Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 64 of 185
Found at i:20175734 original size:177 final size:177
Alignment explanation
Indices: 20175438--20175795 Score: 626
Period size: 177 Copynumber: 2.0 Consensus size: 177
20175428 CAAGTGATTG
* * *
20175438 GTGAGTGTTTGGAATCGCTGTTAGTAGACATGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
1 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
* *
20175503 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGCTTTCTATTTCCCCTTGATTTATTTTGGTAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
* * *
20175568 GTGTGATTATGTGAATAATTGTGGATTGAGTAATATGATGTGTTATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
*
20175615 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAGGAATAGC
1 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
*
20175680 CTAAACCCGTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
20175745 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
20175792 GTGA
1 GTGA
20175796 CATGAGATGT
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 171 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (177 bp):
GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
Found at i:20177896 original size:15 final size:15
Alignment explanation
Indices: 20177860--20177897 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20177850 AATGCTTATT
*
20177860 TTGAAAATAATTAAA
1 TTGAAAATAATAAAA
20177875 TCT-AAAATAATAAAA
1 T-TGAAAATAATAAAA
20177890 TTGAAAAT
1 TTGAAAAT
20177898 GAAGCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (15 bp):
TTGAAAATAATAAAA
Found at i:20178505 original size:20 final size:21
Alignment explanation
Indices: 20178465--20178505 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20178455 AGACTAAATC
20178465 GGAAACTAATAAAACTTTTTA
1 GGAAACTAATAAAACTTTTTA
20178486 GGAAAC-AATGAAAA-TTTTTA
1 GGAAACTAAT-AAAACTTTTTA
20178506 AAATTTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (21 bp):
GGAAACTAATAAAACTTTTTA
Found at i:20182097 original size:15 final size:16
Alignment explanation
Indices: 20182068--20182097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20182058 CAAACATGCT
20182068 TTAACACATTATCAAA
1 TTAACACATTATCAAA
20182084 TTAACACA-TATCAA
1 TTAACACATTATCAA
20182098 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:20182576 original size:15 final size:16
Alignment explanation
Indices: 20182558--20182587 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20182548 TTTCATTTTT
20182558 ATTTCA-TTACTTTCC
1 ATTTCATTTACTTTCC
20182573 ATTTCATTTACTTTC
1 ATTTCATTTACTTTC
20182588 TTTAACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTCATTTACTTTCC
Found at i:20183532 original size:2 final size:2
Alignment explanation
Indices: 20183525--20183551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20183515 ACATAATAAC
20183525 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 A
20183552 GATTTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20189461 original size:21 final size:21
Alignment explanation
Indices: 20189437--20189479 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
20189427 TTTTTTCAGA
20189437 ACCATCTTCCAAGTTGGGTTG
1 ACCATCTTCCAAGTTGGGTTG
20189458 ACCATCTTCCAAGTTGGGTTG
1 ACCATCTTCCAAGTTGGGTTG
20189479 A
1 A
20189480 ATTGAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (21 bp):
ACCATCTTCCAAGTTGGGTTG
Found at i:20194196 original size:115 final size:114
Alignment explanation
Indices: 20193997--20194334 Score: 516
Period size: 115 Copynumber: 2.9 Consensus size: 114
20193987 AGCCTCGACA
20193997 TAAAGTGGTACTCGAGGAACTTTC-ATGAGTGGTAGAACAATCACCAAGTTCAATTCGTGAGAAA
1 TAAAGTGGTACTCGAGGAACTTTCGA-GAGTGGTAGAACAATCACCAAGTTCAATTC-TGAGAAA
* * * *
20194061 TTTGCAAAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCGAGG
64 GTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
* * * *
20194112 TAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAACAATCACCAAGTTTAATTCTCAAAAAAG
1 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTCT-GAGAAAG
* *
20194177 TTGTAGAAAAACCTGCAAACGATCAACAACATCGAGGAATACGCTCAAGG
65 TTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
*
20194227 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATCCTTGAGAAAG
1 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTC-TGAGAAAG
* *
20194292 TTGTAGAAAAACCTACAAAAGATCAACAACATAGAAGAATACG
65 TTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
20194335 TCGTAGTGGG
Statistics
Matches: 201, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
114 1 0.00
115 199 0.99
116 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (114 bp):
TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTCTGAGAAAGT
TGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
Found at i:20195739 original size:45 final size:45
Alignment explanation
Indices: 20195675--20195846 Score: 208
Period size: 45 Copynumber: 3.9 Consensus size: 45
20195665 TACTGGGTAC
*
20195675 CATTGATTATAAAGGTGGTTGTTGTGTGCCGATTCCACCAAGTAT
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
*
20195720 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAGGTA-
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
* * * *
20195764 CTATTGATTATGAAGGTGGCTT-TTATGTGTTGATTCCACTAAGTAT
1 C-ATTGATTATAAAGGTGG-TTGTTGTGTGCTGATTCCACCAAGTAT
* * * *
20195810 CATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACC
20195847 GTGTATCTGT
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
43 6 0.05
44 10 0.09
45 91 0.83
46 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
Found at i:20195827 original size:90 final size:88
Alignment explanation
Indices: 20195670--20195846 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 88
20195660 ACGTGTACTG
* *
20195670 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCCGATTCCACCAAGTATCATTGATTATAAAGG
1 GGTACCATTGATTATAAAGGTGGTTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAGG
* *
20195735 TGGTTGTTGTGTGCTGATTCCACCA
66 TGG-TGCTATGTGCTGA-TCCACCA
* * ** * *
20195760 GGTACTATTGATTATGAAGGTGGCTT-TTATGTGTTGATTCCACTAAGTATCATTGACTATAAGG
1 GGTACCATTGATTATAAAGGTGG-TTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAG
20195824 GTGGTGCTATGTGCTGATCCACC
65 GTGGTGCTATGTGCTGATCCACC
20195847 GTGTATCTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
88 6 0.08
89 11 0.14
90 57 0.75
91 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (88 bp):
GGTACCATTGATTATAAAGGTGGTTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAGG
TGGTGCTATGTGCTGATCCACCA
Found at i:20199165 original size:15 final size:15
Alignment explanation
Indices: 20199147--20199175 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20199137 TATTTTACTA
20199147 TTATGTCTTTTGTAT
1 TTATGTCTTTTGTAT
20199162 TTATGTCTTTTGTA
1 TTATGTCTTTTGTA
20199176 GTTTGCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTTGTAT
Found at i:20210694 original size:20 final size:20
Alignment explanation
Indices: 20210658--20210695 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20210648 ATGTCCACAT
*
20210658 TTCTGGCAGCTTGTCTGCAA
1 TTCTGGCAGCTTATCTGCAA
*
20210678 TTCTGGCAGTTTATCTGC
1 TTCTGGCAGCTTATCTGC
20210696 GTATTTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (20 bp):
TTCTGGCAGCTTATCTGCAA
Found at i:20220584 original size:19 final size:19
Alignment explanation
Indices: 20220560--20220599 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
20220550 AATAATGAGC
20220560 TAATTCCAACCAGGATGAT
1 TAATTCCAACCAGGATGAT
20220579 TAATTCCAACCAGGATGAT
1 TAATTCCAACCAGGATGAT
20220598 TA
1 TA
20220600 CAGGTTGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (19 bp):
TAATTCCAACCAGGATGAT
Found at i:20223253 original size:16 final size:16
Alignment explanation
Indices: 20223234--20223275 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
20223224 ATTAGTAGTT
20223234 AATAAATAATTTCGTA
1 AATAAATAATTTCGTA
* *
20223250 AATAAATAAATTGGTA
1 AATAAATAATTTCGTA
20223266 AATAAATAAT
1 AATAAATAAT
20223276 AATAAACTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (16 bp):
AATAAATAATTTCGTA
Found at i:20225018 original size:6 final size:6
Alignment explanation
Indices: 20225007--20225048 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
20224997 TTTTAGTTAG
20225007 TTATTT TTATTT TTACTTT TTATTT TTA-TT TTATTT ATTATT
1 TTATTT TTATTT TTA-TTT TTATTT TTATTT TTATTT -TTATT
20225049 CTATTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 11 0.33
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:20225038 original size:12 final size:12
Alignment explanation
Indices: 20225007--20225048 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
20224997 TTTTAGTTAG
20225007 TTATTTTTATTT
1 TTATTTTTATTT
20225019 TTACTTTTTATTT
1 TTA-TTTTTATTT
20225032 TTA-TTTTATTT
1 TTATTTTTATTT
20225043 ATTATT
1 -TTATT
20225049 CTATTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.30
12 6 0.22
13 13 0.48
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:20225601 original size:299 final size:299
Alignment explanation
Indices: 20225063--20225663 Score: 1139
Period size: 299 Copynumber: 2.0 Consensus size: 299
20225053 TTTTGTTTCC
20225063 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
1 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
20225128 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
66 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
* *
20225193 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGTAGAAAAGGTGCTCAACATCAA
131 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
20225258 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
196 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
20225323 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
261 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
* * *
20225362 GCAAATAAACTTCAGATGCAATCAATATTGGTTTTAATTTACTTTTTGGGTTTTTCTCTTATTAT
1 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
*
20225427 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGTTCTGCTTAAGTTTGGGGGGATTGTGCC
66 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
20225492 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
131 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
20225557 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
196 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
*
20225622 ATGTTAAGTAAATCATGAAATGAATGTTGATTTTAATGA
261 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
20225661 GCA
1 GCA
20225664 TGTATAGATT
Statistics
Matches: 295, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
299 295 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (299 bp):
GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
Found at i:20226097 original size:2 final size:2
Alignment explanation
Indices: 20226092--20226126 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20226082 CCTATGTGGA
20226092 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20226127 AGTATCAATG
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20226366 original size:21 final size:21
Alignment explanation
Indices: 20226342--20226381 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20226332 GTCTCATACA
20226342 TCAA-CATAAACATAGCATAAG
1 TCAATCATAAACAT-GCATAAG
*
20226363 TCAATCATATACATGCATA
1 TCAATCATAAACATGCATA
20226382 TCATCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
TCAATCATAAACATGCATAAG
Found at i:20229528 original size:23 final size:22
Alignment explanation
Indices: 20229502--20229546 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20229492 AAATTGTTTA
20229502 TTTA-CCATTTAAGTCCATTTAAT
1 TTTATCCA-TTAAG-CCATTTAAT
*
20229525 TTTATTCATTAAGCCATTTAAT
1 TTTATCCATTAAGCCATTTAAT
20229547 CATTCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTAAT
Found at i:20230606 original size:68 final size:68
Alignment explanation
Indices: 20230497--20230633 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
20230487 GGGCTTAGAC
*
20230497 AGAACAGCTTGAAGGATTCAGAACCTTTCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
1 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
20230562 ATT
66 ATT
* *
20230565 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGCAAACTTCATTCCAGACCCA
1 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
20230630 ATT
66 ATT
20230633 A
1 A
20230634 CATGGATACT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (68 bp):
AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
ATT
Found at i:20234950 original size:24 final size:24
Alignment explanation
Indices: 20234918--20234964 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
20234908 TTGCAGATTG
*
20234918 AAAAAAAT-ATTAGTAAATTAATT
1 AAAAAAATAATTACTAAATTAATT
*
20234941 AAAAATAATAATTACTAATTTAAT
1 AAAAA-AATAATTACTAAATTAAT
20234965 CGAGTCACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAAAAATAATTACTAAATTAATT
Found at i:20247486 original size:15 final size:15
Alignment explanation
Indices: 20247466--20247497 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20247456 AAAGAAATAA
20247466 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
20247481 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
20247496 TT
1 TT
20247498 GGTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAAACT
Found at i:20248225 original size:37 final size:37
Alignment explanation
Indices: 20248174--20248246 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
20248164 TATATAGGCT
* *
20248174 TATGCACATTGTGTGTCAGGATGCGCTTATGCGCCAA
1 TATGCACATTGTGTGCCAGGATGCACTTATGCGCCAA
*
20248211 TATGCAC-TTCGTGTGCCAGGATGCACTTATGTGCCA
1 TATGCACATT-GTGTGCCAGGATGCACTTATGCGCCA
20248247 GAATGCGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (37 bp):
TATGCACATTGTGTGCCAGGATGCACTTATGCGCCAA
Found at i:20248245 original size:18 final size:18
Alignment explanation
Indices: 20248175--20248258 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
20248165 ATATAGGCTT
* *
20248175 ATGCACATTGTGTGTCAGG
1 ATGCAC-TTATGTGCCAGG
* * **
20248194 ATGCGCTTATGCGCCAAT
1 ATGCACTTATGTGCCAGG
*
20248212 ATGCACTTCGTGTGCCAGG
1 ATGCACTT-ATGTGCCAGG
*
20248231 ATGCACTTATGTGCCAGA
1 ATGCACTTATGTGCCAGG
*
20248249 ATGCGCTTAT
1 ATGCACTTAT
20248259 ACGCCAATAT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
18 31 0.62
19 19 0.38
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (18 bp):
ATGCACTTATGTGCCAGG
Found at i:20248264 original size:55 final size:56
Alignment explanation
Indices: 20248175--20248280 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
20248165 ATATAGGCTT
* * * *
20248175 ATGCACATTGTGTGTCAGGATGCGCTTATGCGCCAATATGCACTTCGTGTGCCAGG
1 ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
*
20248231 ATGCAC-TTATGTGCCAGAATGCGCTTATACGCCAATATGCATTTCGTGTG
1 ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTG
20248281 ACAATTTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 39 0.87
56 6 0.13
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (56 bp):
ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
Found at i:20250336 original size:16 final size:19
Alignment explanation
Indices: 20250298--20250336 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
20250288 TTTTTCCCTA
20250298 ATTAAGTAATTTTTAAATC
1 ATTAAGTAATTTTTAAATC
20250317 -TTAAGT-A-TTTTAAA-C
1 ATTAAGTAATTTTTAAATC
20250332 ATTAA
1 ATTAA
20250337 AGGGCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 11 0.58
17 1 0.05
18 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTAAGTAATTTTTAAATC
Found at i:20250735 original size:75 final size:76
Alignment explanation
Indices: 20250584--20250758 Score: 228
Period size: 75 Copynumber: 2.3 Consensus size: 76
20250574 TAAACTCACA
** * *
20250584 TTAAATGTTACTTAAAACATTAAGGGGTTTTAAAGAAATAAAGAAACTCATAAATAACGGGAAAT
1 TTAAATGTTACTT-AAACATTAAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
20250649 TTACTTAATTTC
65 TTACTTAATTTC
* * * * *
20250661 TTAAATGTTACATAAAGATTAAAGGACTTTTAAA-AAATTAAGTAACTCA-AAATAATGAGAAAA
1 TTAAATGTTACTTAAACATT-AAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
20250724 TTACTTAATTTC
65 TTACTTAATTTC
20250736 TTAAATGTTACTTAAAACATTAA
1 TTAAATGTTACTT-AAACATTAA
20250759 AAATTCCTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 37 0.44
76 25 0.29
77 23 0.27
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (76 bp):
TTAAATGTTACTTAAACATTAAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAAT
TACTTAATTTC
Found at i:20250792 original size:23 final size:24
Alignment explanation
Indices: 20250766--20250813 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20250756 TAAAAATTCC
20250766 TAAATCTT-GCTAAATTACTTAAT
1 TAAATCTTGGCTAAATTACTTAAT
* *
20250789 TAAATCTTGGGTAATTTACTTAAT
1 TAAATCTTGGCTAAATTACTTAAT
20250813 T
1 T
20250814 TCTTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (24 bp):
TAAATCTTGGCTAAATTACTTAAT
Found at i:20250966 original size:77 final size:77
Alignment explanation
Indices: 20250649--20251160 Score: 333
Period size: 77 Copynumber: 6.8 Consensus size: 77
20250639 AACGGGAAAT
* * * * * * **
20250649 TTACTTAATTTCTTAAATG-TTACATAAA-GATT-AAAGGACTTTTAAAAAATTAAGTAACTCAA
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGA-TTTTAAGAAATCAAATAATTTTA
** * *
20250711 AATAATGAGAAAA
65 AATCTTGGGTAAA
* * ** *
20250724 TTACTTAATTTCTTAAATG-TTACTTAAAACATTAAAA--ATTCCTAA-ATCTTGCTAAATTACT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATT-TTAAGA-AAT-C-AAA-TAAT
*
20250785 TAATTAAATCTTGGGTAAT
61 T--TTAAATCTTGGGTAAA
*
20250804 TTACTTAATTTCTTAAATGA-GACTTAAAAT-ATT-AAAGGATTTTTAA-AAAT-AAATTAATTT
1 TTACTTAATTTCTTAAATGATTACTT-AAATCATTAAAAGGA-TTTTAAGAAATCAAA-TAATTT
20250864 CTAAATCTTGGGTAAA
63 -TAAATCTTGGGTAAA
* * * *
20250880 TAACTTAATTTTTTAAA-GATTACTTAAATCATTAAAAGGCTTTTAAGAAATCAAATAATTCTTG
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATT-TTA
*
20250944 AATCTTGGGAAAA
65 AATCTTGGGTAAA
* * ***
20250957 TTACTTAATTTCTTAAATG-TTACTTAAAACATTAAAAGGATTTAAAGAAATCACGGAATTTTTA
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAA-TTTTA
20251021 AATCTTGGGTAAA
65 AATCTTGGGTAAA
* * * * *
20251034 TTATTTAATTTCTTAAATG-TTGC------C----AAAGGAATTTAAAGAAATTAAGTAATTACT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGG-ATTTTAAGAAATCAAATAATT--T
*
20251088 T-AATCAT-GGTAAA
63 TAAATCTTGGGTAAA
* * *
20251101 TTATTTAATTTCTTAAATG-TTACTTAAAACATTAAAGGGATTTTAAGAAATCAAATAATT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATT
20251161 CGAAAATCAA
Statistics
Matches: 351, Mismatches: 50, Indels: 71
0.74 0.11 0.15
Matches are distributed among these distances:
67 35 0.10
68 21 0.06
69 2 0.01
71 1 0.00
73 1 0.00
74 3 0.01
75 39 0.11
76 63 0.18
77 127 0.36
78 10 0.03
79 3 0.01
80 36 0.10
81 8 0.02
82 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (77 bp):
TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATTTTAA
ATCTTGGGTAAA
Found at i:20251610 original size:17 final size:17
Alignment explanation
Indices: 20251580--20251713 Score: 89
Period size: 17 Copynumber: 7.9 Consensus size: 17
20251570 TTTATAATTA
*
20251580 TATTTTTAGAATATTTTT
1 TATTTTTA-TATATTTTT
20251598 TATTTTTATATATTTTT
1 TATTTTTATATATTTTT
** *
20251615 TAAATTTATA-A--TTA
1 TATTTTTATATATTTTT
*
20251629 TATTTTTAGAATATTTTT
1 TATTTTTA-TATATTTTT
*
20251647 TATTTGTATATATTTTT
1 TATTTTTATATATTTTT
**
20251664 TAAATTTAT-TATTTTAT
1 TATTTTTATATATTTT-T
* * *
20251681 T-TTTTGAAAATATTTATG
1 TATTTT-TATATATTT-TT
20251699 TATTTTTATATATTT
1 TATTTTTATATATTT
20251714 CTTTTAATTT
Statistics
Matches: 87, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 10 0.11
17 33 0.38
18 30 0.34
19 5 0.06
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TATTTTTATATATTTTT
Found at i:20251625 original size:49 final size:49
Alignment explanation
Indices: 20251564--20251724 Score: 232
Period size: 49 Copynumber: 3.2 Consensus size: 49
20251554 TAAATTTAAA
20251564 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
*
20251613 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTGTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
* * * *
20251662 TTTAAATTTATTATTTTATTTTTTGAAAATATTTATGTATTTTTATATATTT
1 TTTAAATTTATAATTATA-TTTTT-AGAATATTT-TTTATTTTTATATATTT
*
20251714 CTTTTAATTTA
1 -TTTAAATTTA
20251725 CTAGAATTAG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 64 0.63
50 5 0.05
51 8 0.08
52 15 0.15
53 9 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (49 bp):
TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
Found at i:20251629 original size:23 final size:23
Alignment explanation
Indices: 20251603--20251685 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 23
20251593 TTTTTTATTT
20251603 TTATATATTTTTTAAATTTATAA
1 TTATATATTTTTTAAATTTATAA
** * *
20251626 TTATAT-TTTTAGAATATTTTTTATT
1 TTATATATTTTTTAA-A-TTTATA-A
*
20251651 TGTATATATTTTTTAAATTTATTA
1 T-TATATATTTTTTAAATTTATAA
20251675 TT-T-TATTTTTT
1 TTATATATTTTTT
20251686 GAAAATATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
21 8 0.17
22 7 0.15
23 8 0.17
24 6 0.13
25 5 0.11
26 6 0.13
27 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATATATTTTTTAAATTTATAA
Found at i:20257070 original size:75 final size:77
Alignment explanation
Indices: 20256927--20257075 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 77
20256917 TATTAATTTA
* * * * *
20256927 TTTTAAGAAATTAGGTAATTCTTAAATCATAGGAAAATTACATTAATTTTATAAAGGAAACTTAA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTTATAAACGAAACATAA
20256992 AACAATAAAGGT
66 AACAATAAAGGT
** * **
20257004 TTTTAAGAAA-TAAGTAATTCCTAAATTGT-GGATAAATAAC-TTAATTTTGTAAACGCTACATA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGA-AAATAACATTAATTTTATAAACGAAACATA
*
20257066 AAACATTAAA
65 AAACAATAAA
20257076 CGATTTTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 29 0.48
76 21 0.35
77 10 0.17
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (77 bp):
TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTTATAAACGAAACATAA
AACAATAAAGGT
Found at i:20257298 original size:16 final size:16
Alignment explanation
Indices: 20257279--20257311 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20257269 TAGTTTTATT
*
20257279 AATATTTAATTTTAAA
1 AATATTTAATATTAAA
20257295 AATATTTAATATTAAA
1 AATATTTAATATTAAA
20257311 A
1 A
20257312 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAATATTAAA
Found at i:20257578 original size:2 final size:2
Alignment explanation
Indices: 20257573--20257597 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20257563 ATTTTTTTAA
20257573 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 A
20257598 AAAGCTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20259655 original size:69 final size:69
Alignment explanation
Indices: 20259538--20259760 Score: 299
Period size: 69 Copynumber: 3.3 Consensus size: 69
20259528 TTTTAAGCTA
* * *
20259538 TTAAAATTAA-TTTTTAA-AGAAAATAGTGAAGAAGTTAGCTATGAGAGTATTCTCTAGTGAATG
1 TTAAAATTAACTTTTTAATA-AAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATG
20259601 TGGGG
65 TGGGG
* *
20259606 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAAAGAATGT
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
20259671 GGGG
66 GGGG
* * * * **
20259675 TTAAAATTATCTTTTTAATAAAAATAGTGAAAAAGTGAGCTATGGGAGTATTATCTAGCCAATGT
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
20259740 -GGG
66 GGGG
* *
20259743 ATAAAATTAACTGTTTAA
1 TTAAAATTAACTTTTTAA
20259761 GGAAAATAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
68 28 0.20
69 108 0.79
70 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (69 bp):
TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
GGGG
Found at i:20270269 original size:20 final size:19
Alignment explanation
Indices: 20270241--20270310 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
20270231 ATATTTAGCT
20270241 TTATATTTATTTATAATTAA
1 TTATATTTATTTATAATT-A
* ** *
20270261 TTATGTTTAAATAAAATTA
1 TTATATTTATTTATAATTA
*
20270280 TTAATATTTATTTATAAAT-
1 TT-ATATTTATTTATAATTA
20270299 TTATTATTTATT
1 TTA-TATTTATT
20270311 ATTATATTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 13 0.33
20 25 0.64
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATATTTATTTATAATTA
Found at i:20270371 original size:24 final size:24
Alignment explanation
Indices: 20270344--20270390 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
20270334 CATATTATTA
* * *
20270344 TTTATCCATAGTATATAAAATATG
1 TTTATCAAAAGTAGATAAAATATG
*
20270368 TTTATTAAAAGTAGATAAAATAT
1 TTTATCAAAAGTAGATAAAATAT
20270391 TCACCTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
TTTATCAAAAGTAGATAAAATATG
Found at i:20271621 original size:47 final size:47
Alignment explanation
Indices: 20271548--20271640 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
20271538 GTTAATGTCA
20271548 AGTTATCGTACCCACAGGGACCGTGAAAAGAATTATTTATGAATGCG
1 AGTTATCGTACCCACAGGGACCGTGAAAAGAATTATTTATGAATGCG
*
20271595 AGTTATCGTACCCACAGGGACTGTGAAAAGAATTATTTATGAATGC
1 AGTTATCGTACCCACAGGGACCGTGAAAAGAATTATTTATGAATGC
20271641 TATTTAAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (47 bp):
AGTTATCGTACCCACAGGGACCGTGAAAAGAATTATTTATGAATGCG
Found at i:20272224 original size:11 final size:11
Alignment explanation
Indices: 20272210--20272235 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20272200 ATTTTTTTAA
20272210 TTTTAAAATAT
1 TTTTAAAATAT
20272221 TTTTAAAATAT
1 TTTTAAAATAT
20272232 TTTT
1 TTTT
20272236 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:20272252 original size:23 final size:23
Alignment explanation
Indices: 20272225--20272275 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
20272215 AAATATTTTT
**
20272225 AAAATATTTTTTTATTT-TTAAA
1 AAAATATTTTGGTATTTATTAAA
20272247 ATAAAT-TTTTGGTATTTATTAAA
1 A-AAATATTTTGGTATTTATTAAA
20272270 AAAATA
1 AAAATA
20272276 GACCGGGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AAAATATTTTGGTATTTATTAAA
Found at i:20272256 original size:22 final size:22
Alignment explanation
Indices: 20272218--20272274 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
20272208 AATTTTAAAA
*
20272218 TATTTTTAAAAT--ATTTTT-T
1 TATTTTTAAAATAAATTTTTGG
20272237 TATTTTTAAAATAAATTTTTGG
1 TATTTTTAAAATAAATTTTTGG
20272259 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
20272275 AGACCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 12 0.36
21 6 0.18
22 9 0.27
23 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:20272263 original size:30 final size:30
Alignment explanation
Indices: 20272181--20272256 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
20272171 TCGAATATAA
**
20272181 TAAATATATAATTTTTTTTATTTTTTTAATTT
1 TAAA-ATA-AATTTTTAATATTTTTTTAATTT
*
20272213 TAAAAT--ATTTTTAAAATATTTTTTTATTTT
1 TAAAATAAATTTTT--AATATTTTTTTAATTT
20272243 TAAAATAAATTTTT
1 TAAAATAAATTTTT
20272257 GGTATTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.16
30 19 0.51
31 2 0.05
32 10 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TAAAATAAATTTTTAATATTTTTTTAATTT
Found at i:20276674 original size:50 final size:49
Alignment explanation
Indices: 20276549--20276791 Score: 175
Period size: 50 Copynumber: 4.8 Consensus size: 49
20276539 GATATTAACA
* * * *
20276549 TGCCAAAGCCATGTTCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TTTCATAT-CGG
* * * * *
20276598 TGCAAATGCCATATCTCAGATATGGTCTTACATGAGAGTTTTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* ** * * *
20276648 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* * * * * **
20276698 TGTCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCAT-A--TC---GG
20276754 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
20276792 CTCATTCCCT
Statistics
Matches: 151, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 78 0.52
53 2 0.01
56 34 0.23
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTTCATATCGG
Found at i:20281162 original size:45 final size:45
Alignment explanation
Indices: 20281111--20281200 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
20281101 AACATTGCAA
20281111 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
1 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
20281156 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
1 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
20281201 TTCAACTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (45 bp):
AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
Found at i:20283027 original size:24 final size:25
Alignment explanation
Indices: 20282989--20283043 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
20282979 CGGTTGGGAA
*
20282989 AGAAAAACTTAAGTTAGGGAATTGG
1 AGAAAAAATTAAGTTAGGGAATTGG
* *
20283014 GGAAAAAATT-AGTTAGGGATTTGG
1 AGAAAAAATTAAGTTAGGGAATTGG
20283038 AGAAAA
1 AGAAAA
20283044 TGATTTAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (25 bp):
AGAAAAAATTAAGTTAGGGAATTGG
Found at i:20283549 original size:20 final size:20
Alignment explanation
Indices: 20283526--20283567 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
20283516 TTAATTTATT
*
20283526 AATTTAAAT-TTTGGGGACTA
1 AATTGAAATATTT-GGGACTA
*
20283546 AATTGAAATATTTTGGACTA
1 AATTGAAATATTTGGGACTA
20283566 AA
1 AA
20283568 CTAAATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
AATTGAAATATTTGGGACTA
Found at i:20287875 original size:28 final size:28
Alignment explanation
Indices: 20287839--20287894 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
20287829 ATGAATTAAA
* *
20287839 CTAATTAAATTAATTAAACTAAAATAAC
1 CTAACTAAATTAAGTAAACTAAAATAAC
**
20287867 CTAACTAAATTAAGTAGTCTAAAATAAC
1 CTAACTAAATTAAGTAAACTAAAATAAC
20287895 TTATTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (28 bp):
CTAACTAAATTAAGTAAACTAAAATAAC
Found at i:20303786 original size:3 final size:3
Alignment explanation
Indices: 20303778--20303815 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20303768 AGTGCATAAA
20303778 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
20303816 GATCTTTGTA
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:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:20309970 original size:27 final size:27
Alignment explanation
Indices: 20309910--20310081 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
20309900 CCCTAAAATA
*
20309910 GGTAAAATAACCAAAATACCCC-ATAG
1 GGTAAAATGACCAAAATACCCCTATAG
20309936 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
*
20309963 GGTAAAATGATCAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
* *
20309990 GGTAGAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
* * * *
20310017 GGTAGAATGAACAAAATACCCCCACAG
1 GGTAAAATGACCAAAATACCCCTATAG
* * *
20310044 GGTAAAATGACCGAAATACCTCAATAG
1 GGTAAAATGACCAAAATACCCCTATAG
20310071 GGTAAAATGAC
1 GGTAAAATGAC
20310082 TGTTATACCC
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 21 0.16
27 109 0.84
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCTATAG
Found at i:20310615 original size:33 final size:34
Alignment explanation
Indices: 20310543--20310607 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
20310533 TCATAGTATG
** *
20310543 ACTGATATCTATTACTGTTATGGGCCAAGGCCCC
1 ACTGATATCTATTACTGAAATGGGCAAAGGCCCC
*
20310577 ACTGATA-CTATTACTGAAATTGGCAAAGGCC
1 ACTGATATCTATTACTGAAATGGGCAAAGGCC
20310608 TTACTGATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (34 bp):
ACTGATATCTATTACTGAAATGGGCAAAGGCCCC
Found at i:20312648 original size:20 final size:21
Alignment explanation
Indices: 20312625--20312664 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
20312615 GGGTGAGAAG
20312625 AAAAAGTTTAGGGG-GAAAAT
1 AAAAAGTTTAGGGGAGAAAAT
*
20312645 AAAAAGTTTTGGGGAGAAAA
1 AAAAAGTTTAGGGGAGAAAA
20312665 AGTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (21 bp):
AAAAAGTTTAGGGGAGAAAAT
Found at i:20312678 original size:23 final size:23
Alignment explanation
Indices: 20312651--20312694 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20312641 AAATAAAAAG
20312651 TTTTGG-GGAGAAAAAGTTTAATA
1 TTTTGGAGG-GAAAAAGTTTAATA
*
20312674 TTTTGGAGGGAAAATGTTTAA
1 TTTTGGAGGGAAAAAGTTTAA
20312695 AAAATTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (23 bp):
TTTTGGAGGGAAAAAGTTTAATA
Found at i:20312997 original size:9 final size:9
Alignment explanation
Indices: 20312979--20313015 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20312969 TATAATTTTA
20312979 TATTCGAAT
1 TATTCGAAT
*
20312988 TATTCTAAT
1 TATTCGAAT
*
20312997 TATTCGAGT
1 TATTCGAAT
20313006 TATTCGAAT
1 TATTCGAAT
20313015 T
1 T
20313016 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20321971 original size:22 final size:23
Alignment explanation
Indices: 20321938--20321981 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
20321928 TCTATCGAAA
*
20321938 ATTATCAAAATTCATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
20321961 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
20321982 CAACATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:20324419 original size:138 final size:137
Alignment explanation
Indices: 20324171--20324425 Score: 305
Period size: 138 Copynumber: 1.9 Consensus size: 137
20324161 GAGCCATAAA
* * * ** *
20324171 TAGGTCTCCTCACACAAGTTAATGGTCGGAATGTAACTACACGATGCCACTTGCACAAGCTGATG
1 TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAACTACACAATACCACTCACACAAGCTAATG
* * * *
20324236 AGTATTTGCAAAAAATGTTGAAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCTGAGCAT
66 AGTATTTGCAAAAAATGTAGAAACTCAACCATCGGTAGAAAATTCAAGACCAGCACCCTGAGCAT
20324301 GGTAACC
131 GGTAACC
* * * ***
20324308 TAGGTCTGCTGACACAAGCTGATGGTCGGAATGTAAGCTACACAATATTGCTCACACAAGCTAAT
1 TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAA-CTACACAATACCACTCACACAAGCTAAT
* * * *
20324373 GAGTATTTGTAATAAATGTCAG-ACCTCAGCCATCGGTAGAAAATTCAAGACCA
65 GAGTATTTGCAAAAAATGT-AGAAACTCAACCATCGGTAGAAAATTCAAGACCA
20324426 ACATCCAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
137 32 0.33
138 63 0.66
139 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (137 bp):
TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAACTACACAATACCACTCACACAAGCTAATG
AGTATTTGCAAAAAATGTAGAAACTCAACCATCGGTAGAAAATTCAAGACCAGCACCCTGAGCAT
GGTAACC
Found at i:20337123 original size:17 final size:18
Alignment explanation
Indices: 20337101--20337136 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
20337091 AAGAAAAGCA
*
20337101 TAAAAATTAAAA-CAAAT
1 TAAAAATCAAAACCAAAT
20337118 TAAAAATCAAAACCAAAT
1 TAAAAATCAAAACCAAAT
20337136 T
1 T
20337137 CCTATGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAATCAAAACCAAAT
Found at i:20351370 original size:27 final size:29
Alignment explanation
Indices: 20351310--20351370 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
20351300 CATAGTTGTA
20351310 ACACCCCTAACCCATGCATAAACCGTTCAT
1 ACACCCCTAA-CCATGCATAAACCGTTCAT
* *
20351340 ACACCCCTAA-CAT-CATTAATCGTTCAT
1 ACACCCCTAACCATGCATAAACCGTTCAT
20351367 ACAC
1 ACAC
20351371 ATGTATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.55
28 3 0.10
30 10 0.34
ACGTcount: A:0.34, C:0.38, G:0.05, T:0.23
Consensus pattern (29 bp):
ACACCCCTAACCATGCATAAACCGTTCAT
Found at i:20352613 original size:16 final size:16
Alignment explanation
Indices: 20352570--20352613 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
20352560 TGATAGGTCT
*
20352570 CCGA-CGAGCTTCCAG
1 CCGACCGAGCTTCCAA
* *
20352585 CCGACTGATCTTCCAA
1 CCGACCGAGCTTCCAA
20352601 CCGACCGAGCTTC
1 CCGACCGAGCTTC
20352614 TAAAAAATCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.18
Consensus pattern (16 bp):
CCGACCGAGCTTCCAA
Found at i:20359249 original size:26 final size:26
Alignment explanation
Indices: 20359197--20359251 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20359187 GGATTATTTA
* **
20359197 GTTAGCCTTTATGACGTATCCTGTAT
1 GTTAGCCTTTATGACATATCCAATAT
*
20359223 GTTAGCCTTTATGACATATTCAATAT
1 GTTAGCCTTTATGACATATCCAATAT
20359249 GTT
1 GTT
20359252 TCCTTTGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (26 bp):
GTTAGCCTTTATGACATATCCAATAT
Found at i:20360507 original size:23 final size:23
Alignment explanation
Indices: 20360485--20360530 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20360475 TGTAAAGCCT
*
20360485 TTATGTTG-TATTCTATGATGCC
1 TTATGTGGATATTCTATGATGCC
20360507 -TATGTGGCATATTCTATGATGCC
1 TTATGTGG-ATATTCTATGATGCC
20360530 T
1 T
20360531 GTGGGGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (23 bp):
TTATGTGGATATTCTATGATGCC
Found at i:20360538 original size:23 final size:23
Alignment explanation
Indices: 20360493--20360544 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
20360483 CTTTATGTTG
*
20360493 TATTCTATGATGCCTATGTGGCA
1 TATTCTATGATGCCTATGGGGCA
*
20360516 TATTCTATGATGCCTGTGGGGCA
1 TATTCTATGATGCCTATGGGGCA
20360539 TATTCT
1 TATTCT
20360545 GTAAAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (23 bp):
TATTCTATGATGCCTATGGGGCA
Found at i:20362237 original size:20 final size:20
Alignment explanation
Indices: 20362212--20362259 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20362202 TGCTATACAA
20362212 AGGCACTGTAATGTAAACAG
1 AGGCACTGTAATGTAAACAG
* * **
20362232 AGGCACCGTAGTGTAAATGG
1 AGGCACTGTAATGTAAACAG
20362252 AGGCACTG
1 AGGCACTG
20362260 AATTGCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (20 bp):
AGGCACTGTAATGTAAACAG
Found at i:20368158 original size:23 final size:23
Alignment explanation
Indices: 20368132--20368207 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
20368122 AGGGCATTAC
20368132 AGAATACGCCATAAAGGCATCAT
1 AGAATACGCCATAAAGGCATCAT
* *
20368155 AGAATACGCCACAAAGGCATCAC
1 AGAATACGCCATAAAGGCATCAT
* *
20368178 AGAATATGCCATAAAGGAATCAT
1 AGAATACGCCATAAAGGCATCAT
20368201 AGAATAC
1 AGAATAC
20368208 ACCACAGAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (23 bp):
AGAATACGCCATAAAGGCATCAT
Found at i:20368180 original size:46 final size:46
Alignment explanation
Indices: 20368124--20368213 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
20368114 TTGCCTCAAG
* * *
20368124 GGCATTACAGAATACGCCATAAAGGCATCATAGAATACGCCACAAA
1 GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACAAA
*
20368170 GGCATCACAGAATATGCCATAAAGGAATCATAGAATACACCACA
1 GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACA
20368214 GAGCGTGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (46 bp):
GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACAAA
Found at i:20373951 original size:31 final size:31
Alignment explanation
Indices: 20373916--20373978 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
20373906 CATAGTTTGA
*
20373916 AAATAACTAGATATTGCATTGTTGGCATTCT
1 AAATAACTAGACATTGCATTGTTGGCATTCT
20373947 AAATAACTAGACATTGCATTGTTGGCATTCT
1 AAATAACTAGACATTGCATTGTTGGCATTCT
20373978 A
1 A
20373979 TCTTTTGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (31 bp):
AAATAACTAGACATTGCATTGTTGGCATTCT
Found at i:20376644 original size:20 final size:22
Alignment explanation
Indices: 20376606--20376645 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20376596 ATGCAATATT
20376606 TAAAATGCTAACTAAAATGTCC
1 TAAAATGCTAACTAAAATGTCC
20376628 TAAAATGC-AAC-AAAATGT
1 TAAAATGCTAACTAAAATGT
20376646 ACTTAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAAATGCTAACTAAAATGTCC
Found at i:20379989 original size:48 final size:49
Alignment explanation
Indices: 20379913--20380061 Score: 180
Period size: 48 Copynumber: 3.1 Consensus size: 49
20379903 AACAGATTTC
* * * *
20379913 TCGGTGGCCTGCACATAGTCCGTTCCACCCTTGTATCCTAACAAG-TTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
* *
20379961 TTGGTGGCCTGCACACAGTCCATGCCACCCTTGTGTCAC-AAC-AGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTC-CTAACAAGAATA
* * *
20380009 TCGGTGGCCTACACACAGTCCGTGCCACCCTTGTGTCATAAC-AGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
20380057 TCGGT
1 TCGGT
20380062 ATGCATAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
47 2 0.02
48 84 0.97
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (49 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
Found at i:20387551 original size:48 final size:48
Alignment explanation
Indices: 20387492--20387688 Score: 243
Period size: 48 Copynumber: 4.1 Consensus size: 48
20387482 AATAGATTTC
* * * * * *
20387492 TCGGTAGCCTGCACACAATCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
* * * *
20387540 TCGGTGGCCTGCACATAGTCCGTTCCACCCTTGTATCCTAACA-AGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTA
* * * * *
20387588 TTGGTGGCCTGTACATAGTCCGTGCCACCCTTGTGTCACAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
20387636 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
20387684 TCGGT
1 TCGGT
20387689 ACACATAGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 124 0.98
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
Found at i:20392035 original size:6 final size:6
Alignment explanation
Indices: 20392024--20392121 Score: 62
Period size: 6 Copynumber: 16.8 Consensus size: 6
20392014 ATGAGAGAAA
* ** *
20392024 AAAATC AAAATC AAAATC AAAAAC AAAAAG AAAA-- AAAATC AAAGTC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
** * * *
20392070 AAAAGAAA AAAATA AAAATC --AATC AAAACC AAAATC AAAGTC AAAAT-
1 -AAA-ATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
20392117 AAAAT
1 AAAAT
20392122 ATGAAAAGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
4 8 0.11
5 5 0.07
6 55 0.74
7 6 0.08
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:20392082 original size:42 final size:40
Alignment explanation
Indices: 20392036--20392146 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 40
20392026 AATCAAAATC
20392036 AAAATCAAAAACAAAAAGAAAAAAAATCAAAGTCAAAAGAAA
1 AAAAT-AAAAACAAAAAGAAAAAAAATCAAAGTCAAAA-AAA
* ** *
20392078 AAAATAAAAATCAATCAA-AACCAAAATCAAAGTCAAAATAA
1 AAAATAAAAA-CAA-AAAGAAAAAAAATCAAAGTCAAAAAAA
* *
20392119 AATATGAAAAGAGAAAAAGAAAAGAAAA
1 AAAAT-AAAA-ACAAAAAGAAAA-AAAA
20392147 GGAGAGGCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
41 13 0.24
42 34 0.63
43 7 0.13
ACGTcount: A:0.73, C:0.09, G:0.08, T:0.10
Consensus pattern (40 bp):
AAAATAAAAACAAAAAGAAAAAAAATCAAAGTCAAAAAAA
Found at i:20393743 original size:86 final size:85
Alignment explanation
Indices: 20393595--20393924 Score: 403
Period size: 86 Copynumber: 3.8 Consensus size: 85
20393585 ATCAGTGAAA
* * * * *
20393595 CAGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGG-TAAAGAAGTAAATCTTG
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCT-GGTTAAAAAAGCAGATCTTG
20393659 CCCTCCTGCATTAACAGCAGAG
65 CCCTCCTGCATTAACAGC-GAG
* *
20393681 CAGATCGAAAACAAAGCCTTACCTCCATCGATTGTAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
*
20393746 CTTCCTGCATTAACAGCGAAG
66 CCTCCTGCATTAACAGCG-AG
* * * * *
20393767 CAGATCGAAAACAAAGCC-TATCCTCTATTGGTTGCAGTGGAGCTGGTTAAAGATGTAGATCTTG
1 CAGATCGAAAACAAAGCCTTA-CCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTG
* * *
20393831 CCTTCCTACATTAACAGCGGAA
65 CCCTCCTGCATTAACAGC-GAG
* * * * *
20393853 CAGATCGAAAACAATGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTG
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTT-AAAAAAGCAGATCTTG
20393918 CCCTCCT
65 CCCTCCT
20393925 ACGTCGACAG
Statistics
Matches: 210, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
85 5 0.02
86 186 0.89
87 19 0.09
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (85 bp):
CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
CCTCCTGCATTAACAGCGAG
Found at i:20393881 original size:172 final size:173
Alignment explanation
Indices: 20393595--20393948 Score: 471
Period size: 172 Copynumber: 2.1 Consensus size: 173
20393585 ATCAGTGAAA
*
20393595 CAGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
* * *
20393660 CCTCCTGCATTAACAGCAGAGCAGATCGAAAACAAAGCCTTACCTCCATCGATTGTAGTGGAGCT
66 CCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
* * *
20393725 GGTT-AAAAAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAG
131 GGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
* * * *
20393767 CAGATCGAAAACAAAGCCTAT-CCTCTATTGGTTGCAGTGGAGCT-GGTTAAAGATGTAGATCTT
1 CAGATCGAAAACAAAGCCT-TGCCTCCATCGGTTGCAGTGGAGCTAGG-TAAAGAAGTAAATCTT
* * * * * *
20393830 GCCTTCCTACATTAACAGCGGAACAGATCGAAAACAATGTCTTGCCTCCATCGGTTGCAGTGGAG
64 GCCCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAG
* * * * *
20393895 CTGGTTGAAGATAGCAGATCTTGCCCTCCTACGTCGACAGTGAAG
129 CTGGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
20393940 CAGATCGAA
1 CAGATCGAA
20393949 GATTACAAAT
Statistics
Matches: 157, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
171 2 0.01
172 115 0.73
173 40 0.25
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (173 bp):
CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
CCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
GGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
Found at i:20394193 original size:44 final size:45
Alignment explanation
Indices: 20394089--20394198 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
20394079 AAGCAGGTCT
* * * * *
20394089 TATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
* * *
20394134 TATCTCCCTGAAGTTACAGTGGATCAGATTGAAGCCGAT-AATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
*
20394178 TATCTCCCTGAAGTTATAGTG
1 TATCTCCCTGAAGTTACAGTG
20394199 CAGTGGATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
44 24 0.43
45 32 0.57
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
Found at i:20394337 original size:85 final size:87
Alignment explanation
Indices: 20394085--20394340 Score: 243
Period size: 85 Copynumber: 2.9 Consensus size: 87
20394075 AAGTAAGCAG
20394085 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATC-AATCTTATCTCCCTGAAGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT-A-CAAATCTTATCTCCCTGAAGTT
* *
20394149 ACAGTGGATCAGATTGAAGCCGATA
64 GCAGTGGAGCAGATTGAAGCCGA-A
* * * ** ** ** ** *
20394174 ATCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAG-TA-ATAGATCTTATCTCTCTGAAGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACA-A-ATCTTATCTCCCTGAAGTT
* ** * *
20394237 GCAGTAGAGTGGATTGCA-TCG-A
64 GCAGTGGAGCAGATTGAAGCCGAA
* *
20394259 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCATATCTCCCTGAGGTTGC
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCTTATCTCCCTGAAGTTGC
20394324 AGTGGAGCAGATTGAAG
66 AGTGGAGCAGATTGAAG
20394341 TCAATAATCC
Statistics
Matches: 124, Mismatches: 37, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
85 58 0.47
86 3 0.02
87 5 0.04
88 31 0.25
89 27 0.22
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (87 bp):
GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTGAAGCCGAA
Found at i:20394355 original size:44 final size:43
Alignment explanation
Indices: 20394042--20394358 Score: 201
Period size: 44 Copynumber: 7.3 Consensus size: 43
20394032 TCGCATCGGG
* * * * * * *
20394042 TCTTATCTCCCTAAAATTGTAGCGGAGCAGACT-AAGTAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAA-TA-A
* * * *
20394086 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAAT-AA
* * **
20394131 TCTTATCTCCCTGAAGTTACAGTGGATCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAATAA
* ** * ** *
20394175 TCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAGTAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATA-A
* * ** * ** *
20394219 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATTGCA-T-CGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATAA
* * *
20394260 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TA-ATAA
* *
20394304 TCATATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AATAA
*
20394348 TCCTATCTCCC
1 TCTTATCTCCC
20394359 CAACGTTGCG
Statistics
Matches: 209, Mismatches: 54, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
41 28 0.13
42 1 0.00
43 7 0.03
44 132 0.63
45 38 0.18
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATAA
Found at i:20394367 original size:44 final size:44
Alignment explanation
Indices: 20394275--20394373 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
20394265 TCCCCCTGAA
* ** *
20394275 GTTGCAGTGGGGCAGATCGAAGATACAAATCATATCTCCCTGAG
1 GTTGCAGTGGAGCAGATCGAAGATACAAATCATATCTCCCCAAC
* *
20394319 GTTGCAGTGGAGCAGATTGAAG-T-CAATAATCCTATCTCCCCAAC
1 GTTGCAGTGGAGCAGATCGAAGATAC-A-AATCATATCTCCCCAAC
*
20394363 GTTGCGGTGGA
1 GTTGCAGTGGA
20394374 AAGGATCGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 43 0.93
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (44 bp):
GTTGCAGTGGAGCAGATCGAAGATACAAATCATATCTCCCCAAC
Found at i:20394406 original size:173 final size:174
Alignment explanation
Indices: 20394085--20394416 Score: 413
Period size: 173 Copynumber: 1.9 Consensus size: 174
20394075 AAGTAAGCAG
*
20394085 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCTTATCTCCCTGAAGTTA
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCATATCTCCCTGAAGTTA
* * * * ** * *
20394150 CAGTGGATCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAGTAA
66 CAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAAGTTACAGTGCAAAGGATCAAAGCAA
* * *
20394215 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATTGCATCGA
131 CAGATCCTATCTCTCTGAAGATGCAGTAGAGTGGATTGCATCGA
*
20394259 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT-A-CAAATCATATCTCCCTGAGGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATC-AATCATATCTCCCTGAAGTT
* * * * * *
20394322 GCAGTGGAGCAGATTGAAGTCAATAATCCTATCTCCC-CAACGTTGCGGTGGAAAGGATCGAAGC
65 ACAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAA-GTTACAGTGCAAAGGATCAAAGC
*
20394386 ACCA-ATTCCTATAC-CTCTGAAGATGCAGTAG
129 AACAGA-TCCTAT-CTCTCTGAAGATGCAGTAG
20394417 GATGGAATGA
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
172 4 0.03
173 89 0.66
174 41 0.31
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (174 bp):
GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCATATCTCCCTGAAGTTA
CAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAAGTTACAGTGCAAAGGATCAAAGCAA
CAGATCCTATCTCTCTGAAGATGCAGTAGAGTGGATTGCATCGA
Found at i:20401828 original size:218 final size:221
Alignment explanation
Indices: 20401473--20401875 Score: 647
Period size: 218 Copynumber: 1.8 Consensus size: 221
20401463 TTTATAATGC
* * * * *
20401473 TTAAAATGTTGTTTATATAGATCTTTAATTTAAAATATTTTTATAGCGAGGAGTTTGATGCAGGC
1 TTAAAATGTTGTTTATAAAGATCTTTAATATAAAATAATTTTATAGCAAGGAGTCTGATGCAGGC
*
20401538 GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAATTTTAAG
66 GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTTAAG
*
20401603 GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATTCAAAATTTTTTTAAAAAATAGGC
131 GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTTTAAAAAATAGGC
20401668 TTTCACGCCTGCATCAGACTCTTCGT
196 TTTCACGCCTGCATCAGACTCTTCGT
*
20401694 TTAAAATGTTGTTTATAAAGAT-TTTTATATAAACA-ACATTTTA-AGCAAGGAGTCTGATGCAG
1 TTAAAATGTTGTTTATAAAGATCTTTAATATAAA-ATA-ATTTTATAGCAAGGAGTCTGATGCAG
20401756 GCGTGAAAGCCTCTTTTTTTT-AAAAAA-T-TTATGTTTTAATTTTAATATTTATTTAAAAATTT
64 GCGTGAAAGCCT-TTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTT
* *
20401818 AAGTAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAATTTTTTTTA
128 AAGGAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTTTA
20401876 TATAATGTCT
Statistics
Matches: 169, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
218 88 0.52
219 1 0.01
220 45 0.27
221 35 0.21
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (221 bp):
TTAAAATGTTGTTTATAAAGATCTTTAATATAAAATAATTTTATAGCAAGGAGTCTGATGCAGGC
GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTTAAG
GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTTTAAAAAATAGGC
TTTCACGCCTGCATCAGACTCTTCGT
Found at i:20404160 original size:230 final size:235
Alignment explanation
Indices: 20403754--20404450 Score: 830
Period size: 230 Copynumber: 3.0 Consensus size: 235
20403744 GTAACACGTA
* * * * *
20403754 ATATATTAATCATTATCATATATTATCGTTTATTATTCTA--G-TTGAAATATGCTCTGAGTCCT
1 ATATATTAATTATTATCATATA-TATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCC
* * *
20403816 TATACTTTTCCTACATGTGAAAGTTAACCCTCCTACTATAATATATAATGTTATATCATATCATA
65 TATAATTTTCATACATTTGAAAGTTAACCCT--TACTAT-ATATATAATGTTATATCATATCATA
* * *
20403881 TAGTGTATAATATATTAATATTTATATGTATGCATCAATGATTAAACATTATAATATCATGTAAT
127 TAGTATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAAT
*
20403946 ACTATATCTTTTATTATATTCTATAATATAATAGTAGT-GCAT-T
192 ACTATATCTTTTATTATAATCTATAATATAATA-TAGTAGCATAT
*
20403989 ATATATTAATTATTATCATATATATTTTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
1 ATATATTAATTATTATCATATATATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
* * * *
20404054 ATAATTTTCGTACATTTGAAAGTT-AGCCTT-C-GTAT-TATAATGTTAGATCATATCAT-TAGT
66 ATAATTTTCATACATTTGAAAGTTAACCCTTACTATATATATAATGTTATATCATATCATATAGT
* *
20404114 ATATAATATATTAATAGCTTATATATATGCATCAATGATCAAACATTATAATATCATCTAATACT
131 ATATAATATATTAATAG-TTATATATATGCATCAATGATTAAACATTATAATATCATGTAATACT
* *
20404179 ATATCTTTTATTATAGTCTATAATATATATAATAGTAGTATAGT
195 ATATCTTTTATTATAATCTATAATATA-AT-ATAGTAGCATA-T
* * * * *
20404223 ATATATTATTTACTAT-ATAT-TATTGTTTATTATTATACT-AGTTGAAATATGTTTTAAGTCTC
1 ATATATTAATTATTATCATATATATTGTTTATTATTATACTGA-TTGAAATATGCTCTAAGTCCC
* * * *
20404285 TATACATTTT-ATACATTTTAAAGTTAATCATCTTCCTATATTATATAATGCTATATCATATCAT
65 TATA-ATTTTCATACATTTGAAAGTTAA-C-CCTTACTATA-TATATAATGTTATATCATATCAT
* * * * * *
20404349 GTAATATGTAATATATTAATAGTT-TATATTTGCATCAATAATTAAACATTATAATACCATGTAA
126 ATAGTATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAA
*
20404413 TACTATATATTTTATTATAATCTATAATATAATATAGT
191 TACTATATCTTTTATTATAATCTATAATATAATATAGT
20404451 TATATATAAT
Statistics
Matches: 402, Mismatches: 41, Indels: 37
0.84 0.09 0.08
Matches are distributed among these distances:
229 19 0.05
230 90 0.22
231 9 0.02
232 58 0.14
233 11 0.03
234 30 0.07
235 24 0.06
236 11 0.03
237 45 0.11
238 65 0.16
239 21 0.05
240 19 0.05
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (235 bp):
ATATATTAATTATTATCATATATATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
ATAATTTTCATACATTTGAAAGTTAACCCTTACTATATATATAATGTTATATCATATCATATAGT
ATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATACTA
TATCTTTTATTATAATCTATAATATAATATAGTAGCATAT
Found at i:20408850 original size:44 final size:44
Alignment explanation
Indices: 20408796--20408890 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
20408786 ATGGTCCAAC
* *
20408796 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
20408840 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
20408884 CATGGAC
1 CATGGAC
20408891 CTTGAGATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (44 bp):
CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:20410501 original size:18 final size:17
Alignment explanation
Indices: 20410471--20410524 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
20410461 TGCATCAATG
20410471 ATTAAACATTATAATATT
1 ATTAAA-ATTATAATATT
*
20410489 ATGTAAAATTATATATTTT
1 AT-TAAAATTATA-ATATT
*
20410508 ATTATAATTGATAATAT
1 ATTAAAATT-ATAATAT
20410525 AATAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (17 bp):
ATTAAAATTATAATATT
Found at i:20410853 original size:226 final size:227
Alignment explanation
Indices: 20410430--20410895 Score: 652
Period size: 226 Copynumber: 2.1 Consensus size: 227
20410420 ATGTCATATC
* * * *
20410430 ATATATATAATATATTAATAGCTTATATTTATGCATCAATGATTAAACATTATAATATTATGTAA
1 ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTAA
* *
20410495 AATTATATATTTTATTATAATTGATAATATAATAATAGTTATATATAATAGTAGTACATTATATA
66 AACTATATATTTTATTATAATTGATAATATAATAATAATTATATATAATAGTAGTACATTATATA
* *
20410560 TTACATATTATTATATATAACTGTTTATTAGTATACTAGTTGAAATATGCTCTAAGTCCCTATAC
131 TTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTATAC
*
20410625 TTTTCGTACATTTGAAAA-TTAGCTTTCTTGCT
196 TTTTCATACATTT-AAAAGTTAGCTTTCTTGCT
*
20410657 ATATCATATCATATATTAATAG-TT-TATATATGCATAAATAATTAAACATTATAATATCATGTA
1 ATAT-ATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTA
* * * *
20410720 ATACTATATCTTTTATTATAATCT-ATATTATAATAATAATTATATATAATTGTAGTACATTATA
65 AAACTATATATTTTATTATAAT-TGATAATATAATAATAATTATATATAATAGTAGTACATTATA
* * * * * * *
20410784 TATTGCTTATTGTTATATATTATTATTTATTATTATACTAGTTGAAATATGCTCAAAGTCTCTAT
129 TATTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTAT
* * *
20410849 ACTTTTCATACATTTAAAAGTTAGCTCTCCTACT
194 ACTTTTCATACATTTAAAAGTTAGCTTTCTTGCT
20410883 ATATTATATAATA
1 ATA-TATATAATA
20410896 CTATCGTATT
Statistics
Matches: 210, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
225 4 0.02
226 182 0.87
227 8 0.04
228 16 0.08
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (227 bp):
ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTAA
AACTATATATTTTATTATAATTGATAATATAATAATAATTATATATAATAGTAGTACATTATATA
TTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTATAC
TTTTCATACATTTAAAAGTTAGCTTTCTTGCT
Found at i:20411265 original size:5 final size:5
Alignment explanation
Indices: 20411038--20411252 Score: 430
Period size: 5 Copynumber: 43.0 Consensus size: 5
20411028 GTAATAGTTA
20411038 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20411088 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20411138 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20411188 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20411238 TATAT TATAT TATAT
1 TATAT TATAT TATAT
20411253 ATTTTTATTT
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 210 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:20413517 original size:21 final size:22
Alignment explanation
Indices: 20413488--20413544 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
20413478 TGTTAAAGAA
20413488 AAACC-CATAAGGGTTGAAC-G
1 AAACCTCATAAGGGTTGAACGG
* * *
20413508 AAAGCTCATAAGAGCTGAACGG
1 AAACCTCATAAGGGTTGAACGG
20413530 AAACCT-ATAAGGGTT
1 AAACCTCATAAGGGTT
20413545 AAATTGAAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
AAACCTCATAAGGGTTGAACGG
Found at i:20413540 original size:42 final size:41
Alignment explanation
Indices: 20413488--20413591 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
20413478 TGTTAAAGAA
* *
20413488 AAACCCATAAGGGTTGAACGAAAGCTCATAAGAGCTGAACGG
1 AAACCCATAAGGGTTAAACG-AAGCTCAAAAGAGCTGAACGG
* * * *
20413530 AAACCTATAAGGGTTAAATTGAAGCTCAAAATAGCTGAACTG
1 AAACCCATAAGGGTTAAA-CGAAGCTCAAAAGAGCTGAACGG
*
20413572 AAACCCATTAGGGTTAAACG
1 AAACCCATAAGGGTTAAACG
20413592 GAAACTTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 50 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACGAAGCTCAAAAGAGCTGAACGG
Found at i:20414573 original size:20 final size:16
Alignment explanation
Indices: 20414527--20414563 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20414517 CCTAGAAATC
*
20414527 TTTAGAATTCAATTTA
1 TTTAAAATTCAATTTA
20414543 TTTAAAATTCAATTTA
1 TTTAAAATTCAATTTA
20414559 TTTAA
1 TTTAA
20414564 GTTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTAAAATTCAATTTA
Found at i:20414783 original size:21 final size:21
Alignment explanation
Indices: 20414758--20414799 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20414748 ATTTTTATTT
*
20414758 AATTAACTATCAAAACTTTAA
1 AATTAACTAACAAAACTTTAA
* *
20414779 AATTATCTAACAGAACTTTAA
1 AATTAACTAACAAAACTTTAA
20414800 TACTAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (21 bp):
AATTAACTAACAAAACTTTAA
Found at i:20421538 original size:21 final size:21
Alignment explanation
Indices: 20421512--20421553 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20421502 ATCCAGAAAG
*
20421512 TCTAGTACCAGTCAAAATTAA
1 TCTAGTACCAGCCAAAATTAA
20421533 TCTAGTACCAGCCAAAATTAA
1 TCTAGTACCAGCCAAAATTAA
20421554 CTTTCAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
TCTAGTACCAGCCAAAATTAA
Found at i:20424981 original size:14 final size:15
Alignment explanation
Indices: 20424958--20424986 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20424948 TTGTTTTTTG
20424958 GTTTCTTTTTTCTTT
1 GTTTCTTTTTTCTTT
20424973 GTTTC-TTTTTCTTT
1 GTTTCTTTTTTCTTT
20424987 TTTGAGCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (15 bp):
GTTTCTTTTTTCTTT
Found at i:20429725 original size:22 final size:23
Alignment explanation
Indices: 20429700--20429759 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
20429690 TGGACTGAAT
20429700 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
20429722 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
20429744 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
20429760 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:20429727 original size:4 final size:4
Alignment explanation
Indices: 20429709--20429742 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
20429699 TATAAAAATT
20429709 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
20429743 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:20431148 original size:23 final size:22
Alignment explanation
Indices: 20431096--20431148 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
20431086 TCCACGTCTT
*
20431096 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
20431118 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
20431141 TTTCTTTT
1 TTTCTTTT
20431149 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:20433955 original size:45 final size:45
Alignment explanation
Indices: 20433891--20433990 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
20433881 CTACATCTGC
*
20433891 GTCACATCCTACTACAACACCTAG-TCCTTCACAAGCAACACCTAT
1 GTCACATCCTACCACAACACCTAGCT-CTTCACAAGCAACACCTAT
* * *
20433936 GTCACATCCTACCACAACACCTAGCTCTTCACATGTAACACCTGT
1 GTCACATCCTACCACAACACCTAGCTCTTCACAAGCAACACCTAT
20433981 GTCACATCCT
1 GTCACATCCT
20433991 GATCGCCACA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.24
Consensus pattern (45 bp):
GTCACATCCTACCACAACACCTAGCTCTTCACAAGCAACACCTAT
Found at i:20442182 original size:24 final size:23
Alignment explanation
Indices: 20442127--20442188 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
20442117 TTGTTTGTGG
*
20442127 TTAAATGACTGATTTGTCTGTGT
1 TTAAATGACTGATTTGTCTATGT
**
20442150 TTGGTATGACTGATTTGTCTATGAT
1 TT-AAATGACTGATTTGTCTATG-T
20442175 TTAAATGACTGATT
1 TTAAATGACTGATT
20442189 CTGAGCATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.06
24 27 0.84
25 3 0.09
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (23 bp):
TTAAATGACTGATTTGTCTATGT
Found at i:20442295 original size:27 final size:27
Alignment explanation
Indices: 20442251--20442316 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
20442241 TATGGAGGAA
*
20442251 ATAC-TGTACTGGTGGCTTTGCCACA-
1 ATACTTGTACTGGTGGCTTGGCCACAT
*
20442276 ATCACTTTTACTGGTGGCTTGGCCACAT
1 AT-ACTTGTACTGGTGGCTTGGCCACAT
20442304 ATACTTGTACTGG
1 ATACTTGTACTGG
20442317 CAGCTTTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 29 0.83
28 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
ATACTTGTACTGGTGGCTTGGCCACAT
Found at i:20442342 original size:26 final size:26
Alignment explanation
Indices: 20442313--20442369 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
20442303 TATACTTGTA
20442313 CTGGCAGCTTTG-TTGCGATACTATTG
1 CTGGCAGCTTTGATT-CGATACTATTG
*
20442339 CTGGCAGCTTTGATTCGATGCTATTG
1 CTGGCAGCTTTGATTCGATACTATTG
*
20442365 ATGGC
1 CTGGC
20442370 TTTGTGCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (26 bp):
CTGGCAGCTTTGATTCGATACTATTG
Found at i:20442399 original size:32 final size:32
Alignment explanation
Indices: 20442363--20442562 Score: 260
Period size: 32 Copynumber: 6.3 Consensus size: 32
20442353 TCGATGCTAT
*
20442363 TGATGGCTTTGTGCCGATCATATTACTATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * * *
20442395 TGATGGCTATGTGCCGATCATATTACCATTAT
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * *
20442427 TGATGG-TTGTGTACCGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCAATCATATTACTATTAC
* *
20442459 TAATGGCTTTGTGCCAATCATACTACTATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
20442491 TGATGGCTTTGTGCCAATCATATTACTACTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
20442523 TGATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
20442554 TTATGGCTT
1 TGATGGCTT
20442563 GTAGCCATTC
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
31 12 0.08
32 134 0.91
33 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCAATCATATTACTATTAC
Found at i:20442579 original size:22 final size:22
Alignment explanation
Indices: 20442554--20442605 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
20442544 ATTACTGTAC
* *
20442554 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATCCTGT
*
20442576 TTATAGCTTATAGCCATCCTGT
1 TTATGGCTTATAGCCATCCTGT
*
20442598 TTACGGCT
1 TTATGGCT
20442606 CTTAGTCGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TTATGGCTTATAGCCATCCTGT
Found at i:20449167 original size:42 final size:43
Alignment explanation
Indices: 20449105--20449213 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
20449095 AGATTCTCTG
20449105 AGGGGTTGCTAAGTGCTGATTCC-CCGAAT-TATTGACTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGAATAT-TTGACTCTGAA
* * *
20449146 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGAATATTTGACTCTGAA
*
20449190 AGGGGTTGCTATGTGCTGATTCCA
1 AGGGGTTGCTAAGTGCTGATTCCA
20449214 AGTATCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 3 0.05
42 20 0.33
43 31 0.52
44 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGAATATTTGACTCTGAA
Found at i:20449248 original size:41 final size:43
Alignment explanation
Indices: 20449108--20449249 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
20449098 TTCTCTGAGG
* * * *
20449108 GGTTGCTAAGTGCTGATTCC-CCGAATTAT-TGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACAGTA-TATCTGATTGTAAAGGT
* *
20449150 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACAGTATATCTGATTGT-AAAGGT
*
20449193 GGTTGCTATGTGCTGATTCCA-AGTATCA-CTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCACAGTAT-ATCTG-ATTGTAAAGGT
*
20449234 GGTTGCTAAATGCTGA
1 GGTTGCTAAGTGCTGA
20449250 ATCGACCGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 13
0.80 0.07 0.12
Matches are distributed among these distances:
40 4 0.05
41 14 0.16
42 30 0.35
43 33 0.38
44 5 0.06
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACAGTATATCTGATTGTAAAGGT
Found at i:20451173 original size:10 final size:11
Alignment explanation
Indices: 20451109--20451171 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
20451099 TAAAAAATAA
20451109 AAAAAGTATTTT
1 AAAAA-TATTTT
20451121 AAAAATATTTT
1 AAAAATATTTT
* ** *
20451132 AAAAAAAAAAATA
1 --AAAAATATTTT
20451145 AAAAAGTATTTT
1 AAAAA-TATTTT
20451157 AAAAATATTTT
1 AAAAATATTTT
20451168 AAAA
1 AAAA
20451172 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
11 21 0.52
12 12 0.30
13 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:20451177 original size:37 final size:36
Alignment explanation
Indices: 20451088--20451181 Score: 161
Period size: 36 Copynumber: 2.5 Consensus size: 36
20451078 ACCAAAAATT
20451088 TATTTTAAAAATAAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAA-AAAAAAT-AAAAAAGTATTTTAAAAA
20451126 TATTTTAAAAAAAAAAATAAAAAAGTATTTTAAAAA
1 TATTTTAAAAAAAAAAATAAAAAAGTATTTTAAAAA
20451162 TATTTTAAAATAAAAAAATA
1 TATTTTAAAA-AAAAAAATA
20451182 TGTTTATTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
36 28 0.51
37 16 0.29
38 11 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (36 bp):
TATTTTAAAAAAAAAAATAAAAAAGTATTTTAAAAA
Found at i:20452302 original size:14 final size:14
Alignment explanation
Indices: 20452283--20452322 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
20452273 TTGATTGCCA
20452283 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
20452297 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
20452311 GGAAAATGTTTT
1 GTAAAATGTTTT
20452323 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:20452331 original size:20 final size:20
Alignment explanation
Indices: 20452306--20452345 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20452296 TGTAAAATGA
*
20452306 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
20452326 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
20452346 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:20452334 original size:34 final size:35
Alignment explanation
Indices: 20452291--20452357 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
20452281 CAGTAAAATG
*
20452291 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
20452325 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
20452358 TTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:20452777 original size:18 final size:18
Alignment explanation
Indices: 20452756--20452794 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
20452746 GTTGTATCTT
20452756 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
20452774 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
20452792 TAA
1 TAA
20452795 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:20454500 original size:12 final size:12
Alignment explanation
Indices: 20454470--20454502 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
20454460 AAACCAAATC
*
20454470 AAGGGAAAACGA
1 AAGGGAGAACGA
20454482 AAGGGAGAACGA
1 AAGGGAGAACGA
20454494 AAGGGAGAA
1 AAGGGAGAA
20454503 GGGAGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.06, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:20454506 original size:19 final size:19
Alignment explanation
Indices: 20454482--20454521 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20454472 GGGAAAACGA
20454482 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
* *
20454501 AAGGGAGAATGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
20454520 AA
1 AA
20454522 CAAAACCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.45, T:0.03
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:20455809 original size:40 final size:40
Alignment explanation
Indices: 20455764--20455854 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
20455754 ATTCGTTAAT
** * *
20455764 ATAAAAATTTACAGTTTAATAATTTATAAGTAAAAAATTA
1 ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
* * * *
20455804 ATAAAAATCAATAATTTAATAATTTATATGCAACAAGTTA
1 ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
*
20455844 ATAAAATTCAA
1 ATAAAAATCAA
20455855 TATGCTTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.35
Consensus pattern (40 bp):
ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
Found at i:20455855 original size:40 final size:40
Alignment explanation
Indices: 20455778--20455856 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
20455768 AAATTTACAG
*
20455778 TTTAATAATTTATAAGTAAAAAATTAATAAAAATCAATAA
1 TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATAA
* * * *
20455818 TTTAATAATTTATATGCAACAAGTTAATAAAATTCAATA
1 TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATA
20455857 TGCTTTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (40 bp):
TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATAA
Found at i:20461217 original size:21 final size:22
Alignment explanation
Indices: 20461174--20461218 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
20461164 TTAAAATTTG
20461174 TGTTATGTATAGATTAAAATGAT
1 TGTTATGTATAGATT-AAATGAT
20461197 TGTTATGTGATA-ATT-AATGAT
1 TGTTATGT-ATAGATTAAATGAT
20461218 T
1 T
20461219 TGGATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTTATGTATAGATTAAATGAT
Found at i:20461693 original size:21 final size:21
Alignment explanation
Indices: 20461653--20461693 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20461643 ATATGGATTC
*
20461653 TTGAAATGAAAATGTGTGATG
1 TTGAAATGAAAATGTATGATG
20461674 TTGAAA-GAAAATGATATGAT
1 TTGAAATGAAAATG-TATGAT
20461694 TGAGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGAAATGAAAATGTATGATG
Found at i:20463927 original size:19 final size:19
Alignment explanation
Indices: 20463891--20463927 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
20463881 ATCTCAATTC
20463891 AAATTTATTTTTATCATAA
1 AAATTTATTTTTATCATAA
20463910 AAATATTATTTTTA-CATA
1 AAAT-TTATTTTTATCATA
20463928 TGAAAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTATTTTTATCATAA
Found at i:20464816 original size:15 final size:17
Alignment explanation
Indices: 20464798--20464838 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
20464788 ATATTATATT
20464798 TTTATAACATT-TAA-A
1 TTTATAACATTCTAATA
*
20464813 TTTATTA-ATTCTAATA
1 TTTATAACATTCTAATA
20464829 TTTATAACAT
1 TTTATAACAT
20464839 ATATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 7 0.33
17 2 0.10
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTATAACATTCTAATA
Found at i:20465348 original size:23 final size:24
Alignment explanation
Indices: 20465304--20465349 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
20465294 CCACACACTT
*
20465304 TTTATCATCTTTTTAGGGTTTTAG
1 TTTATCAGCTTTTTAGGGTTTTAG
* *
20465328 TTTATCAGGTTTTT-GGTTTTTA
1 TTTATCAGCTTTTTAGGGTTTTA
20465350 CCTGTTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (24 bp):
TTTATCAGCTTTTTAGGGTTTTAG
Found at i:20468364 original size:25 final size:25
Alignment explanation
Indices: 20468336--20468415 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
20468326 AGTAATTGAA
20468336 AAGCTCTTTCGAGCCATATAACGGG
1 AAGCTCTTTCGAGCCATATAACGGG
* *
20468361 AAGCTCATGT-GAGCCATGTAACGGG
1 AAGCTC-TTTCGAGCCATATAACGGG
* * * * *
20468386 AAGTTCTTGCGAGCCAGATATCAGG
1 AAGCTCTTTCGAGCCATATAACGGG
20468411 AAGCT
1 AAGCT
20468416 AGTGAGAGCC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (25 bp):
AAGCTCTTTCGAGCCATATAACGGG
Found at i:20469896 original size:30 final size:30
Alignment explanation
Indices: 20469860--20469918 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
20469850 AAAACCCTCA
20469860 TAGTATAGAATTAGTTTTAGTTTACTTTCG
1 TAGTATAGAATTAGTTTTAGTTTACTTTCG
20469890 TAGTATAGAATTAGTTTTAGTTTACTTTC
1 TAGTATAGAATTAGTTTTAGTTTACTTTC
20469919 TTTTTGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (30 bp):
TAGTATAGAATTAGTTTTAGTTTACTTTCG
Found at i:20478732 original size:195 final size:195
Alignment explanation
Indices: 20478400--20478792 Score: 734
Period size: 195 Copynumber: 2.0 Consensus size: 195
20478390 CATTCAGATC
*
20478400 ATCTGACTCAATCTGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
1 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
20478465 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
66 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
* *
20478530 AACAACATCAAATCGGTC-GAAAAACAGAAATCTCGAATCATCAACGGGAAGTTCTTGCACACTT
131 AACAACATCAAATCAGTCAG-AAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTT
20478594 T
195 T
*
20478595 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAGT
1 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
20478660 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
66 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
20478725 AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
131 AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
20478790 ATC
1 ATC
20478793 AACCAAAACA
Statistics
Matches: 193, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
195 192 0.99
196 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (195 bp):
ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
Done.