGTGAGCAT
31520502 ACAGGTACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
CACAACTCGTGTGAGCATTCTAATT
Found at i:31521168 original size:15 final size:16
Alignment explanation
Indices: 31521142--31521171 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31521132 TAAGCTAAAA
31521142 AAAGTAAATGAAATGG
1 AAAGTAAATGAAATGG
31521158 AAAGT-AATGAAATG
1 AAAGTAAATGAAATG
31521172 CAAATGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (16 bp):
AAAGTAAATGAAATGG
Found at i:31521190 original size:20 final size:20
Alignment explanation
Indices: 31521147--31521188 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
31521137 TAAAAAAAGT
31521147 AAATGAAATGGAAAGTAATG
1 AAATGAAATGGAAAGTAATG
31521167 AAATGCAAAT-GAAAGTAA-G
1 AAATG-AAATGGAAAGTAATG
31521186 AAA
1 AAA
31521189 ATTTGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGAAATGGAAAGTAATG
Found at i:31521658 original size:15 final size:16
Alignment explanation
Indices: 31521638--31521667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31521628 TGGTGCCTTG
31521638 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
31521653 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
31521668 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:31522688 original size:88 final size:88
Alignment explanation
Indices: 31522537--31522720 Score: 323
Period size: 88 Copynumber: 2.1 Consensus size: 88
31522527 CAGCCGTGTA
* * *
31522537 TGACACACGGCTAGGCGACACAGCCATGTGTCCCTTGTAGCTTTCTGATGGTTGCAAGCCAGGCA
1 TGACACACGGCTAGGCAACACAACCATGTGTCCCTTGTAGCTTTCTGATGATTGCAAGCCAGGCA
31522602 GTTACACGGCCTAGCACACGGTC
66 GTTACACGGCCTAGCACACGGTC
*
31522625 TGACACACGGCTAGGCAACACAACCATGTGTCCCTTGTAGCTTTCTGATGATTGCAAGTCAGGCA
1 TGACACACGGCTAGGCAACACAACCATGTGTCCCTTGTAGCTTTCTGATGATTGCAAGCCAGGCA
*
31522690 GTTACACGGCCTAGCACATGGTC
66 GTTACACGGCCTAGCACACGGTC
31522713 TGACACAC
1 TGACACAC
31522721 AGGCATGTGA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (88 bp):
TGACACACGGCTAGGCAACACAACCATGTGTCCCTTGTAGCTTTCTGATGATTGCAAGCCAGGCA
GTTACACGGCCTAGCACACGGTC
Found at i:31524288 original size:15 final size:15
Alignment explanation
Indices: 31524268--31524299 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31524258 CATTTCACTA
*
31524268 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
31524283 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
31524298 TT
1 TT
31524300 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:31528046 original size:19 final size:19
Alignment explanation
Indices: 31528018--31528055 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31528008 AAAGTTAATA
*
31528018 ACAAACTTGATTACGGTGG
1 ACAAACTTGATTACAGTGG
*
31528037 ACAAATTTGATTACAGTGG
1 ACAAACTTGATTACAGTGG
31528056 GTGACAGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (19 bp):
ACAAACTTGATTACAGTGG
Found at i:31530337 original size:23 final size:22
Alignment explanation
Indices: 31530294--31530337 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31530284 TTCTAAGTCG
31530294 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
31530317 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
31530338 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:31530494 original size:51 final size:52
Alignment explanation
Indices: 31530436--31530571 Score: 188
Period size: 50 Copynumber: 2.7 Consensus size: 52
31530426 TCGGTTCACA
*
31530436 TAGTAGCCTGCACATAGTACTACACATGTAACCATTACCA-TCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
* * * *
31530487 TAGTAGCCTACACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
* *
31530537 TAGTGGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
31530572 CACTTTCACT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 4 0.05
50 39 0.53
51 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATACACG
Found at i:31530554 original size:50 final size:50
Alignment explanation
Indices: 31530427--31530562 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 50
31530417 CAATGATGTT
* * *
31530427 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCAACCA-TACCATC
* * * *
31530478 CGATACACGTAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCAACCATACCA-TC
*
31530528 CGGTACACGTAGTGGCCTGCACATAGTACTACACA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
31530563 CGTGACCATC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
49 4 0.05
50 34 0.46
51 36 0.49
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCAACCATACCATC
Found at i:31533919 original size:48 final size:48
Alignment explanation
Indices: 31533858--31533960 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
31533848 AATACCTTTT
* *
31533858 AGGATTTGGTCCAAATCCAAACCACCCTATAGACACATCCTTTATTTG
1 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATCTG
31533906 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATCTG
1 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATCTG
31533954 AGGATTT
1 AGGATTT
31533961 AGCTATTGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATCTG
Found at i:31536880 original size:25 final size:27
Alignment explanation
Indices: 31536837--31536889 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
31536827 TTTTTTTATC
*
31536837 ATATTTTATTATTTGTAC-TG-TTAAA
1 ATATTTTATTATTTATACTTGCTTAAA
31536862 ATATTTT-TTATTATATACTTGCTTAAA
1 ATATTTTATTATT-TATACTTGCTTAAA
31536889 A
1 A
31536890 ATTCATACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 2 0.08
27 6 0.25
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (27 bp):
ATATTTTATTATTTATACTTGCTTAAA
Found at i:31537014 original size:36 final size:37
Alignment explanation
Indices: 31536962--31537034 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
31536952 TTTGTAATTA
31536962 AAATAAAATATATTATTCAAAAATATTTTAAT-TTTT
1 AAATAAAATATATTATTCAAAAATATTTTAATATTTT
* * *
31536998 AAATAAATTATTTTATTCAAAGATATTTTAATATTTT
1 AAATAAAATATATTATTCAAAAATATTTTAATATTTT
31537035 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
AAATAAAATATATTATTCAAAAATATTTTAATATTTT
Found at i:31538335 original size:4 final size:4
Alignment explanation
Indices: 31538321--31538363 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
31538311 GTTTAAAGAG
* *
31538321 AAAT CAAAT AAAT AAAT AAAT AAAT AAAT TATT AAAT AGAAT A
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT A
31538364 TTAAGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 25 0.76
5 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:31539276 original size:23 final size:24
Alignment explanation
Indices: 31539250--31539296 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31539240 GCTAGGGTTT
31539250 CTGTTA-AGTGTTTAGGTTTTGGG
1 CTGTTAGAGTGTTTAGGTTTTGGG
* *
31539273 CTGTTAGAGTTTTTAGTTTTTGGG
1 CTGTTAGAGTGTTTAGGTTTTGGG
31539297 GCTTGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.13, C:0.04, G:0.32, T:0.51
Consensus pattern (24 bp):
CTGTTAGAGTGTTTAGGTTTTGGG
Found at i:31539774 original size:44 final size:44
Alignment explanation
Indices: 31539570--31540103 Score: 310
Period size: 44 Copynumber: 11.9 Consensus size: 44
31539560 GAAATGGTGT
* * * *
31539570 TTCGATCCGCTCCAATGTAATTTCAGGGAG--AAGAGACTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA-TTGTAGC
* * ** * * **
31539614 TTCAATCTACTCTGCTGCAACTTCAAGGAGATAAGAATTGGTAAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGC
* * * **
31539659 TTC-AACTCGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATAT
1 TTCGATCT-GCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-GC
** *
31539704 TTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGC
* * *
31539749 TTCGATCTGCTCCAATGTAATTTCAGGGAG--AAGAGACTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA-TTGTAGC
* * * * **
31539793 TTCGATCTACTCCTCTGCAACTTCAAGGAGATAAGAATTGGTAAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGC
* * ** * * **
31539838 TTCAACCTATTCCACTACAACTTCAGGGAGATAAGGTTTGTATAA
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-GC
** * *
31539883 TTTTATCCTGCTCCACTGCAACTTCAGGGGGATAAGGATTGTGGC
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGC
* * * *
31539928 TTCGATCTGCTCCAATGTAATTTCAGTGAG--AAGAGATTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA-TTGTAGC
* * * * * *
31539972 TTCGATCTACTCCGCTGCTACTTCAAGGAGATAAGAATTGGTAAC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGC
* * * * * **
31540017 TTCAACCTGCTCCATTACAACTTCAGGGAGAT-ACGATTTGTATA
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGA-TTGTAGC
** *
31540061 TTTTACTCCTGCTCCACTTCAACTTCAGGGAGATAAGGATTGT
1 TTCGA-T-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGT
31540104 GTCTTCAGTC
Statistics
Matches: 369, Mismatches: 98, Indels: 44
0.72 0.19 0.09
Matches are distributed among these distances:
42 6 0.02
43 4 0.01
44 142 0.38
45 113 0.31
46 99 0.27
47 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGC
Found at i:31539870 original size:179 final size:178
Alignment explanation
Indices: 31539570--31540109 Score: 886
Period size: 179 Copynumber: 3.0 Consensus size: 178
31539560 GAAATGGTGT
* *
31539570 TTCGATCCGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCAATCTACT-CTGCTGCAA
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCT-CTGCAA
31539634 CTTCAAGGAGATAAGAATTGGTAATTTCAA-CTCGCTCCACTACAACTTCAGGGAGATAAGGTTT
65 CTTCAAGGAGATAAGAATTGGTAATTTCAACCT-GCTCCACTACAACTTCAGGGAGATAAGGTTT
31539698 GTATATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
129 GTATA-TTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
31539749 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAAC
**
31539814 TTCAAGGAGATAAGAATTGGTAATTTCAACCTATTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
*
31539879 ATAATTTTATCCTGCTCCACTGCAACTTCAGGGGGATAAGGATTGTGGC
131 AT-ATTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * *
31539928 TTCGATCTGCTCCAATGTAATTTCAGTGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGCTAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAAC
* * * *
31539993 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCATTACAACTTCAGGGAGATACGATTTGT
66 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* *
31540058 ATATTTTACTCCTGCTCCACTTCAACTTCAGGGAGATAAGGATTGTGTC
131 ATATTTTA-TCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
31540107 TTC
1 TTC
31540110 AGTCTGTTTC
Statistics
Matches: 339, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
178 6 0.02
179 328 0.97
180 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (178 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAAC
TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
ATATTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
Found at i:31540327 original size:143 final size:143
Alignment explanation
Indices: 31540124--31540582 Score: 684
Period size: 143 Copynumber: 3.2 Consensus size: 143
31540114 TGTTTCGCCG
* *
31540124 CAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
1 CAACTTCAGAAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * *
31540189 GAATAAGATTTGTTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
* *
31540254 ATCTACTCCACAA
131 ATCTGCTCCACTA
* *
31540267 CAACTTCAGGAAGATAAGATCCATCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
1 CAACTTCAGAAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * *
31540332 AAATAAGATTCGCTGTCTTCAATCTGGTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCCTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
31540397 ATCTGCTCCACTA
131 ATCTGCTCCACTA
* * * * *
31540410 CAACTTTAGGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTATTCCACTACAACGCGAGGG
1 CAACTTCAGAAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * *
31540475 AAATAAGATTCACTGTTTTCAGTCTGCTCCGCTACAACTTCAAGGAGATAAGGCTGGTGGCTTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
* *
31540540 ATTTGCTCCACTG
131 ATCTGCTCCACTA
* *
31540553 CAACTTTAGAAAGATAAGATCCGCCATAAT
1 CAACTTCAGAAAGATAAGATCCGTCATAAT
31540583 GACTTCAATC
Statistics
Matches: 286, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 286 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (143 bp):
CAACTTCAGAAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
ATCTGCTCCACTA
Found at i:31546140 original size:4 final size:4
Alignment explanation
Indices: 31546123--31546154 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
31546113 AAAATATTTT
*
31546123 TAAA TAAA TGAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
31546155 CAGTCGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:31547652 original size:179 final size:179
Alignment explanation
Indices: 31547352--31547695 Score: 528
Period size: 179 Copynumber: 1.9 Consensus size: 179
31547342 CGATCCGCTC
* *
31547352 CAATATAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTTTAAGGAGATA
1 CAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTTCAAGGAGATA
* * * ** *
31547417 AGAATTGGTAATTTCAATCTGCTCCACTGTAACTTTAAGGAGATAAGGTTTGTATATTTTTATCC
66 AGAATCGGTAACTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTGTATATTTTTATCC
* * * * *
31547482 CGTTCCAGTGCAACTTTAGGGAGATAAGGATTGTGGCTACGATCTACTT
131 CGCTCCACTACAACTTAAGCGAGATAAGGATTGTGGCTACGATCTACTT
*
31547531 CAATATAATTTCAGAGAGAAGAGATTTGTAGCTTCGATCTACTC-CGCTGCAACTTCAAGGAGAT
1 CAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTC-CTGCAACTTCAAGGAGAT
*
31547595 AAGAATCGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTTATC
65 AAGAATCGGTAACTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTGTATATTTTTATC
*
31547660 CTGCTCCACTACAACTTAAGCGAGATAAGGATTGTG
130 CCGCTCCACTACAACTTAAGCGAGATAAGGATTGTG
31547696 TCTTCAGTCT
Statistics
Matches: 148, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 1 0.01
179 147 0.99
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (179 bp):
CAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTTCAAGGAGATA
AGAATCGGTAACTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTGTATATTTTTATCC
CGCTCCACTACAACTTAAGCGAGATAAGGATTGTGGCTACGATCTACTT
Found at i:31547877 original size:143 final size:142
Alignment explanation
Indices: 31547660--31548314 Score: 868
Period size: 143 Copynumber: 4.6 Consensus size: 142
31547650 TATTTTTATC
* * * * * * * *
31547660 CTGCTCCACTACAACTTAAGCGAGATAAGGATTGTGTCTTCAGTCTGTTCCGCTGCAACTTCAGG
1 CTGCTCCGCTGCAACTTAAG-GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * *
31547725 AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGGAATAAGATT
65 AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * *
31547790 TGTTGTCTTCAGT
130 CGCTGTCTTCAAT
31547803 CTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 CTGCTCCGCTGCAAC-TTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * *
31547868 AAGATAAGATCCACCATAATTTGTAGCTTTAAGCTGTTCCACTGCAACGCCAGGGAAATAAGATT
65 AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
*
31547933 CTCTGTCTTCAAT
130 CGCTGTCTTCAAT
** * * * *
31547946 CTGCTTTGCTGCAACTTCAGGTAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
1 CTGCTCCGCTGCAACTTAAGG-AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * *
31548011 AAGATAAGA-TCTGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGAT
65 AAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
* *
31548075 TCGCTATCTTTAAT
129 TCGCTGTCTTCAAT
* * *
31548089 CTGCTCCGCTGCAA--TCAGAGAGATAAGGCTGGTGGCATCAATCTGCTCCACTGCAACTTCTGG
1 CTGCTCCGCTGCAACTTAAG-GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
31548152 AAGATAAGA-TCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGAT
65 AAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
*
31548216 TCGTTGTCTTCAAT
129 TCGCTGTCTTCAAT
* * *
31548230 CTGCTCCACTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 CTGCTCCGCTGCAACTT-AAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* *
31548295 AAGATAAGATCCGTCATAAT
65 AAGATAAGATTCGCCATAAT
31548315 GACTTCAATC
Statistics
Matches: 450, Mismatches: 54, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
141 126 0.28
142 7 0.02
143 310 0.69
144 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
CTGCTCCGCTGCAACTTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
AGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTC
GCTGTCTTCAAT
Found at i:31548201 original size:284 final size:285
Alignment explanation
Indices: 31547660--31548314 Score: 922
Period size: 284 Copynumber: 2.3 Consensus size: 285
31547650 TATTTTTATC
* * *** * * * * * *
31547660 CTGCTCCACTACAACTTAAGCGAGATAAGGATTGTGTCTTCAGTCTGTTCCGCTGCAACTTCAGG
1 CTGCTCCACTACAACTTCAGGGAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
* * *
31547725 AAGATAAGAT-TCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGGAATAAGAT
66 AAGATAAGATCT-GTCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCCAAGGAAATAAGAT
* * * * * *
31547789 TTGTTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCC
130 TCGCTATCTTCAATCTGCTCCGCTGCAAC-TCAAGGAGATAAGGCTGGTGGCATCAATCTGCTCC
31547854 ACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAAGCTGTTCCACTGCAACGCC
194 ACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAAGCTGTTCCACTGCAACGCC
31547919 AGGGAAATAAGATTC-TCTGTCTTCAAT
259 AGGGAAATAAGATTCGT-TGTCTTCAAT
*** * *
31547946 CTGCTTTGCTGCAACTTCAGGTAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
1 CTGCTCCACTACAACTTCAGGGAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
*
31548011 AAGATAAGATCTGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATT
66 AAGATAAGATCTGTCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCCAAGGAAATAAGATT
*
31548076 CGCTATCTTTAATCTGCTCCGCTGCAA-TC-AGAGAGATAAGGCTGGTGGCATCAATCTGCTCCA
131 CGCTATCTTCAATCTGCTCCGCTGCAACTCAAG-GAGATAAGGCTGGTGGCATCAATCTGCTCCA
* ** * *
31548139 CTGCAACTTCTGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTA
195 CTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAAGCTGTTCCACTGCAACGCCA
31548204 GGGAAATAAGATTCGTTGTCTTCAAT
260 GGGAAATAAGATTCGTTGTCTTCAAT
* * *
31548230 CTGCTCCACTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 CTGCTCCACTACAACTTCAGGGAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
*
31548295 AAGATAAGATCCGTCATAAT
66 AAGATAAGATCTGTCATAAT
31548315 GACTTCAATC
Statistics
Matches: 325, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
283 2 0.01
284 191 0.59
285 1 0.00
286 130 0.40
287 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (285 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGGCCGGTGGCCTCAATCTGCTCCACTACAACTTCAGG
AAGATAAGATCTGTCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCCAAGGAAATAAGATT
CGCTATCTTCAATCTGCTCCGCTGCAACTCAAGGAGATAAGGCTGGTGGCATCAATCTGCTCCAC
TGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAAGCTGTTCCACTGCAACGCCAG
GGAAATAAGATTCGTTGTCTTCAAT
Found at i:31549672 original size:15 final size:13
Alignment explanation
Indices: 31549652--31549709 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 13
31549642 CCGGTAGAGG
31549652 TTTTTGTTTTTCTAT
1 TTTTTGTTTTT-T-T
31549667 TTTTTGTTCTTTGTT
1 TTTTTGTT-TTT-TT
*
31549682 TTTTT-TTTGTTT
1 TTTTTGTTTTTTT
31549694 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
31549707 TTT
1 TTT
31549710 GCCTCCAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.18
13 11 0.29
14 2 0.05
15 14 0.37
16 4 0.11
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.86
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:31549696 original size:9 final size:9
Alignment explanation
Indices: 31549666--31549707 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
31549656 TGTTTTTCTA
31549666 TTTTTTGTT
1 TTTTTTGTT
*
31549675 CTTTGTT-TT
1 -TTTTTTGTT
31549684 TTTTTTGTT
1 TTTTTTGTT
31549693 TTTTTTGTT
1 TTTTTTGTT
31549702 TTTTTT
1 TTTTTT
31549708 TTGCCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:31549696 original size:27 final size:27
Alignment explanation
Indices: 31549652--31549710 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
31549642 CCGGTAGAGG
31549652 TTTTTGTTTTTCTATTTTTTGTTCTTTG
1 TTTTTGTTTTTCTATTTTTTGTT-TTTG
* *
31549680 TTTTT-TTTTTGTTTTTTTTGTTTTT-
1 TTTTTGTTTTTCTATTTTTTGTTTTTG
31549705 TTTTTG
1 TTTTTG
31549711 CCTCCAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.18
26 3 0.11
27 15 0.54
28 5 0.18
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (27 bp):
TTTTTGTTTTTCTATTTTTTGTTTTTG
Found at i:31553506 original size:22 final size:22
Alignment explanation
Indices: 31553472--31553516 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
31553462 AGTAAAACGT
*
31553472 TTTATAATAATTAATTTAAAAAA
1 TTTATAATAATTAA-ATAAAAAA
31553495 TTTAT-ATAATTAAATAAAAAA
1 TTTATAATAATTAAATAAAAAA
31553516 T
1 T
31553517 AAAAATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTATAATAATTAAATAAAAAA
Found at i:31555802 original size:16 final size:14
Alignment explanation
Indices: 31555781--31555816 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
31555771 GTATACATCC
31555781 TTTTAAGTTAACTAT
1 TTTTAAGTTAA-TAT
31555796 TTGTTAAGTTAATAT
1 TT-TTAAGTTAATAT
31555811 TTTTAA
1 TTTTAA
31555817 AATTTTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TTTTAAGTTAATAT
Found at i:31557158 original size:16 final size:16
Alignment explanation
Indices: 31557123--31557156 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31557113 TTAAAATTAT
*
31557123 AAATAATATATATTTG
1 AAATAATATATATTTA
31557139 AAATAATAT-TATTTA
1 AAATAATATATATTTA
31557154 AAA
1 AAA
31557157 ATTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATAATATATATTTA
Found at i:31558519 original size:30 final size:28
Alignment explanation
Indices: 31558461--31558538 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 28
31558451 AAAAGGGTAC
* * *
31558461 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
31558488 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
*
31558518 AAAGATAAT-TACATATATATA
1 AAA-ATTATATACATATATATA
31558539 TAAACAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 4 0.09
28 15 0.35
29 2 0.05
30 18 0.42
31 4 0.09
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:31558701 original size:47 final size:46
Alignment explanation
Indices: 31558634--31558772 Score: 140
Period size: 47 Copynumber: 2.9 Consensus size: 46
31558624 ATATACATAT
31558634 TTAT-CAAAGTAAAAAA-TATATAAAAGTATATATATGTATATAAAAG
1 TTATGCAAA-TAAAAAATTATATAAAA-TATATATATGTATATAAAAG
* * *
31558680 TTA-GGAAATAAAAAATGTATATGTAAATGTATATATGTATATAAAAG
1 TTATGCAAATAAAAAAT-TATAT-AAAATATATATATGTATATAAAAG
* * *
31558727 TTATGCAAATAGAATAATATATATATATATATATATATATATATAA
1 TTATGCAAATA-AAAAAT-TATATA-AAATATATATATGTATATAA
31558773 TATGTGCATG
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
45 7 0.09
46 6 0.08
47 27 0.36
48 9 0.12
49 27 0.36
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.36
Consensus pattern (46 bp):
TTATGCAAATAAAAAATTATATAAAATATATATATGTATATAAAAG
Found at i:31558750 original size:2 final size:2
Alignment explanation
Indices: 31558743--31558775 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31558733 AAATAGAATA
31558743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31558776 GTGCATGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31559227 original size:23 final size:22
Alignment explanation
Indices: 31559184--31559241 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
31559174 AAAGGGTATC
* *
31559184 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
31559205 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
31559228 TGCATATCATATCT
1 TACAAATCATATCT
31559242 AAGATTGCAT
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:31559244 original size:19 final size:20
Alignment explanation
Indices: 31559220--31559267 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
31559210 AATCATATCT
*
31559220 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATAATA
31559239 TCTAAGATTGCATATATAATA
1 TCTAAGATTGCA-ATATAATA
31559260 TCTAAGAT
1 TCTAAGAT
31559268 CATATCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATAATA
Found at i:31560116 original size:44 final size:43
Alignment explanation
Indices: 31560067--31560275 Score: 224
Period size: 44 Copynumber: 4.8 Consensus size: 43
31560057 ATCTGCTATT
* * *
31560067 TTCAACTTACTCCACTGCTG-CTTAGGGAGATATGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATA-GATTCACAATC
* * * *
31560111 TTCAACCAATTCCACTGTTGACCAGGGAGATACGA-CCTACAGTC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA-GATTC-ACAATC
* * * *
31560155 TTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAG-ATTCACAATC
* *
31560199 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCATAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA-GATTCACAATC
*
31560243 TTTAACCTATTCCACTGCTGACCAGGGAGATAG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAG
31560276 GGCTGGGGTT
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.02
44 132 0.96
45 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGATTCACAATC
Found at i:31560435 original size:45 final size:44
Alignment explanation
Indices: 31560380--31560523 Score: 105
Period size: 45 Copynumber: 3.2 Consensus size: 44
31560370 TGCCTTCGAT
*
31560380 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAGC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGA-TTGCTATTTTTAGC
**** * * * * * *
31560425 CTGCTCCGCTG-CAACCCAGGGAGGCAAGGA-TGGT-GTCTTCGAT
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAA-GATTGCTATTTTTAG-C
* * *
31560468 CTGCTTCGTTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGAT-TGCTATTTTTAGC
31560513 CTGCTCCGCTG
1 CTGCTCCGCTG
31560524 CAACCAGGGA
Statistics
Matches: 66, Mismatches: 27, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
42 4 0.06
43 13 0.20
44 22 0.33
45 23 0.35
46 4 0.06
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (44 bp):
CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATTGCTATTTTTAGC
Found at i:31560580 original size:87 final size:88
Alignment explanation
Indices: 31560289--31560592 Score: 475
Period size: 88 Copynumber: 3.5 Consensus size: 88
31560279 TGGGGTTATT
* * * *
31560289 GATCTACTTCACTGTCAGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
1 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCC
* *
31560354 AGGGAGGCAAGGCTAGTGCCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
31560377 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTGCAACCC
1 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCC
*
31560442 AGGGAGGCAAGGATGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
** *
31560465 GATCTGCTTCGTTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAA-CC
1 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCC
31560529 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
31560552 GATCTGCTTCACTGTCGGTGCAGGAAGGCAATATCTACTAT
1 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTAT
31560593 CTTCGATCTA
Statistics
Matches: 198, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
87 60 0.30
88 138 0.70
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCC
AGGGAGGCAAGGCTGGTGTCTTC
Found at i:31560646 original size:44 final size:44
Alignment explanation
Indices: 31560572--31560861 Score: 226
Period size: 44 Copynumber: 6.6 Consensus size: 44
31560562 ACTGTCGGTG
* * * *
31560572 CAGGAAGGCAATATCTACTATCTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * *
31560616 CATGAAGACAAGATTTGCTTTCTTTGATCTACTTCGCCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** * * *
31560661 TGGGAAGACAAAATCTGC-ATCTTCAATCCACTTC-CTACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * **
31560704 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCATGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * *
31560748 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** * * * *
31560793 TGGGAAAACAAGATATGC-ATCTTCGATCCACTTCGCTACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* *
31560837 TAGGAAGACAGGATCTGCTATCTTC
1 CAGGAAGACAAGATCTGCTATCTTC
31560862 ACTGATATGC
Statistics
Matches: 187, Mismatches: 52, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
42 1 0.01
43 21 0.11
44 123 0.66
45 42 0.22
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
Found at i:31560812 original size:132 final size:133
Alignment explanation
Indices: 31560589--31560861 Score: 458
Period size: 132 Copynumber: 2.1 Consensus size: 133
31560579 GCAATATCTA
* * *
31560589 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTTGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCC
* *
31560654 ACCAGTATGGGAAGACAAAATCTGCATCTTCAATCCACTTC-CTACCAATATAGGAAGACAGGAC
66 ACCAGTATGGGAAAACAAAATATGCATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGAC
31560718 CTG
131 CTG
*
31560721 CTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCC
* * *
31560786 ACCAGTATGGGAAAACAAGATATGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
66 ACCAGTATGGGAAAACAAAATATGCATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGAC
31560851 CTG
131 CTG
31560854 CTATCTTC
1 CTATCTTC
31560862 ACTGATATGC
Statistics
Matches: 131, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
132 98 0.75
133 33 0.25
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (133 bp):
CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCC
ACCAGTATGGGAAAACAAAATATGCATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGAC
CTG
Found at i:31566499 original size:10 final size:10
Alignment explanation
Indices: 31566483--31566516 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
31566473 NNNNNNNNGA
31566483 AAATAAAAAT
1 AAATAAAAAT
*
31566493 TAATAAAAAT
1 AAATAAAAAT
31566503 AAATAATAAAT
1 AAATAA-AAAT
31566514 AAA
1 AAA
31566517 AAAGACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:31566516 original size:17 final size:16
Alignment explanation
Indices: 31566482--31566518 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
31566472 NNNNNNNNNG
*
31566482 AAAATAAAAATTAATA
1 AAAATAAAAATAAATA
31566498 AAAATAAATAATAAATA
1 AAAATAAA-AATAAATA
31566515 AAAA
1 AAAA
31566519 AGACTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAAAATAAATA
Found at i:31567262 original size:16 final size:14
Alignment explanation
Indices: 31567221--31567262 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 14
31567211 ATTTCAATTT
31567221 TATTTTAAAAATAA
1 TATTTTAAAAATAA
31567235 T-TTTTAAAAATAA
1 TATTTTAAAAATAA
31567248 TAATTTTAAATAATA
1 T-ATTTTAAA-AATA
31567263 TTCTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 1 0.04
15 7 0.28
16 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:31570849 original size:18 final size:18
Alignment explanation
Indices: 31570821--31570864 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
31570811 AGTGAAATTT
31570821 ATATGAAAAT-CCTAGAAGG
1 ATAT-AAAATCCCT-GAAGG
*
31570840 ATTTAAAATCCCTGAAGG
1 ATATAAAATCCCTGAAGG
31570858 ATATAAA
1 ATATAAA
31570865 GTTTCCAGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCCTGAAGG
Found at i:31572529 original size:14 final size:15
Alignment explanation
Indices: 31572505--31572574 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
31572495 ATATTATTGA
31572505 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
31572518 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
31572533 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
31572552 AAATATATTAATAAT
1 AAATATTTTAATAAT
31572567 AAAT-TTTT
1 AAATATTTT
31572575 TGTAGTATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 4 0.09
14 9 0.20
15 15 0.33
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:31573057 original size:14 final size:14
Alignment explanation
Indices: 31573038--31573064 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31573028 GAAAAGTAAG
31573038 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
31573052 TCATTTTCCAGAA
1 TCATTTTCCAGAA
31573065 GCCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:31573070 original size:14 final size:14
Alignment explanation
Indices: 31573039--31573073 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31573029 AAAAGTAAGT
*
31573039 CATTTTCCAGAAAT
1 CATTTTCCAGAAAC
*
31573053 CATTTTCCAGAAGC
1 CATTTTCCAGAAAC
31573067 CATTTTC
1 CATTTTC
31573074 AGCGAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (14 bp):
CATTTTCCAGAAAC
Found at i:31578009 original size:86 final size:85
Alignment explanation
Indices: 31577913--31578080 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 85
31577903 TAAAAATTAT
* * *
31577913 TTTATAGTTATTTTGTTAATAATTTTTTATTAGCTTATAAATGGTT-GCGCTTGGTTTAGTGTTT
1 TTTATAGTTATTTTGTTAATAATTTATGATTAGCTTATAAATGGTTAGCGCTTAGTTTAGTG-TT
* *
31577977 TTTTTATTTTTTTATTAATTTA
65 TTGTGA-TTTTTTATTAATTTA
* * * * *
31577999 TTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTT
1 TTTATAGTTATTTTGTTAATAATTTATGATTAGCTTATAAATGGTTAGCGCTTAGTTTAGTGTTT
31578064 TGTGATTTTTTATTAAT
66 TGTGATTTTTTATTAAT
31578081 GTAAACTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
85 12 0.17
86 47 0.66
87 12 0.17
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (85 bp):
TTTATAGTTATTTTGTTAATAATTTATGATTAGCTTATAAATGGTTAGCGCTTAGTTTAGTGTTT
TGTGATTTTTTATTAATTTA
Found at i:31578387 original size:26 final size:26
Alignment explanation
Indices: 31578332--31578387 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
31578322 TTTTTATTTT
*
31578332 TTTACTGTATTTTTTGTTACTCACGTA
1 TTTACTGTATTTTTTGTTACTCAC-AA
* *
31578359 TTTACTGTGTTTTTCTGTTTCTCA-AA
1 TTTACTGTATTTTT-TGTTACTCACAA
31578385 TTT
1 TTT
31578388 CAAATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.16, C:0.14, G:0.11, T:0.59
Consensus pattern (26 bp):
TTTACTGTATTTTTTGTTACTCACAA
Found at i:31579500 original size:30 final size:31
Alignment explanation
Indices: 31579461--31579520 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
31579451 GGAGGTGGGA
*
31579461 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
31579492 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
31579521 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:31579739 original size:9 final size:9
Alignment explanation
Indices: 31579725--31579761 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31579715 TATAGTTTGA
31579725 TATTCGAAT
1 TATTCGAAT
31579734 TATTCGAAT
1 TATTCGAAT
*
31579743 TATTCGAGT
1 TATTCGAAT
31579752 TATTCGAAT
1 TATTCGAAT
31579761 T
1 T
31579762 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31579834 original size:9 final size:9
Alignment explanation
Indices: 31579820--31579856 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31579810 TTGATTCAAA
31579820 TAACTCGAT
1 TAACTCGAT
31579829 TAACTCGAT
1 TAACTCGAT
*
31579838 TAACTCGAA
1 TAACTCGAT
31579847 TAACTCGAT
1 TAACTCGAT
31579856 T
1 T
31579857 CGTTTAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (9 bp):
TAACTCGAT
Found at i:31581414 original size:33 final size:32
Alignment explanation
Indices: 31581372--31581524 Score: 146
Period size: 32 Copynumber: 4.7 Consensus size: 32
31581362 CCACTACCAC
* *
31581372 CGCAATACTCCACTTCTCCCGGCCCATATCCAC
1 CGCAGTACTCCACTTCT-CCGGCCCATATCCAT
** * *
31581405 CTTAGTACTCTACTCTTTCCGGCCCATATCCA-
1 CGCAGTACTCCACT-TCTCCGGCCCATATCCAT
** * *
31581437 CTGCAGTACTTTACTTCTCCGGTCCGTATCCAT
1 C-GCAGTACTCCACTTCTCCGGCCCATATCCAT
* *
31581470 CGCAGCACTCCACTTCTCCGGCCCGTATCCAT
1 CGCAGTACTCCACTTCTCCGGCCCATATCCAT
*
31581502 CGCAGCACTCCACTTCTCTCGGC
1 CGCAGTACTCCACTTCTC-CGGC
31581525 TCAAGCTCAT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
32 60 0.59
33 39 0.39
34 2 0.02
ACGTcount: A:0.17, C:0.42, G:0.13, T:0.27
Consensus pattern (32 bp):
CGCAGTACTCCACTTCTCCGGCCCATATCCAT
Found at i:31585152 original size:21 final size:22
Alignment explanation
Indices: 31585111--31585153 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31585101 TGACACCACT
* *
31585111 AATAAAATAATATATTTAAAAA
1 AATAAAAAAATATATTAAAAAA
31585133 AATAAAAAAAT-TATTAAAAAA
1 AATAAAAAAATATATTAAAAAA
31585154 TGGTTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAAAAAAATATATTAAAAAA
Found at i:31585615 original size:20 final size:20
Alignment explanation
Indices: 31585590--31585627 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31585580 AAAAAATAAT
31585590 TCAAAATAATTTTCAAAAAA
1 TCAAAATAATTTTCAAAAAA
*
31585610 TCAAAATAATTTTTAAAA
1 TCAAAATAATTTTCAAAA
31585628 TTTAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TCAAAATAATTTTCAAAAAA
Found at i:31597976 original size:35 final size:36
Alignment explanation
Indices: 31597930--31597998 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
31597920 ATTCAACCAT
31597930 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
31597965 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
31597999 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:31597996 original size:27 final size:28
Alignment explanation
Indices: 31597966--31598035 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
31597956 AATAATAAAT
*
31597966 TCAATATCCAACAAGCTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
31597993 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
31598021 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
31598036 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:31599440 original size:27 final size:26
Alignment explanation
Indices: 31599410--31599471 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
31599400 AGTTATAATT
31599410 TTTAATATCAAAATTTATAGAGACCAA
1 TTTAATATCAAAA-TTATAGAGACCAA
* * *
31599437 TTTAAAATCTAGATTATAGAGACCAA
1 TTTAATATCAAAATTATAGAGACCAA
*
31599463 TTTGATATC
1 TTTAATATC
31599472 TAGATTCTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (26 bp):
TTTAATATCAAAATTATAGAGACCAA
Found at i:31599457 original size:26 final size:26
Alignment explanation
Indices: 31599424--31599477 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
31599414 ATATCAAAAT
31599424 TTATAGAGACCAATTTAAAATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
* *
31599450 TTATAGAGACCAATTTGATATCTAGA
1 TTATAGAGACCAATTTAAAATCTAGA
31599476 TT
1 TT
31599478 CTAGTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (26 bp):
TTATAGAGACCAATTTAAAATCTAGA
Found at i:31599822 original size:14 final size:13
Alignment explanation
Indices: 31599797--31599831 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
31599787 TTAACCTTAC
*
31599797 TTAAAATTAAATT
1 TTAAATTTAAATT
31599810 TTAATATTTAAATT
1 TTAA-ATTTAAATT
31599824 TTAAATTT
1 TTAAATTT
31599832 GGTTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:31599869 original size:23 final size:24
Alignment explanation
Indices: 31599819--31599871 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
31599809 TTTAATATTT
* *
31599819 AAATTTTAAATTTGGTTAATAAAA
1 AAATTTTAAAGTTGGTTAAAAAAA
31599843 AAATTTTAAAGTTGG-TAAAAAAA
1 AAATTTTAAAGTTGGTTAAAAAAA
31599866 AAATTT
1 AAATTT
31599872 AGTATTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (24 bp):
AAATTTTAAAGTTGGTTAAAAAAA
Found at i:31600513 original size:14 final size:13
Alignment explanation
Indices: 31600484--31600510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31600474 AGAAGGTAAG
31600484 ACAGATACTTAAA
1 ACAGATACTTAAA
31600497 ACAGATACTTAAA
1 ACAGATACTTAAA
31600510 A
1 A
31600511 ACATGAACCA
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:31602329 original size:12 final size:12
Alignment explanation
Indices: 31602312--31602344 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
31602302 AAACCAAATC
31602312 AAGGGAGAACAA
1 AAGGGAGAACAA
31602324 AAGGGAGAACAA
1 AAGGGAGAACAA
31602336 AAGGGAGAA
1 AAGGGAGAA
31602345 GGGAGAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.06, G:0.36, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACAA
Found at i:31602582 original size:14 final size:14
Alignment explanation
Indices: 31602563--31602590 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31602553 TGGAAAAGGT
31602563 GGAAAATATTTTCC
1 GGAAAATATTTTCC
31602577 GGAAAATATTTTCC
1 GGAAAATATTTTCC
31602591 ACCAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:31608769 original size:98 final size:98
Alignment explanation
Indices: 31608600--31608788 Score: 306
Period size: 98 Copynumber: 1.9 Consensus size: 98
31608590 ATGCATGTTC
** * * **
31608600 TAAATGCAACACCCCTTACCCGGTCCGGTCATCGGACTTGAGTAATGAGATGTTACGAACAATTA
1 TAAATGCAACACCCCTTACCCAATCCGATCACCGGACCCGAGTAATGAGATGTTACGAACAATTA
31608665 CCAAACAATTGCATACAATTTATTAAATATCTA
66 CCAAACAATTGCATACAATTTATTAAATATCTA
* *
31608698 TAAATGTAACACCCCTTACCCAATCCGATCACCGGACCCGAGTAATGAGATTTTACGAACAATTA
1 TAAATGCAACACCCCTTACCCAATCCGATCACCGGACCCGAGTAATGAGATGTTACGAACAATTA
31608763 CCAAACAATTGCATACAATTTATTAA
66 CCAAACAATTGCATACAATTTATTAA
31608789 TGAAAATCTC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 83 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (98 bp):
TAAATGCAACACCCCTTACCCAATCCGATCACCGGACCCGAGTAATGAGATGTTACGAACAATTA
CCAAACAATTGCATACAATTTATTAAATATCTA
Found at i:31619752 original size:18 final size:18
Alignment explanation
Indices: 31619729--31619789 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
31619719 ATTTAGTTTT
31619729 TTATTAATTAAT-TTATTG
1 TTATT-ATTAATATTATTG
*
31619747 TTATTATTACTATTATTG
1 TTATTATTAATATTATTG
* * * *
31619765 TTATTGTTATTAGTATTA
1 TTATTATTAATATTATTG
31619783 TTATTAT
1 TTATTAT
31619790 ATTTTTATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
17 5 0.14
18 31 0.86
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (18 bp):
TTATTATTAATATTATTG
Found at i:31619755 original size:3 final size:3
Alignment explanation
Indices: 31619741--31619789 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
31619731 ATTAATTAAT
* * * * *
31619741 TTA TTG TTA TTA TTA CTA TTA TTG TTA TTG TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31619789 T
1 T
31619790 ATTTTTATAC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:31620272 original size:15 final size:15
Alignment explanation
Indices: 31620252--31620280 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31620242 GATATATTGA
31620252 TTTATTTTTATTATT
1 TTTATTTTTATTATT
31620267 TTTATTTTTATTAT
1 TTTATTTTTATTAT
31620281 CTTGGTGAAT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATTATT
Found at i:31623840 original size:17 final size:17
Alignment explanation
Indices: 31623820--31623872 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
31623810 ACAAAAAAAG
31623820 AAAA-AAAAATTAAAATC
1 AAAATAAAAA-TAAAATC
*
31623837 AAAATAAAAATCAAATC
1 AAAATAAAAATAAAATC
31623854 AAAATTGAAAAATGAAAAT
1 AAAA-T-AAAAAT-AAAAT
31623873 GATGAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.47
18 6 0.20
19 6 0.20
20 4 0.13
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATC
Found at i:31624833 original size:14 final size:15
Alignment explanation
Indices: 31624807--31624865 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
31624797 TGAGTCATAA
*
31624807 AAAAAATGAAAAA-A
1 AAAAAATGAAAAATG
31624821 ATAAAAATGAAAAATG
1 A-AAAAATGAAAAATG
31624837 -AAAAATGAAAAATG
1 AAAAAATGAAAAATG
31624851 AAAAAA-GTAAAAATG
1 AAAAAATG-AAAAATG
31624866 GAGAGGCTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 16 0.40
15 24 0.60
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:31626313 original size:176 final size:176
Alignment explanation
Indices: 31625985--31626587 Score: 830
Period size: 176 Copynumber: 3.4 Consensus size: 176
31625975 ATAAATCCTA
* * * *
31625985 TCTCCCCGAGCAGCAGTGGAGTAGGTTGAAAATGGCAGATCTTGTCTTCCTATATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * * * * * * * *
31626050 GTAGATCAAAGACTTCAGCCTTATCGCCTTGAGCTGTAGTGGAATATGTTAAAAATAACA-ACTC
66 GTAGATCGAAGACCTCAGCCTTATCACCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TC
* * ** *
31626114 TTGTGTTCTTGTATTAACAGCGAAGTAGATCAAAGATACCAGCCTTG
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * *
31626161 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTGGCTTCCTGTATCGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
*
31626226 GTAGATCGAAGACCTCAGCCTTATCACCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCACCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* *
31626291 TGTTTTCCTGTATTGGCAGCGAAGTAGATTGAAGATACCAGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * * *
31626337 TCTCCCGGAGTAGTAGTGCAGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* ** * *
31626402 GTAAATCGAAGACCTCTTCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCACCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
*
31626467 TGTCTTCCTGTAATGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * *
31626513 TCTCCTTGAGTAGCAGTGGCGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
31626578 GTAGATCGAA
66 GTAGATCGAA
31626588 TGTGGAGTAG
Statistics
Matches: 376, Mismatches: 50, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
176 375 1.00
177 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (176 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACCTCAGCCTTATCACCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
Found at i:31626513 original size:44 final size:45
Alignment explanation
Indices: 31626452--31626587 Score: 116
Period size: 45 Copynumber: 3.1 Consensus size: 45
31626442 GGAGTAGGTT
* *
31626452 GAAAATAGCAGATCTTGTCTTCCTGTAATGGCAGCGAAGTAGATC
1 GAAAATACCAGACCTTGTCTTCCTGTAATGGCAGCGAAGTAGATC
* * * * ** * *
31626497 GAAGATACCAG-CCTTGTC-TCCT-TGAGTAGCAGTGGCGTAGGTT
1 GAAAATACCAGACCTTGTCTTCCTGT-AATGGCAGCGAAGTAGATC
* * * *
31626540 AAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAAATACCAGACCTTGTCTTCCTGTAATGGCAGCGAAGTAGATC
31626585 GAA
1 GAA
31626588 TGTGGAGTAG
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
42 1 0.02
43 24 0.37
44 12 0.18
45 27 0.42
46 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (45 bp):
GAAAATACCAGACCTTGTCTTCCTGTAATGGCAGCGAAGTAGATC
Found at i:31626585 original size:88 final size:88
Alignment explanation
Indices: 31625983--31626587 Score: 732
Period size: 88 Copynumber: 6.9 Consensus size: 88
31625973 CCATAAATCC
* * * *
31625983 TATCTCCCCGAGCAGCAGTGGAGTAGGTTGAAAATGGCAGATCTTGTCTTCCTATATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
31626048 AAGTAGATCAAAGACT-TCAGCCT
66 AAGTAGATCGAAGA-TACCAGCCT
* * * * * * * * * **
31626071 TATCGCCTTGAGCTGTAGTGGAATATGTTAAAAATAACA-ACTCTTGTGTTCTTGTATTAACAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGA-TCTTGTCTTCCTGTATTGGCAGC
*
31626135 GAAGTAGATCAAAGATACCAGCCT
65 GAAGTAGATCGAAGATACCAGCCT
* * * *
31626159 TGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTGGCTTCCTGTATCGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
31626224 AAGTAGATCGAAGA-CCTCAGCCT
66 AAGTAGATCGAAGATAC-CAGCCT
* * * *
31626247 TATCACCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCAGATCTTGTTTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
31626312 AAGTAGATTGAAGATACCAGCCT
66 AAGTAGATCGAAGATACCAGCCT
* * * * * * *
31626335 TGTCTCCCGGAGTAGTAGTGCAGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * **
31626400 AAGTAAATCGAAGA-CCTCTTCCT
66 AAGTAGATCGAAGATAC-CAGCCT
* * *
31626423 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTAATGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
31626488 AAGTAGATCGAAGATACCAGCCT
66 AAGTAGATCGAAGATACCAGCCT
* * * *
31626511 TGTCTCCTTGAGTAGCAGTGGCGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
31626576 AAGTAGATCGAA
66 AAGTAGATCGAA
31626588 TGTGGAGTAG
Statistics
Matches: 432, Mismatches: 78, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
87 4 0.01
88 425 0.98
89 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (88 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
AAGTAGATCGAAGATACCAGCCT
Found at i:31626613 original size:61 final size:61
Alignment explanation
Indices: 31626528--31626645 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
31626518 TTGAGTAGCA
* * * * *
31626528 GTGGCGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCGAAT
* *
31626589 GTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATC
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATC
31626646 AAAGATACCG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (61 bp):
GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCGAAT
Found at i:31626710 original size:149 final size:149
Alignment explanation
Indices: 31626440--31626736 Score: 450
Period size: 149 Copynumber: 2.0 Consensus size: 149
31626430 CTAAGCAGCA
* * * *
31626440 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTAATGGCAGCGAAGTAGATCGAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATAATAGCAGCAAAGTAGATCAAAGATAC
* * * * * * * *
31626505 CAGCCTTGTCTCCTTGAGTAGCAGTGGCGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
66 CAGCCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTG
*
31626570 GCAGCGAAGTAGATCGAAT
131 GCAACGAAGTAGATCGAAT
* *
31626589 GTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCAAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATAATAGCAGCAAAGTAGATCAAAGATAC
*
31626654 CGGCCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTG
66 CAGCCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTG
31626719 GCAACGAAGTAGATCGAA
131 GCAACGAAGTAGATCGAA
31626737 CACTGCAGCC
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
149 132 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (149 bp):
GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATAATAGCAGCAAAGTAGATCAAAGATAC
CAGCCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTG
GCAACGAAGTAGATCGAAT
Found at i:31626754 original size:88 final size:87
Alignment explanation
Indices: 31626589--31628147 Score: 1732
Period size: 88 Copynumber: 17.7 Consensus size: 87
31626579 TAGATCGAAT
* * * * * * *
31626589 GTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCAAAGA-TA
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
* * * *
31626653 CCGGCCATGTCTCCCTGAGCAACA
65 -CAGCCTTATCTCCCTGAGCAGCA
* * * * *
31626677 GTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTGGCAACGAAGTAGATCGAACACTG
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
31626742 CAGCCTTATCTCCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * *
31626765 GTGAAGTAGGTT-GAAATAAGCGGATCTTGTCTTCGTGTATTGGCAGCGAAGTAGATCGAAGA-T
1 GTGGAGTAGGTTAAAAAT-AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT
* *
31626828 ACCAGCCTTGTCACCCTGAGCAGCA
65 --CAGCCTTATCTCCCTGAGCAGCA
* * *
31626853 GTCGAGTAAGTTAAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
*
31626918 CAACCTTATCTCCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * **
31626941 GTGGAGTAGGTTTAAAATAGCAGATCTTGTCTTCTTGTATTGACAATGAAGTAGATCGAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
* *
31627006 CAGCCTTATCTCCCTAAGCAGTA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * * *
31627029 GTGGAGTAGGGTGAAAATAACTGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
*
31627094 CAGCCTTATCTTCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * * ** *
31627117 GTGGAGTAGGTTGAAAATAGCAGATCTTGTGTTCTTCTATTGATAGCGAAGTAGATCAAAGA-TA
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
** * *
31627181 CCAGTGTTGTCTCCCTGAGCAACA
65 -CAGCCTTATCTCCCTGAGCAGCA
* *
31627205 ATGGAGTATGTTAAAAATAAG-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACC
1 GTGGAGTAGGTTAAAAAT-AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-C
* *
31627269 TCAGCCTTATCTCCTTGAGCAGCG
64 TCAGCCTTATCTCCCTGAGCAGCA
* * * * * *
31627293 GTGGAGTAGGTTGAAAATAGCAGATCTTGTATTCTTGTATTGGCAGCGAAGTCGATTGAAGATAT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
* * *
31627358 CAGCCTTGTCTCCTTCAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* *
31627381 GTGGAGTAGGTTAAAAATCGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
*
31627446 CAGCCATATCTCCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* ** * * **
31627469 GTGGAGTAGGTTTAAAATAGCAGATCTTGTGATCTTCTATTAACAGCGAAGTAGATCGAAGA-TA
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
* **
31627533 CCAGCCTTGTCTCCCTGAGCAATA
65 -CAGCCTTATCTCCCTGAGCAGCA
*
31627557 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
*
31627622 CAGCCTTATCTTCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * * *
31627645 GTGGAGTAGGTTGAAAATACCAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGA-TA
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
*
31627709 CCAGCCTTGTCTCCCTGAGCAGCA
65 -CAGCCTTATCTCCCTGAGCAGCA
* * *
31627733 GTGGAGTAGGTTAAAAATAGAAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCGAAGACTT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC-T
*
31627798 CAGCCTTATCTCCTTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * *
31627821 ATGGAGTAGGTTGAAAGTAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-TA
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACT-
* * * **
31627885 CCAACCTTGTCTCCCTGGGCAATA
65 -CAGCCTTATCTCCCTGAGCAGCA
*
31627909 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCT
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CT
31627974 CAGCCTTATCTCCCTGAGCAGCA
65 CAGCCTTATCTCCCTGAGCAGCA
* * * * * * * * *
31627997 ATGGAGTAGGTTGATAATAGCAAATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAAACAC
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC-T
* * * **
31628062 CAG-ATTGACCTCCCTTAGTTGCA
65 CAGCCTT-ATCTCCCTGAGCAGCA
* * ** * * * * *
31628085 GCGGAGCAGACTGAAGATAACAAATCTTGTCTTCCTGTATTGGCAGCGAATTAGATCGAAGAC
1 GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC
31628148 ACCAGTCTTA
Statistics
Matches: 1240, Mismatches: 205, Indels: 52
0.83 0.14 0.03
Matches are distributed among these distances:
86 4 0.00
87 10 0.01
88 1214 0.98
89 7 0.01
90 5 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
GTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACTC
AGCCTTATCTCCCTGAGCAGCA
Found at i:31626776 original size:237 final size:237
Alignment explanation
Indices: 31626356--31626824 Score: 611
Period size: 237 Copynumber: 2.0 Consensus size: 237
31626346 GTAGTAGTGC
* * * * * * **
31626356 AGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCAAAGTAAATCGAAGACCTCTTC
1 AGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAAATCAAAGAACTCGGC
* * * * * * *
31626421 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTAATGGCAG
66 CATATCTCCCTAAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTAATGGCAA
* * * * **
31626486 CGAAGTAGATCGAAGATACCAGCCTTGTCTCCTTGAGTAGCAGTGGCGTAGGTTAAAA-ATAGCA
131 CGAAGTAGATCGAACATACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTAAAATA-AGCA
31626550 GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAATGTGG
195 GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAATGTGG
* * *
31626593 AGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCAAAGATAC-CGG
1 AGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAAATCAAAGA-ACTCGG
* * *
31626657 CCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTGGCA
65 CCATATCTCCCTAAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTAATGGCA
* *
31626722 ACGAAGTAGATCGAACACT-GCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAATAAGC
130 ACGAAGTAGATCGAACA-TACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTAAAATAAGC
* *
31626786 GGATCTTGTCTTCGTGTATTGGCAGCGAAGTAGATCGAA
194 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
31626825 GATACCAGCC
Statistics
Matches: 198, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
237 195 0.98
238 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (237 bp):
AGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAAATCAAAGAACTCGGC
CATATCTCCCTAAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTAATGGCAA
CGAAGTAGATCGAACATACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTAAAATAAGCAG
ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAATGTGG
Found at i:31626887 original size:176 final size:176
Alignment explanation
Indices: 31626589--31628147 Score: 2066
Period size: 176 Copynumber: 8.9 Consensus size: 176
31626579 TAGATCGAAT
* * * * * * *
31626589 GTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTATACTAGCAGCAAAGTAGATCAAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* * * *
31626654 CGGCCATGTCTCCCTGAGCAACAGTGGAGTAGGATAAAAATAACAGATCTTGTCTTCCAGTATTG
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
* *
31626719 GCAACGAAGTAGATCGAACA-CTGCAGCCTTATCTCCCTGAGCAGCA
131 GCAGCGAAGTAGATCGAAGACCT-CAGCCTTATCTCCCTGAGCAGCA
* * *
31626765 GTGAAGTAGGTTG-AAATAAGCGGATCTTGTCTTCGTGTATTGGCAGCGAAGTAGATCGAAGATA
1 GTGGAGTAGGTTGAAAAT-AGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATA
* * * *
31626829 CCAGCCTTGTCACCCTGAGCAGCAGTCGAGTAAGTTAAAAATAACAGATCTTGTCTTCCTGTATT
65 CCAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATT
*
31626894 GGCAGCGAAGTAGATCGAAGACCTCAACCTTATCTCCCTGAGCAGCA
130 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * ** *
31626941 GTGGAGTAGGTTTAAAATAGCAGATCTTGTCTTCTTGTATTGACAATGAAGTAGATCGAAGA-CC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* * ** * * *
31627005 TCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGGTGAAAATAACTGATCTTGTCTTCCTGTATT
66 -CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATT
* *
31627070 GGCAGCAAAGTAGATCGAAGACCTCAGCCTTATCTTCCTGAGCAGCA
130 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * ** *
31627117 GTGGAGTAGGTTGAAAATAGCAGATCTTGTGTTCTTCTATTGATAGCGAAGTAGATCAAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
** * * *
31627182 CAGTGTTGTCTCCCTGAGCAACAATGGAGTATGTTAAAAATAAGAGATCTTGTCTTCCTGTATTG
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
* *
31627247 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCTTGAGCAGCG
131 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * * *
31627293 GTGGAGTAGGTTGAAAATAGCAGATCTTGTATTCTTGTATTGGCAGCGAAGTCGATTGAAGATAT
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* * * ** *
31627358 CAGCCTTGTCTCCTTCAGCAGCAGTGGAGTAGGTTAAAAATCGCAGATCTTGTCTTCTTGTATTG
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
*
31627423 GCAGCGAAGTAGATCGAAGACCTCAGCCATATCTCCCTGAGCAGCA
131 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* ** * **
31627469 GTGGAGTAGGTTTAAAATAGCAGATCTTGTGATCTTCTATTAACAGCGAAGTAGATCGAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* *
31627534 CAGCCTTGTCTCCCTGAGCAATAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
* *
31627599 GCAGCGAAGTAGATCAAAGACCTCAGCCTTATCTTCCTGAGCAGCA
131 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * * * *
31627645 GTGGAGTAGGTTGAAAATACCAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* *
31627710 CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGA-AGATCTTATCTTCCTGTATT
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATA-ACAGATCTTGTCTTCCTGTATT
* * *
31627774 GGTAGCGAAGTAGATCGAAGACTTCAGCCTTATCTCCTTGAGCAGCA
130 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * * *
31627821 ATGGAGTAGGTTGAAAGTAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* * * * *
31627886 CAACCTTGTCTCCCTGGGCAATAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTG
66 CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
31627951 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
131 GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
* * * * * * *
31627997 ATGGAGTAGGTTGATAATAGCAAATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAAACAC
1 GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
* * * *** * * ** * * *
31628062 CAG-ATTGACCTCCCTTAGTTGCAGCGGAGCAGACTGAAGATAACAAATCTTGTCTTCCTGTATT
66 CAGCCTTG-TCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATT
*
31628126 GGCAGCGAATTAGATCGAAGAC
130 GGCAGCGAAGTAGATCGAAGAC
31628148 ACCAGTCTTA
Statistics
Matches: 1209, Mismatches: 166, Indels: 16
0.87 0.12 0.01
Matches are distributed among these distances:
175 7 0.01
176 1195 0.99
177 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (176 bp):
GTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAC
CAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGTATTG
GCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCA
Found at i:31628285 original size:50 final size:50
Alignment explanation
Indices: 31628164--31628576 Score: 321
Period size: 50 Copynumber: 8.2 Consensus size: 50
31628154 CTTATCGCCT
** * * * * *
31628164 TGGCATTGCAGTGGAACAGATTAAAGCTAAAGATAGCGAATCTT-GTGGCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACA-ACAGCGAATCTTACT-TCCC
* * *
31628215 TGGCATTGCA-TTGGAGCAGATTGAAGCTACAACAGTGAATCTTACTTCCC
1 TGGCATTGCAGTT-AAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* * ** * * * *
31628265 TGGCAATGTAGTGGAACAGATTCATGCTACAACAACGAATCTTGCTTCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* * * * * * * *
31628315 CGACATTTCAGTTAAATAGATTGAAGCTATAACCGCGAATCTTGCCTCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* * * *
31628365 CGACATTGCAGTTAAATAGATTGAAGTTACAACAGCGAATCTTACTTCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* * * ** * * *
31628415 TAGCAGTGTAGTGGAACAGATTGAAGCTATAACAGTGAATCTTGCTTCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* * * *
31628465 CGACATTACAGTTAAATAGATTGAAGCTACAAC-GACGAATCTTACTTCCC
1 TGGCATTGCAGTTAAACAGATTGAAGCTACAACAG-CGAATCTTACTTCCC
* * * *
31628515 TGAG-ATTGCAGTTAAACAGATTGAAGCCACAAGAACGAATCTTATTTCCC
1 TG-GCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
* *
31628565 TAGCGTTGCAGT
1 TGGCATTGCAGT
31628577 GGATCGAAGC
Statistics
Matches: 284, Mismatches: 71, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 255 0.90
51 27 0.10
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (50 bp):
TGGCATTGCAGTTAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCC
Found at i:31628470 original size:150 final size:150
Alignment explanation
Indices: 31628231--31628568 Score: 480
Period size: 150 Copynumber: 2.3 Consensus size: 150
31628221 TGCATTGGAG
* * *
31628231 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCAATGTAGTGGAACAGATTCATGCTACA
1 CAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAATGTAGTGGAACAGATTCAAGCTACA
* * *
31628296 ACAACGAATCTTGCTTCCCCGACATTTCAGTTAAATAGATTGAAGCTATAACCG-CGAATCTTGC
66 ACAACGAATCTTGCTTCCCCGACATTACAGTTAAATAGATTGAAGCTACAA-CGACGAATCTTAC
31628360 CTCCCCGACATTGCAGTTAAA
130 CTCCCCGACATTGCAGTTAAA
* * * * *
31628381 TAGATTGAAGTTACAACAGCGAATCTTACTTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTATA
1 CAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAATGTAGTGGAACAGATTCAAGCTACA
** *
31628446 ACAGTGAATCTTGCTTCCCCGACATTACAGTTAAATAGATTGAAGCTACAACGACGAATCTTACT
66 ACAACGAATCTTGCTTCCCCGACATTACAGTTAAATAGATTGAAGCTACAACGACGAATCTTACC
* *
31628511 TCCCTGAGATTGCAGTTAAA
131 TCCCCGACATTGCAGTTAAA
* * * *
31628531 CAGATTGAAGCCACAAGAACGAATCTTATTTCCCTAGC
1 CAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGC
31628569 GTTGCAGTGG
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
149 2 0.01
150 163 0.99
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (150 bp):
CAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAATGTAGTGGAACAGATTCAAGCTACA
ACAACGAATCTTGCTTCCCCGACATTACAGTTAAATAGATTGAAGCTACAACGACGAATCTTACC
TCCCCGACATTGCAGTTAAA
Found at i:31630015 original size:9 final size:9
Alignment explanation
Indices: 31630003--31630037 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
31629993 AATTTATTGT
*
31630003 TATTATTAC
1 TATTATTAG
31630012 TATTATTAG
1 TATTATTAG
*
31630021 TATTAGTAG
1 TATTATTAG
31630030 TATTATTA
1 TATTATTA
31630038 TTATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (9 bp):
TATTATTAG
Found at i:31630512 original size:3 final size:3
Alignment explanation
Indices: 31630504--31630541 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
31630494 GATATATTGA
31630504 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
31630542 AATCTTGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:31640193 original size:14 final size:15
Alignment explanation
Indices: 31640162--31640207 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
31640152 TATTATCATA
31640162 TTTTATCTTATTGCT
1 TTTTATCTTATTGCT
31640177 TTTTATCTTATTG-T
1 TTTTATCTTATTGCT
* **
31640191 TTTCAAGTTATTGCT
1 TTTTATCTTATTGCT
31640206 TT
1 TT
31640208 GACAACTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (15 bp):
TTTTATCTTATTGCT
Found at i:31640591 original size:13 final size:13
Alignment explanation
Indices: 31640573--31640602 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31640563 AAGAACCCTG
31640573 ATGCAACACCAAA
1 ATGCAACACCAAA
31640586 ATGCAACACCAAA
1 ATGCAACACCAAA
31640599 ATGC
1 ATGC
31640603 TAATAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.10, T:0.10
Consensus pattern (13 bp):
ATGCAACACCAAA
Found at i:31650047 original size:613 final size:612
Alignment explanation
Indices: 31648850--31650062 Score: 2140
Period size: 613 Copynumber: 2.0 Consensus size: 612
31648840 TAATTTGTCC
31648850 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTCA
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTCA
* *
31648915 GTGAATCTTAACATATTTATCCTTAATTTCGTCATGTTTTGGTACTGATGTTACTGCATGAGTAT
66 GTGAATCTTAACATATTTATCCTTAATTTCATCATGTTTTGGTACTGATGTCACTGCATGAGTAT
* * * *
31648980 TTCTAGATTGCGCCCAGAATTGTCGCCGCACTTGATAGCTGTCCGGATAAGAACAAAAATGTGTG
131 TTCCAGATTGCGCCCAAAATTGTCGCCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
* * * *
31649045 AGCTATCCAGTCTGGTATAACCAACTTGTACATATAGAGGCAGCATGATTTTGATGAAATGACAA
196 AGCTATCCAATCCGGTATAACCAACTTGTACATACAGAGGCAGCATGATTTTGATGAAAGGACAA
*
31649110 CTGTGCTATTTGCAAGAATACAAATATTCACGTGAAAAAGAAAAAAAATAGAGGCTTTTTGGGGT
261 CTGTGCTATTTGCAAGAATACAAATATTCACGTGAAAAAGAAAAAAAAGAGAGGCTTTTTGGGGT
* *
31649175 ATTATCTTATTGAACCTATCTTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACGGGTGA
326 ATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTAAGGTGGCTTAAGCCTCTTACGGGTGA
31649240 ACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAGT
391 ACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAGT
31649305 TGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTTCC
456 TGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTTCC
31649370 TAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTAGGTTAAAT
521 TAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTAGGTTAAAT
31649435 GTTATTTTATTCAATTTAGTTATCTTT
586 GTTATTTTATTCAATTTAGTTATCTTT
* ** *
31649462 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCATTTTAGTAAATTGCATTTTGTAACTCG
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTCA
*
31649527 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATGTCACTGCATGAGTAT
66 GTGAATCTTAACATATTTATCCTTAATTTCATCATGTTTTGGTACTGATGTCACTGCATGAGTAT
* *
31649592 TTCCAGATTGCGCCCAAAATTGTCGCCGCACTTGACAGTTGTCTAGATAAGAACAAAAATGTGTG
131 TTCCAGATTGCGCCCAAAATTGTCGCCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
31649657 AGCTATCCAATCCGGTATAACCAACTTGTACATACAGAGGCAGCATGATTTTGATGAAAGGAC-A
196 AGCTATCCAATCCGGTATAACCAACTTGTACATACAGAGGCAGCATGATTTTGATGAAAGGACAA
* *
31649721 CTTGTGCTATTTGGAAGAATACAAATATTCACGTGAAAAAGGAAAAAAAAGGGAGGCTTTTTGGG
261 C-TGTGCTATTTGCAAGAATACAAATATTCACGTGAAAAA-GAAAAAAAAGAGAGGCTTTTTGGG
31649786 GTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTAAGGTGGCTTAAGCCTCTTACGGGT
324 GTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTAAGGTGGCTTAAGCCTCTTACGGGT
**
31649851 GAACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGTGACACAAGAGGGA
389 GAACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGA
*
31649916 GTTGAGAGATTAAGTTGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTT
454 GTTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTT
* * * *
31649981 TCTAAATGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGTATACATGATTTCTGGGTTAA
519 CCTAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTAGGTTAA
31650046 ATGTTATTTTATTCAAT
584 ATGTTATTTTATTCAAT
31650063 CTTATTTCTA
Statistics
Matches: 570, Mismatches: 29, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
611 2 0.00
612 278 0.49
613 290 0.51
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (612 bp):
CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTCA
GTGAATCTTAACATATTTATCCTTAATTTCATCATGTTTTGGTACTGATGTCACTGCATGAGTAT
TTCCAGATTGCGCCCAAAATTGTCGCCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
AGCTATCCAATCCGGTATAACCAACTTGTACATACAGAGGCAGCATGATTTTGATGAAAGGACAA
CTGTGCTATTTGCAAGAATACAAATATTCACGTGAAAAAGAAAAAAAAGAGAGGCTTTTTGGGGT
ATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTAAGGTGGCTTAAGCCTCTTACGGGTGA
ACCAACGTGAAAGGGATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAGT
TGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTTCC
TAAACGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTAGGTTAAAT
GTTATTTTATTCAATTTAGTTATCTTT
Found at i:31651279 original size:16 final size:15
Alignment explanation
Indices: 31651254--31651287 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31651244 AGAGTTGATA
*
31651254 ATAATTAATATACATT
1 ATAATGAATATA-ATT
31651270 ATAATGAATATAATT
1 ATAATGAATATAATT
31651285 ATA
1 ATA
31651288 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATGAATATAATT
Found at i:31660520 original size:12 final size:12
Alignment explanation
Indices: 31660503--31660543 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
31660493 TTTAAAATTA
31660503 ATTTTTTTGAAT
1 ATTTTTTTGAAT
31660515 ATTTTTTT-AA-
1 ATTTTTTTGAAT
* *
31660525 ATTTTTTGGATT
1 ATTTTTTTGAAT
31660537 ATTTTTT
1 ATTTTTT
31660544 AATCGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 15 0.60
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
ATTTTTTTGAAT
Found at i:31660545 original size:21 final size:22
Alignment explanation
Indices: 31660502--31660543 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31660492 CTTTAAAATT
*
31660502 AATTTTTTTGAATATTTTTTTA
1 AATTTTTTGGAATATTTTTTTA
*
31660524 AATTTTTTGGATTATTTTTT
1 AATTTTTTGGAATATTTTTT
31660544 AATCGATTTT
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:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
AATTTTTTGGAATATTTTTTTA
Found at i:31677581 original size:33 final size:33
Alignment explanation
Indices: 31677541--31677658 Score: 148
Period size: 33 Copynumber: 3.5 Consensus size: 33
31677531 TACACTTTTT
31677541 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* *
31677574 TTAGTGTGTTGGTTGGATTAGCTCTTATGACCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
** * *
31677607 TTGGTGTGTTGGAGGGATTGGCT-TGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCT-TATGAGCA
31677640 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
31677659 CTGACAATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 57 0.79
34 7 0.10
35 7 0.10
ACGTcount: A:0.14, C:0.08, G:0.36, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:31679990 original size:2 final size:2
Alignment explanation
Indices: 31679983--31680016 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31679973 GGAAACATAA
31679983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31680017 TCATTCCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31680150 original size:10 final size:10
Alignment explanation
Indices: 31680135--31680159 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31680125 TTTATAATAA
31680135 ATTTTGATTT
1 ATTTTGATTT
31680145 ATTTTGATTT
1 ATTTTGATTT
31680155 ATTTT
1 ATTTT
31680160 CGACAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:31692209 original size:7 final size:7
Alignment explanation
Indices: 31692197--31692222 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31692187 ATGTAAAATC
31692197 ATATTAA
1 ATATTAA
31692204 ATATTAA
1 ATATTAA
31692211 ATATTAA
1 ATATTAA
31692218 ATATT
1 ATATT
31692223 GTTATGGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATATTAA
Found at i:31693480 original size:25 final size:24
Alignment explanation
Indices: 31693449--31693508 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
31693439 CGCAGCACAC
*
31693449 AAAAGAACAAA-GAGGAAGAAAAGA
1 AAAAGAACAAAGGA-GAAAAAAAGA
*
31693473 AAACAGAAAAAAGGAGAAAAAAAGA
1 AAA-AGAACAAAGGAGAAAAAAAGA
31693498 AAAAGAACAAA
1 AAAAGAACAAA
31693509 AAATAGGACG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 10 0.32
25 19 0.61
26 2 0.06
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAGAACAAAGGAGAAAAAAAGA
Found at i:31694583 original size:2 final size:2
Alignment explanation
Indices: 31694578--31694607 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31694568 TGCTATTTTG
31694578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31694608 ATTTGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31700516 original size:21 final size:21
Alignment explanation
Indices: 31700475--31700517 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31700465 AAAAAAAGAG
**
31700475 ATGAAAAAATCAAAATTTAAA
1 ATGAAAAAATCAAAAAGTAAA
*
31700496 ATGAAAAAATGAAAAAGTAAA
1 ATGAAAAAATCAAAAAGTAAA
31700517 A
1 A
31700518 ATGGAGAGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
ATGAAAAAATCAAAAAGTAAA
Found at i:31701887 original size:44 final size:44
Alignment explanation
Indices: 31701839--31702020 Score: 120
Period size: 44 Copynumber: 4.1 Consensus size: 44
31701829 ATTACAGATT
*
31701839 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATA
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATC
* * * ** * **
31701883 TTATCTTTCC-AAG-A-TAATGGGAAGCAGATTC-AAGCCACCGAGCC
1 TTATC-TCCCTAAGCAGTAGT-GG-AGCAGA-TCAAAGACGGCAAATC
* * * * * ** ** * *
31701927 TTGTCTCCCTGAGCAGCAGCGGAGCAGGTTGAAGATTGTAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATC
31701971 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATC
31702015 TTATCT
1 TTATCT
31702021 TTCCAAGATA
Statistics
Matches: 93, Mismatches: 37, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
42 3 0.03
43 7 0.08
44 74 0.80
45 8 0.09
46 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATC
Found at i:31701990 original size:132 final size:132
Alignment explanation
Indices: 31701776--31702184 Score: 595
Period size: 132 Copynumber: 3.1 Consensus size: 132
31701766 GTAGGGAAAT
** * * *
31701776 AGATTTAAGCCACCGAGCCTTGTCTCTTTGAGCAGCAGTGGAGCAGGTTGAAGATTACAGATTTT
1 AGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTGCAGATCTT
*
31701841 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATATTATCTTTCCAAGATAATGGGAA
66 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAA
31701906 GC
131 GC
* * *
31701908 AGATTCAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGCGGAGCAGGTTGAAGATTGTAGATCTT
1 AGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTGCAGATCTT
*
31701973 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAA
66 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAA
31702038 GC
131 GC
* * * *
31702040 AGATTTAAGCCACTGAGCCTTGTCTCCCTGAGTAGCAGAGGAGCAGGGTGAAGATAGCAGATCTT
1 AGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTGCAGATCTT
* * * * * * *
31702105 ATCTCCCTAAGCAATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTAGA-AGTAGGGA
66 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAAT-GGGA
*
31702169 AAC
130 AGC
*
31702172 AAATTTAAGCCAC
1 AGATTTAAGCCAC
31702185 AAGTCCTATT
Statistics
Matches: 252, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
131 3 0.01
132 249 0.99
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (132 bp):
AGATTTAAGCCACCGAGCCTTGTCTCCCTGAGCAGCAGAGGAGCAGGTTGAAGATTGCAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAA
GC
Found at i:31702376 original size:44 final size:44
Alignment explanation
Indices: 31702310--31702432 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 44
31702300 TAGACCGAAG
* *
31702310 AATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * *
31702354 AATCTTATCTCCCTAAGATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
31702398 AATCCTATCTCTCTGAGATTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
31702433 AAAATAAAGG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:31702580 original size:50 final size:50
Alignment explanation
Indices: 31702526--31702875 Score: 218
Period size: 50 Copynumber: 7.1 Consensus size: 50
31702516 TCAGTGGAGT
*
31702526 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** **
31702576 AGATTAAAGCCACAGCGGCGAATCTTACTTCTCTGGCGA-TGCAGTGGAGT
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGAC-ATTGCAGTTAAAA
* ** *
31702626 AGATTAAATCCACATCGGTGAATCTCGCTTCCCCTACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * *** *
31702676 AGATTAAAGCTACAACAATGAATCTTAC-TCCCCAGGCGA-TGCAGCGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* *
31702726 AGATTAAAGCCACATCGGTG-A----GCTTCCCCGACATTGAAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * *** *
31702771 AGATTAAAGCTACAACAATGAATCTTAC-TCCCCAGGCGA-TGCAGCGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * * * *
31702821 AGATTAAAGCCATGA-CAGTGTATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCA-CATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
31702871 AGATT
1 AGATT
31702876 GAAACTACAA
Statistics
Matches: 215, Mismatches: 69, Indels: 32
0.68 0.22 0.10
Matches are distributed among these distances:
44 1 0.00
45 25 0.12
46 6 0.03
49 13 0.06
50 162 0.75
51 8 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:31702614 original size:100 final size:100
Alignment explanation
Indices: 31702496--31702885 Score: 470
Period size: 100 Copynumber: 4.0 Consensus size: 100
31702486 TGAAGCCAGA
* * * * ** *
31702496 AATCTTACCCCCCTGGCGATTCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTACTTCCCCG
1 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * ***
31702561 ACATTGTAGTTAAAAAGATTAAAGCCACAGCGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAATG
* * * * ** * * *
31702596 AATCTTACTTCTCTGGCGATGCAGTGGAGTAGATTAAATCCACATCGGTGAATCTCGCTTCCCCT
1 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
31702661 ACATTGCAGTTAAAAAGATTAAAGCTACAACAATG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAATG
31702696 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTG-A----GCTTCCCCG
1 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
31702756 ACATTGAAGTTAAAAAGATTAAAGCTACAACAATG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAATG
* * * *
31702791 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCATGA-CAGTGTATCTTGCTTCCTC
1 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCA-CATCGGTGAATCTTGCTTCCCC
31702855 GACATTGCAGTTAAAAAGATTGAAA-CTACAA
65 GACATTGCAGTTAAAAAGATT-AAAGCTACAA
31702886 GCTACGAATC
Statistics
Matches: 256, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
95 88 0.34
96 2 0.01
99 1 0.00
100 162 0.63
101 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (100 bp):
AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAATG
Found at i:31702777 original size:195 final size:197
Alignment explanation
Indices: 31702496--31702885 Score: 473
Period size: 195 Copynumber: 2.0 Consensus size: 197
31702486 TGAAGCCAGA
* * * **
31702496 AATCTTACCCCCCTGGCGATTCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTACTTCCCCG
1 AATCTTACCCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAA---TACTTCCCCG
* * ** * * * * **
31702561 ACATTGTAGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTACTTCTCTGGCGATGCAGTGGAGT
63 ACATTGAAGTTAAAAAGATTAAAGCCACAACAACGAATCTTACTCCCCAGGCGATGCAGCGGAAC
* * *
31702626 AGATTAAATCCA-CATCGGTGAATCTCGCTTCCCCTACATTGCAGTTAAAAAGATT-AAAGCTAC
128 AGATTAAAGCCATCA-CAGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTGAAA-CTAC
31702689 AACAATG
191 AACAATG
* *
31702696 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTG-A-GCTTCCCCGACA
1 AATCTTACCCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATACTTCCCCGACA
* *
31702759 TTGAAGTTAAAAAGATTAAAGCTACAACAATGAATCTTACTCCCCAGGCGATGCAGCGGAACAGA
66 TTGAAGTTAAAAAGATTAAAGCCACAACAACGAATCTTACTCCCCAGGCGATGCAGCGGAACAGA
* * * *
31702824 TTAAAGCCATGACAGTGTATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAACTACAA
131 TTAAAGCCATCACAGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTGAAACTACAA
31702886 GCTACGAATC
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
195 113 0.70
196 4 0.02
199 1 0.01
200 44 0.27
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (197 bp):
AATCTTACCCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATACTTCCCCGACA
TTGAAGTTAAAAAGATTAAAGCCACAACAACGAATCTTACTCCCCAGGCGATGCAGCGGAACAGA
TTAAAGCCATCACAGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTGAAACTACAACAA
TG
Found at i:31707201 original size:25 final size:24
Alignment explanation
Indices: 31707168--31707249 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
31707158 TAAGGATATA
31707168 AACAGGAAGCTCATGCGAGCCATGT
1 AACAGGAAGCTCATGCGAGCCAT-T
*
31707193 AAC-GAGAAGCTTCA-GAGAGCCATT
1 AACAG-GAAGC-TCATGCGAGCCATT
* *
31707217 AACAGGAAGCTCATACGAGCCAAT
1 AACAGGAAGCTCATGCGAGCCATT
*
31707241 AACGGGAAG
1 AACAGGAAG
31707250 GTTCAAACGA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 3 0.06
24 25 0.52
25 17 0.35
26 3 0.06
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.13
Consensus pattern (24 bp):
AACAGGAAGCTCATGCGAGCCATT
Found at i:31707225 original size:24 final size:24
Alignment explanation
Indices: 31707168--31707263 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
31707158 TAAGGATATA
31707168 AACAGGAAGCTCATG-CGAGCCATGT
1 AACAGGAAGCTCA-GACGAGCCAT-T
31707193 AAC-GAGAAGCTTCAGA-GAGCCATT
1 AACAG-GAAGC-TCAGACGAGCCATT
* *
31707217 AACAGGAAGCTCATACGAGCCAAT
1 AACAGGAAGCTCAGACGAGCCATT
* * *
31707241 AACGGGAAGGTTCAAACGAGCCA
1 AACAGGAA-GCTCAGACGAGCCA
31707264 ATACCGGGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.07
24 24 0.40
25 29 0.48
26 3 0.05
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (24 bp):
AACAGGAAGCTCAGACGAGCCATT
Found at i:31707262 original size:49 final size:49
Alignment explanation
Indices: 31707168--31707263 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
31707158 TAAGGATATA
* * *
31707168 AACAGGAAGCTCATGCGAGCCATGTAACGAGAAGCTTCAGAGAGCCATT
1 AACAGGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAAGAGCCATT
* *
31707217 AACAGGAAGCTCATACGAGCCA-ATAACGGGAAGGTTCAAACGAGCCA
1 AACAGGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAA-GAGCCA
31707264 ATACCGGGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 14 0.34
49 27 0.66
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (49 bp):
AACAGGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAAGAGCCATT
Found at i:31707264 original size:25 final size:25
Alignment explanation
Indices: 31707183--31707273 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 25
31707173 GAAGCTCATG
* * * *
31707183 CGAGCCATGTAACGAGAAGCTTCAGA
1 CGAGCCA-ATAACGGGAAGGTTCAAA
* * * *
31707209 -GAGCCATTAACAGGAA-GCTCATA
1 CGAGCCAATAACGGGAAGGTTCAAA
31707232 CGAGCCAATAACGGGAAGGTTCAAA
1 CGAGCCAATAACGGGAAGGTTCAAA
*
31707257 CGAGCCAATACCGGGAA
1 CGAGCCAATAACGGGAA
31707274 TCTTTGGAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
23 4 0.08
24 21 0.40
25 27 0.52
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.13
Consensus pattern (25 bp):
CGAGCCAATAACGGGAAGGTTCAAA
Found at i:31707504 original size:24 final size:25
Alignment explanation
Indices: 31707457--31707509 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
31707447 ATAACAAGAA
31707457 GCTCATGAGAGCTAAATATCGGGAT
1 GCTCATGAGAGCTAAATATCGGGAT
31707482 GCTCATGAGAGCT-AATAAT-GGGAT
1 GCTCATGAGAGCTAAAT-ATCGGGAT
31707506 GCTC
1 GCTC
31707510 TTTCAAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (25 bp):
GCTCATGAGAGCTAAATATCGGGAT
Found at i:31709230 original size:258 final size:259
Alignment explanation
Indices: 31708742--31709342 Score: 1006
Period size: 258 Copynumber: 2.3 Consensus size: 259
31708732 TTGTTACAAC
* *
31708742 GGGGTTGAAAGCAAAATATTTGACTATAAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* * * *
31708807 ATCGAAAACTCATTATGGTATCATATTAACATTGTGAATGAATAAAAAATTATATTTCATATGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAATGAAGAAAAAATTATACTTCATATGAA
*
31708872 TCACTATTGATATAAATATCTATTTTGAAAGGATGAAAAAAAAAGGAAGATTGAGTTATTGATTA
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAAAGGAAGATTGAGTTATTGATTA
* *
31708937 CTCTTGTTATTAAATTAAATTGATTGTGTCTATCTTTGTAATATTTTTTCATCATCCCTATGAA
196 CTCTTGTTATTAAATTAAATTGATTGTGACTATCTTTGTAATATTTTATCATCATCCCTATGAA
* *
31709001 GGGGCTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGTAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* *
31709066 ATCTAAAACTCGTTATGGTATCATATTGACATTGTGAATGAAGAAAAGATTA-ACTTCATATGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAATGAAGAAAAAATTATACTTCATATGAA
* *
31709130 TCACTATTGTTATAAATATCTATTTTGAAAGGAGGAAAAAAAAAGGAGGATTGAGTTATTGATTA
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAAAGGAAGATTGAGTTATTGATTA
* * * *
31709195 CTCTTGTTATTAAATTAAATTGATTGTGACTATCTTTGTGATCTTTTATCATTATCCCTATTAA
196 CTCTTGTTATTAAATTAAATTGATTGTGACTATCTTTGTAATATTTTATCATCATCCCTATGAA
*
31709259 GGGGTTGAAAGCAAAATATTTAACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
*
31709324 ATTTAAAACTCGTTATGGT
66 ATCTAAAACTCGTTATGGT
31709343 TGGATGCACC
Statistics
Matches: 319, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
258 211 0.66
259 108 0.34
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (259 bp):
GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAATGAAGAAAAAATTATACTTCATATGAA
TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAAAGGAAGATTGAGTTATTGATTA
CTCTTGTTATTAAATTAAATTGATTGTGACTATCTTTGTAATATTTTATCATCATCCCTATGAA
Found at i:31733032 original size:96 final size:96
Alignment explanation
Indices: 31732868--31733061 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 96
31732858 ATTATACATA
* *
31732868 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATGGATTAATTTTTTAACGA
1 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACGA
31732933 AAAATATTATTTTATTTTTTAATTTAATTTT
66 AAAATATTATTTTATTTTTTAATTTAATTTT
*
31732964 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAGGA
1 ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACGA
31733029 AAAATATTATTTTATTTTTTAATTTAATTTT
66 AAAATATTATTTTATTTTTTAATTTAATTTT
31733060 AT
1 AT
31733062 CATTTTTAAA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (96 bp):
ATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAACGA
AAAATATTATTTTATTTTTTAATTTAATTTT
Found at i:31744024 original size:14 final size:14
Alignment explanation
Indices: 31744005--31744044 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31743995 TTGATTGCCA
31744005 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
31744019 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
31744033 GGAAAATGTTTT
1 GTAAAATGTTTT
31744045 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:31744053 original size:20 final size:20
Alignment explanation
Indices: 31744028--31744067 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31744018 CGTAAAATGA
*
31744028 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
31744048 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
31744068 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:31744057 original size:34 final size:35
Alignment explanation
Indices: 31744013--31744079 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
31744003 CAGTAAAATG
*
31744013 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
31744047 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
31744080 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Done.