Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 8 of 12
Found at i:1048800 original size:61 final size:61
Alignment explanation
Indices: 1048724--1048880 Score: 212
Period size: 61 Copynumber: 2.6 Consensus size: 61
1048714 GAGTTGTGGG
*
1048724 CTTTGAAGAAAAGATGCCACTGAGTCATGGACTTT-GGA-AAGAGATGCCACTGAGTCATAGA
1 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAA-A-ATGCCACTGAGTCATAGA
* * *
1048785 CTTTGAAGAAAAGATGCCACTTAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCGTAGG
1 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCATAGA
* *
1048846 CTTTG-AGAAGAGATTGCCACTGAGTTGTGGACTTT
1 CTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
1048881 AAGAAGGTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
60 7 0.08
61 73 0.85
62 4 0.05
63 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (61 bp):
CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCATAGA
Found at i:1052566 original size:79 final size:78
Alignment explanation
Indices: 1052435--1052653 Score: 332
Period size: 79 Copynumber: 2.8 Consensus size: 78
1052425 AACGGGGCTA
* * *
1052435 GAGTAT-CCTCGATTATGGAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCTTCG
1 GAGTATCCCT-GATTATAGAAAATCGGTGTT-TTGAAATAAAATCGGGGTTGGAGTATCCCCTCG
1052499 AAAATAACAGGGTTG
64 AAAATAACAGGGTTG
*
1052514 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAACTAAAATCGGGGTTGGAGTATCCCCTCGA
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTGAAA-TAAAATCGGGGTTGGAGTATCCCCTCGA
*
1052579 AAATAATAGGGTTG
65 AAATAACAGGGTTG
* *
1052593 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCC
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTG-AAATAAAATCGGGGTTGGAGTATCCCC
1052654 GATTGTGAAA
Statistics
Matches: 129, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 5 0.04
79 118 0.91
80 6 0.05
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GAGTATCCCTGATTATAGAAAATCGGTGTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTG
Found at i:1052650 original size:51 final size:51
Alignment explanation
Indices: 1052583--1052703 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
1052573 CCTCGAAAAT
* *
1052583 AATAGG-GTTGGAGTATCCCTGATTATAGAAAA-TTGGTGTTTT-GAAAATAA
1 AATAGGAGTTGGAGTATCCCCGATTAT-GAAAATTTGGTATTTTAG-AAATAA
* *
1052633 AATCGGAGTTGGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAA
1 AATAGGAGTTGGAGTATCCCCGATTATGAAAATTTGGTATTTTAGAAATAA
*
1052684 AATAGGGGTTGGAGTATCCC
1 AATAGGAGTTGGAGTATCCC
1052704 ATCGAAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 10 0.16
51 51 0.82
52 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (51 bp):
AATAGGAGTTGGAGTATCCCCGATTATGAAAATTTGGTATTTTAGAAATAA
Found at i:1052925 original size:51 final size:50
Alignment explanation
Indices: 1052826--1052940 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 50
1052816 AAATAACGGG
** * *
1052826 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGACATAAAATCGAA
1 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCG-A
* * ** *
1052877 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAATCGG
1 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGA
1052927 GATTGGAGTATCCC
1 G-TTGGAGTATCCC
1052941 TGAGATGAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGA
Found at i:1055265 original size:20 final size:19
Alignment explanation
Indices: 1055240--1055313 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1055230 AAAATGCCTG
* *
1055240 AATGTATCGATATATTGTAA
1 AATGTATCGATACAATG-AA
* *
1055260 AATGTATCGGTACAATGAGC
1 AATGTATCGATACAATGA-A
1055280 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
1055300 AATGTATCGCTACA
1 AATGTATCGATACA
1055314 TCTGGGTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1056167 original size:41 final size:40
Alignment explanation
Indices: 1056083--1056182 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 40
1056073 GTCCCACTTT
* *
1056083 TTGAGGACAAAGGAAAAAAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAGAAATAGGTCCTGCTCC
* * * *
1056123 TTGAGGATAAAGGAAGAGAAGAAAGGAA-AGTGTCCTGCTTC
1 TTGAGGACAAAGGAA-AAAAGAAAGAAATAG-GTCCTGCTCC
1056164 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
1056183 GAGTACGTCC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 16 0.33
41 30 0.61
42 3 0.06
ACGTcount: A:0.43, C:0.10, G:0.28, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAAGAAAGAAATAGGTCCTGCTCC
Found at i:1056247 original size:42 final size:42
Alignment explanation
Indices: 1056201--1056335 Score: 141
Period size: 42 Copynumber: 3.1 Consensus size: 42
1056191 CCTATTTTTC
*
1056201 GAGGACAAAGAAAGAAGGGAAATGAAATACGTCCTGCTCTCT
1 GAGGACAAAGAAAGAAGGGAAATGAAATACGTCCTGCTCTTT
* *
1056243 GAGGATAAAAGAAA-AAGGAAAAT-AAAGTACGTCCTGCTCTTT
1 GAGGA-CAAAGAAAGAAGGGAAATGAAA-TACGTCCTGCTCTTT
* **
1056285 GAGGACAAAAGAGAAAAGAAGGGAAA-GAAGTGTGTCCTGCTCTTT
1 GAGGAC--AA-AG-AAAGAAGGGAAATGAAATACGTCCTGCTCTTT
1056330 GAGGAC
1 GAGGAC
1056336 TGAAAAGTGC
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
41 3 0.04
42 32 0.42
43 9 0.12
44 2 0.03
45 22 0.29
46 9 0.12
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.18
Consensus pattern (42 bp):
GAGGACAAAGAAAGAAGGGAAATGAAATACGTCCTGCTCTTT
Found at i:1056303 original size:119 final size:115
Alignment explanation
Indices: 1056080--1056301 Score: 256
Period size: 118 Copynumber: 1.9 Consensus size: 115
1056070 GGTGTCCCAC
* * *
1056080 TTTTTGAGGACAAAGGAAAAAAGAATGAAATAGGTCTTGCTCCTTGAGGATAAAGGAAGAGAAGA
1 TTTTTGAGGACAAAGGAAAAAAGAATGAAATACGTCCTGCTCCTTGAGGATAAAAGAAGAGAAGA
* *
1056145 AAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCTA
66 AAAGAAAGTGTCCTGCTTCTTGAGGACAAAGAGAAAAAGAGTACGTCCTA
*
1056195 TTTTTCGAGGACAAA-GAAAGAAGGGAAATGAAATACGTCCTGCT-CTCTGAGGATAAAAGAA-A
1 TTTTT-GAGGACAAAGGAAA-AA-AG-AATGAAATACGTCCTGCTCCT-TGAGGATAAAAGAAGA
*
1056257 -AAGGAAAATAAAGTACGTCCTGC-TCTTTGAGGACAAAAGAGAAAA
61 GAA-GAAAAGAAAGT--GTCCTGCTTC-TTGAGGAC-AAAGAGAAAA
1056302 GAAGGGAAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
115 9 0.10
116 13 0.14
117 13 0.14
118 31 0.34
119 15 0.17
120 9 0.10
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (115 bp):
TTTTTGAGGACAAAGGAAAAAAGAATGAAATACGTCCTGCTCCTTGAGGATAAAAGAAGAGAAGA
AAAGAAAGTGTCCTGCTTCTTGAGGACAAAGAGAAAAAGAGTACGTCCTA
Found at i:1056464 original size:122 final size:121
Alignment explanation
Indices: 1056319--1056547 Score: 372
Period size: 122 Copynumber: 1.9 Consensus size: 121
1056309 AAGAAGTGTG
1056319 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GA-AAAGGCATC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAGAAA-GCATC
*
1056382 CTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
64 CTACCCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
* *
1056441 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAGCATCCT
* *
1056506 ACTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTT
66 ACCCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
1056548 AAAAGGCATC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
121 31 0.31
122 66 0.66
123 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAGCATCCT
ACCCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
Found at i:1056553 original size:60 final size:61
Alignment explanation
Indices: 1056319--1056552 Score: 334
Period size: 61 Copynumber: 3.9 Consensus size: 61
1056309 AAGAAGTGTG
*
1056319 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAA-GCA
* * *
1056380 TCCTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAAGCA
*
1056441 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAAGCA
* * *
1056502 TCCTACTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
1056553 GCATCCTACT
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
59 5 0.03
60 29 0.18
61 117 0.74
62 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCA
Found at i:1056700 original size:60 final size:60
Alignment explanation
Indices: 1056591--1056845 Score: 227
Period size: 60 Copynumber: 4.5 Consensus size: 60
1056581 GAAAAGCGAG
* * *
1056591 AGCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAA
1 AGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
* * * *
1056652 GGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCATCTTATGTGGGCTTTAAAAGAATAA
1 AGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
* * *
1056712 AGCATCCTGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGGGCTTT---------A
1 AGCGTCCTGCTCTTTGAGGACTGAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
* * * *
1056764 AGCGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTATAGGCTTT----G-A-AA
1 AGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
*
1056819 GGCGTCCTGCTCTTTGAGGACTGAAGG
1 AGCGTCCTGCTCTTTGAGGACTGAAGG
1056846 GTGAAAGGAG
Statistics
Matches: 165, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
52 43 0.26
53 1 0.01
54 3 0.02
55 22 0.13
59 3 0.02
60 52 0.32
61 41 0.25
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (60 bp):
AGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAA
Found at i:1056794 original size:52 final size:53
Alignment explanation
Indices: 1056709--1056843 Score: 182
Period size: 52 Copynumber: 2.5 Consensus size: 53
1056699 TTTAAAAGAA
* * * * *
1056709 TAAAGCATCCTGCTCTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGGGCTT
1 TAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTATAGGCTT
* *
1056762 T-AAGCGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTATAGGCTT
1 TAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTATAGGCTT
1056814 TGAAAGGCGTCCTGCTCTTTGAGGACTGAA
1 T-AAA-GCGTCCTGCTCTTTGAGGACTGAA
1056844 GGGTGAAAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
52 45 0.63
53 1 0.01
54 2 0.03
55 23 0.32
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (53 bp):
TAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTATAGGCTT
Found at i:1056914 original size:267 final size:266
Alignment explanation
Indices: 1056318--1056943 Score: 817
Period size: 267 Copynumber: 2.3 Consensus size: 266
1056308 AAAGAAGTGT
* * *
1056318 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAAAAGGCATC
* * *
1056382 CTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGC
64 CTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTGAAAAAAGAAAGCATCCTGC
*
1056447 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCTACTCTT
128 TCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT--------AAAGCGTCCTACTCTT
* * * * *
1056512 TGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACAAAA
185 TGAAGACTGAAAGTGCCACCAACTTGTATAGGCTTTAAAAGGCATCCTACTCTTTGAGGACAAAA
*
1056577 AGACGAAAAGCGAGAGC
250 AGACGAAAAGAGAGAGC
* * *
1056594 GTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCC
* *
1056659 TGCTCTTTGAGGACTGAAGGTGCCACCATCTTATGTGGGCTTT-AAAAGAATAAAGCATCCTGCT
65 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTGAAAA-AAGAAAGCATCCTGCT
* * *
1056723 CTTTGAGGACTGGAGAGTGCCACCAACTCGTGTGGGCTTT-AAGCGTCCTGCTCTTTGAAGACTG
129 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAGCGTCCTACTCTTTGAAGACTG
* * * ** * **
1056787 AAAAGTGCCACCAACTTGTATAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGTGAAA
194 -AAAGTGCCACCAACTTGTATAGGCTTTAAAAGGCATCCTACTCTTTGAGGACAAAAAGACGAAA
*
1056852 GGAGAGAGC
258 AGAGAGAGC
*
1056861 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCC
1056926 TGCTCTTTGAGGACTGAA
65 TGCTCTTTGAGGACTGAA
1056944 AAGTGGAAGG
Statistics
Matches: 311, Mismatches: 34, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
266 26 0.08
267 133 0.43
274 3 0.01
275 82 0.26
276 66 0.21
277 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (266 bp):
GTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCCT
GCTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCT
TTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAGCGTCCTACTCTTTGAAGACTGAA
AGTGCCACCAACTTGTATAGGCTTTAAAAGGCATCCTACTCTTTGAGGACAAAAAGACGAAAAGA
GAGAGC
Found at i:1057923 original size:1 final size:1
Alignment explanation
Indices: 1057917--1057996 Score: 70
Period size: 1 Copynumber: 80.0 Consensus size: 1
1057907 CAGATTCTTC
* * * * * * * * *
1057917 TTTTTTTTTTCTCTTTTTTCTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTTGTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1057982 TTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
1057997 GAAAAAGAAT
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:1057944 original size:9 final size:9
Alignment explanation
Indices: 1057931--1057993 Score: 85
Period size: 10 Copynumber: 6.9 Consensus size: 9
1057921 TTTTTTCTCT
1057931 TTTTTCTTTG
1 TTTTT-TTTG
1057941 TTTTTTTTG
1 TTTTTTTTG
1057950 -TTTTTTTG
1 TTTTTTTTG
1057958 -TTTTTTTG
1 TTTTTTTTG
1057966 TTTTTTTTTG
1 -TTTTTTTTG
1057976 TTGTTTTTTG
1 TT-TTTTTTG
1057986 TTTTTTTT
1 TTTTTTTT
1057994 TTTGAAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.32
9 12 0.24
10 22 0.44
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1057954 original size:29 final size:26
Alignment explanation
Indices: 1057917--1057995 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 26
1057907 CAGATTCTTC
* * *
1057917 TTTTTTT-TTTCTCTTTTTTCTTTGT
1 TTTTTTTGTTTTTTTTTTTTTTTTGT
*
1057942 TTTTTTTGTTTTTTTGTTTTTTTGTTTT
1 TTTTTTTGTTTTTTT-TTTTTTT-TTGT
1057970 TTTTTGTTGTTTTTTGTTTTTTTTTT
1 TTTTT-TTGTTTTTT-TTTTTTTTTT
1057996 TGAAAAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
25 7 0.16
26 5 0.11
27 6 0.13
28 10 0.22
29 16 0.36
30 1 0.02
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (26 bp):
TTTTTTTGTTTTTTTTTTTTTTTTGT
Found at i:1057992 original size:10 final size:10
Alignment explanation
Indices: 1057919--1057994 Score: 81
Period size: 10 Copynumber: 7.9 Consensus size: 10
1057909 GATTCTTCTT
*
1057919 TTTTTTTTCTC
1 TTTTTTTT-TG
1057930 TTTTTTCTTTG
1 TTTTTT-TTTG
1057941 -TTTTTTTTG
1 TTTTTTTTTG
1057950 --TTTTTTTG
1 TTTTTTTTTG
1057958 --TTTTTTTG
1 TTTTTTTTTG
1057966 TTTTTTTTTG
1 TTTTTTTTTG
*
1057976 TTGTTTTTTG
1 TTTTTTTTTG
1057986 TTTTTTTTT
1 TTTTTTTTT
1057995 TTGAAAAAGA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
8 16 0.27
9 4 0.07
10 30 0.51
11 7 0.12
12 2 0.03
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1070538 original size:79 final size:78
Alignment explanation
Indices: 1070394--1070613 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 78
1070384 AACGGGGCTA
* * *
1070394 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCAGATTATAGAAAATCGGTGTTTTA-AAAT-AAAATCGGGGTTGGAGTATCCCCTCG
1070459 AAAATAACAGGGTTG
64 AAAATAACAGGGTTG
* *
1070474 GAGTATCCCAGATTATAGAAAATCAGTATTTTAAAACTAAAATCGGGGTTGGAGTATCCCCTCGA
1 GAGTATCCCAGATTATAGAAAATCGGTGTTTTAAAA-TAAAATCGGGGTTGGAGTATCCCCTCGA
1070539 AAATAACAGGGTTG
65 AAATAACAGGGTTG
* * * * * *
1070553 GAGTATCCCTGATTAGAGAAAATTGGTGTTTTGAAAATAAAATCAGAGTTAGAGTATCCCC
1 GAGTATCCCAGATTATAGAAAATCGGTGTTTT-AAAATAAAATCGGGGTTGGAGTATCCCC
1070614 AATTGTGAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
79 92 0.74
80 33 0.26
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
GAGTATCCCAGATTATAGAAAATCGGTGTTTTAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTG
Found at i:1070659 original size:51 final size:51
Alignment explanation
Indices: 1070545--1070659 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 51
1070535 TCGAAAATAA
** *
1070545 CAGGGTTGGAGTATCCCTGATTAGAGAAAATTGGTGTTTTGAAAATAAAAT
1 CAGGGTTGGAGTATCCCCAATTAGAGAAAATTGGTATTTTGAAAATAAAAT
* * *
1070596 CAGAGTTAGAGTATCCCCAATT-GTGAAAATTTGGTATTTT-AGAAATAAAAT
1 CAGGGTTGGAGTATCCCCAATTAGAGAAAA-TTGGTATTTTGA-AAATAAAAT
1070647 -AGGGGTTGGAGTA
1 CA-GGGTTGGAGTA
1070660 ACCCATCGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
50 8 0.15
51 45 0.85
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCAATTAGAGAAAATTGGTATTTTGAAAATAAAAT
Found at i:1070809 original size:79 final size:80
Alignment explanation
Indices: 1070677--1070850 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 80
1070667 GGAAATACCA
* * *
1070677 AGGTTGGAGTAT-CCCTGATGACAAAACTGGGTTGGAGTACCCCCGATTATGAAAAATCAATATT
1 AGGTTGGAGTATCCCCTCATGACAAAACAGGGTTGGAGTACCCCCAATTATGAAAAATCAATATT
*
1070741 TTAGATATAAAATCG
66 TTAGACATAAAATCG
* * * * *** *
1070756 GGGTTGGAGTATCCCCTCA-GA-AATAACAGGGTTGGAGTATCCCTAATTGTGAAAAATTGGTGT
1 AGGTTGGAGTATCCCCTCATGACAA-AACAGGGTTGGAGTACCCCCAATTATGAAAAATCAATAT
1070819 TTTAGACATAAAATCG
65 TTTAGACATAAAATCG
*
1070835 AAGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
1070851 GATTAAGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
78 2 0.03
79 72 0.91
80 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (80 bp):
AGGTTGGAGTATCCCCTCATGACAAAACAGGGTTGGAGTACCCCCAATTATGAAAAATCAATATT
TTAGACATAAAATCG
Found at i:1070895 original size:237 final size:237
Alignment explanation
Indices: 1070468--1070896 Score: 591
Period size: 237 Copynumber: 1.8 Consensus size: 237
1070458 GAAAATAACA
* *
1070468 GGGTTGGAGTATCCCAGATTATAGAAAATCAGTATTTTAAAACTAAAATCGGGGTTGGAGTATCC
1 GGGTTGGAGTACCCCAGATTATAGAAAATCAATATTTTAAAACTAAAATCGGGGTTGGAGTATCC
*
1070533 CCTCGAAAATAACAGGGTTGGAGTATCCCTGATTAGAGAAAATTGGTGTTTTGAAAATAAAATCA
66 CCTCGAAAATAACAGGGTTGGAGTATCCCTAATTAGAGAAAATTGGTGTTTTGAAAATAAAATCA
** * * * *
1070598 GAGTTAGAGTATCCCCAATTGTGAAAATTTGGTATTTTAGAAATAAAATAGGGGTTGGAGTAACC
131 GAGTTAGAGTATCCCCAATTAAGAAAAATTGATATTTTAGAAATAAAACAGGGATTGGAGTAACC
1070663 CATCGGAAATACCAAGGTTGGAGTATCCCTGATGACAAAACT
196 CATCGGAAATACCAAGGTTGGAGTATCCCTGATGACAAAACT
* *
1070705 GGGTTGGAGTACCCCCGATTAT-GAAAAATCAATATTTTAGATA-TAAAATCGGGGTTGGAGTAT
1 GGGTTGGAGTACCCCAGATTATAG-AAAATCAATATTTTA-AAACTAAAATCGGGGTTGGAGTAT
* *
1070768 CCCCTC-AGAAATAACAGGGTTGGAGTATCCCTAATT-GTGAAAAATTGGTGTTTT-AGACATAA
64 CCCCTCGA-AAATAACAGGGTTGGAGTATCCCTAATTAGAG-AAAATTGGTGTTTTGA-AAATAA
* * * ** *
1070830 AATC-GAAGTTGGAGTATCCCCGATTAAGAAAAATTGATATTTTGGAAATCGAACCGGGATTGGA
126 AATCAG-AGTTAGAGTATCCCCAATTAAGAAAAATTGATATTTTAGAAATAAAACAGGGATTGGA
1070894 GTA
190 GTA
1070897 TCCCCGAGAT
Statistics
Matches: 167, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
236 6 0.04
237 159 0.95
238 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (237 bp):
GGGTTGGAGTACCCCAGATTATAGAAAATCAATATTTTAAAACTAAAATCGGGGTTGGAGTATCC
CCTCGAAAATAACAGGGTTGGAGTATCCCTAATTAGAGAAAATTGGTGTTTTGAAAATAAAATCA
GAGTTAGAGTATCCCCAATTAAGAAAAATTGATATTTTAGAAATAAAACAGGGATTGGAGTAACC
CATCGGAAATACCAAGGTTGGAGTATCCCTGATGACAAAACT
Found at i:1073553 original size:11 final size:10
Alignment explanation
Indices: 1073536--1073594 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 10
1073526 AAAGTTATGG
1073536 AAAATTATAC
1 AAAATTATAC
1073546 AAAGATTAT-C
1 AAA-ATTATAC
*
1073556 AAAATTACATC
1 AAAATTATA-C
*
1073567 AAAGTTAT-C
1 AAAATTATAC
*
1073576 AAACTTATAC
1 AAAATTATAC
1073586 AAAAATTAT
1 -AAAATTAT
1073595 TAAAATAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 12 0.31
10 8 0.21
11 19 0.49
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAATTATAC
Found at i:1073559 original size:20 final size:20
Alignment explanation
Indices: 1073536--1073600 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1073526 AAAGTTATGG
1073536 AAAATTATACAAAGATTATC
1 AAAATTATACAAAGATTATC
*
1073556 AAAATTACATCAAAG-TTATC
1 AAAATTATA-CAAAGATTATC
* * *
1073576 AAACTTATACAAAAATTATT
1 AAAATTATACAAAGATTATC
1073596 AAAAT
1 AAAAT
1073601 AGTATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.76
21 5 0.14
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATTATACAAAGATTATC
Found at i:1073620 original size:20 final size:20
Alignment explanation
Indices: 1073597--1073650 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1073587 AAAATTATTA
1073597 AAATAGTATTAAAACCTATC
1 AAATAGTATTAAAACCTATC
*
1073617 AAATCGTATTAAAACCTATC
1 AAATAGTATTAAAACCTATC
1073637 AAATCA-TATTAAAA
1 AAAT-AGTATTAAAA
1073651 TTATATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATAGTATTAAAACCTATC
Found at i:1073684 original size:29 final size:27
Alignment explanation
Indices: 1073650--1073716 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
1073640 TCATATTAAA
* * *
1073650 ATTATATCAAAAGTTGTATTATATATTAT
1 ATTATAT-AAAAGTT-TATAATACAGTAT
*
1073679 ATTATATAAAAATTTATAATACAGTAT
1 ATTATATAAAAGTTTATAATACAGTAT
1073706 ATTATATAAAA
1 ATTATATAAAA
1073717 AGTTATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.62
28 6 0.18
29 7 0.21
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTATATAAAAGTTTATAATACAGTAT
Found at i:1074758 original size:13 final size:13
Alignment explanation
Indices: 1074740--1074764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1074730 ACCAAGATCA
1074740 TATATCGATACAC
1 TATATCGATACAC
1074753 TATATCGATACA
1 TATATCGATACA
1074765 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TATATCGATACAC
Found at i:1074796 original size:20 final size:22
Alignment explanation
Indices: 1074773--1074815 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
1074763 CAAAGCAATA
1074773 TGTATCGATA-TTTC-TGGGTT
1 TGTATCGATACTTTCTTGGGTT
1074793 TGTATCGATACTTTCTTGGGTT
1 TGTATCGATACTTTCTTGGGTT
1074815 T
1 T
1074816 TGACCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 4 0.19
22 7 0.33
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (22 bp):
TGTATCGATACTTTCTTGGGTT
Found at i:1074888 original size:72 final size:72
Alignment explanation
Indices: 1074793--1074950 Score: 307
Period size: 72 Copynumber: 2.2 Consensus size: 72
1074783 TTTCTGGGTT
*
1074793 TGTATCGATACTTTCTTGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTCTATGTATCAATACAA
1 TGTATCGATACTTTCTTGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTCTATATATCAATACAA
1074858 ATACCTA
66 ATACCTA
1074865 TGTATCGATACTTTCTTGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTCTATATATCAATACAA
1 TGTATCGATACTTTCTTGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTCTATATATCAATACAA
1074930 ATACCTA
66 ATACCTA
1074937 TGTATCGATACTTT
1 TGTATCGATACTTT
1074951 GAGTTATTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 85 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (72 bp):
TGTATCGATACTTTCTTGGGTTTTGACCTTTGTAGCTTAAGTCAACCTTCTATATATCAATACAA
ATACCTA
Found at i:1075634 original size:34 final size:34
Alignment explanation
Indices: 1075594--1075660 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
1075584 CTTTTTATAA
1075594 AACAAGTTTATTTCTCAAAATATCTCCCTTTTTC
1 AACAAGTTTATTTCTCAAAATATCTCCCTTTTTC
*
1075628 AACAAGTTTATTTCTCAAAATATCTCTCTTTTT
1 AACAAGTTTATTTCTCAAAATATCTCCCTTTTT
1075661 TAAATGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.46
Consensus pattern (34 bp):
AACAAGTTTATTTCTCAAAATATCTCCCTTTTTC
Found at i:1077798 original size:13 final size:15
Alignment explanation
Indices: 1077767--1077798 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1077757 AATAATCACA
1077767 AAAACAAGATTATTC
1 AAAACAAGATTATTC
1077782 AAAACAA-ATTA-TC
1 AAAACAAGATTATTC
1077795 AAAA
1 AAAA
1077799 GTGTAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 4 0.24
15 7 0.41
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAACAAGATTATTC
Found at i:1081545 original size:21 final size:21
Alignment explanation
Indices: 1081521--1081567 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1081511 ACTAACTTGC
1081521 AATTCAACTATTTTCTTTTCT
1 AATTCAACTATTTTCTTTTCT
**
1081542 AATTCATTTATTTTCTTTTCT
1 AATTCAACTATTTTCTTTTCT
1081563 AATTC
1 AATTC
1081568 TTCTTCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTCAACTATTTTCTTTTCT
Found at i:1082028 original size:3 final size:3
Alignment explanation
Indices: 1082020--1082059 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1082010 CAAGTCAACT
*
1082020 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1082060 GGTTGATGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:1084207 original size:21 final size:21
Alignment explanation
Indices: 1084178--1084238 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
1084168 ATTAAATAAA
* *
1084178 AAAAATTATGAAAATTATATC
1 AAAAGTTATAAAAATTATATC
* * *
1084199 AAAAGTTATCAAACTTAGATC
1 AAAAGTTATAAAAATTATATC
1084220 AAAAGTTATAAAAATTATA
1 AAAAGTTATAAAAATTATA
1084239 AAAAAGATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (21 bp):
AAAAGTTATAAAAATTATATC
Found at i:1084867 original size:2 final size:2
Alignment explanation
Indices: 1084862--1084892 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1084852 TCATGTCATC
1084862 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 A
1084893 CTTCTTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1089115 original size:18 final size:18
Alignment explanation
Indices: 1089092--1089129 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1089082 TCAATAAACA
1089092 TAATAAAATACCTATTCT
1 TAATAAAATACCTATTCT
1089110 TAATAAAATACCTATTCT
1 TAATAAAATACCTATTCT
1089128 TA
1 TA
1089130 CCATGTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATAAAATACCTATTCT
Found at i:1098363 original size:7 final size:7
Alignment explanation
Indices: 1098353--1098381 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1098343 AGATTTTAAA
1098353 TTTTCTT
1 TTTTCTT
1098360 TTTTCTT
1 TTTTCTT
1098367 TTTTCTT
1 TTTTCTT
1098374 TTTT-TT
1 TTTTCTT
1098380 TT
1 TT
1098382 CCTTTTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:1104852 original size:19 final size:18
Alignment explanation
Indices: 1104815--1104854 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1104805 GATAATACTA
1104815 TTTTAATAATTATAATTT
1 TTTTAATAATTATAATTT
* *
1104833 TTTTTATAATTTTAATTT
1 TTTTAATAATTATAATTT
1104851 TTTT
1 TTTT
1104855 CACAATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAATAATTATAATTT
Found at i:1104861 original size:18 final size:18
Alignment explanation
Indices: 1104822--1104861 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1104812 CTATTTTAAT
* *
1104822 AATTATAATTTTTTTTAT
1 AATTATAATTTTTTTCAC
*
1104840 AATTTTAATTTTTTTCAC
1 AATTATAATTTTTTTCAC
1104858 AATT
1 AATT
1104862 GATATTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATAATTTTTTTCAC
Found at i:1109038 original size:72 final size:72
Alignment explanation
Indices: 1108921--1109065 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
1108911 CTCTGCATCT
*
1108921 TTATTTGATCTAGACACATGATTCTTTCTTTTTTGGATAATTAGATACATGATTCATCACGATGT
1 TTATTTGATCTAGACACATAATTCTTTCTTTTTTGGATAATTAGATACATGATTCATCACGATGT
1108986 ATTGACA
66 ATTGACA
1108993 TTATTTGATCTAGACACATAATTCTTTCTTTTTTGGATAATTAGATACATGATTCATCACGATGT
1 TTATTTGATCTAGACACATAATTCTTTCTTTTTTGGATAATTAGATACATGATTCATCACGATGT
1109058 ATTGACA
66 ATTGACA
1109065 T
1 T
1109066 ACGATTCATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (72 bp):
TTATTTGATCTAGACACATAATTCTTTCTTTTTTGGATAATTAGATACATGATTCATCACGATGT
ATTGACA
Found at i:1112749 original size:2 final size:2
Alignment explanation
Indices: 1112742--1112779 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1112732 TTTTAAGAGT
1112742 TA TA TA TA 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 TA TA TA TA
1112780 ATGACATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1113716 original size:24 final size:26
Alignment explanation
Indices: 1113687--1113734 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
1113677 AGAGTTACAA
1113687 TTAATTTAA-TAA-AATGAAATAAAT
1 TTAATTTAACTAATAATGAAATAAAT
*
1113711 TTAATTTAACTAATAATGATATAA
1 TTAATTTAACTAATAATGAAATAA
1113735 TTAATTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 9 0.43
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (26 bp):
TTAATTTAACTAATAATGAAATAAAT
Found at i:1113738 original size:24 final size:23
Alignment explanation
Indices: 1113685--1113740 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
1113675 GTAGAGTTAC
1113685 AATTAATTTAATAAAATGAAATA
1 AATTAATTTAATAAAATGAAATA
*
1113708 AATTTAATTTAACTAATAATGATAT-
1 AA-TTAATTTAA-TAA-AATGAAATA
1113733 AATTAATT
1 AATTAATT
1113741 ATACAACTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 15 0.52
25 5 0.17
26 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
AATTAATTTAATAAAATGAAATA
Found at i:1119535 original size:18 final size:19
Alignment explanation
Indices: 1119512--1119557 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1119502 TTATTTATAT
1119512 TAAAATAAAT-TA-ATAAAA
1 TAAAATAAATATATA-AAAA
1119530 TAAAATAAATATATAAAAA
1 TAAAATAAATATATAAAAA
*
1119549 TTAAATAAA
1 TAAAATAAA
1119558 AAAGAAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAATAAATATATAAAAA
Found at i:1119560 original size:13 final size:14
Alignment explanation
Indices: 1119512--1119558 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
1119502 TTATTTATAT
1119512 TAAAATAAATT-AA
1 TAAAATAAATTAAA
*
1119525 TAAAATAAAATAAA
1 TAAAATAAATTAAA
1119539 TATATAA-AAATTAAA
1 TA-A-AATAAATTAAA
1119554 TAAAA
1 TAAAA
1119559 AAGAAAGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 12 0.41
14 5 0.17
15 10 0.34
16 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATAAATTAAA
Found at i:1120912 original size:17 final size:17
Alignment explanation
Indices: 1120890--1120933 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1120880 ATATATTTAA
1120890 TATTAATTATAAAATTT
1 TATTAATTATAAAATTT
*
1120907 TATTAATTA-AATATTT
1 TATTAATTATAAAATTT
*
1120923 TA-AAATTATAA
1 TATTAATTATAA
1120934 TGTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAATTATAAAATTT
Found at i:1120919 original size:28 final size:28
Alignment explanation
Indices: 1120868--1120921 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1120858 CAAGAATTTT
* *
1120868 TTATTAAATTTTATATATTTAATATTAA
1 TTATAAAATTTTATATATTAAATATTAA
1120896 TTATAAAATTTTAT-TAATTAAATATT
1 TTATAAAATTTTATAT-ATTAAATATT
1120922 TTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATAAAATTTTATATATTAAATATTAA
Found at i:1121025 original size:9 final size:9
Alignment explanation
Indices: 1120997--1121030 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1120987 GTTAATATTT
1120997 TTTTTAAAA
1 TTTTTAAAA
*
1121006 TATTTTTAAA
1 T-TTTTAAAA
1121016 TTTTTAAAA
1 TTTTTAAAA
1121025 TTTTTA
1 TTTTTA
1121031 TAATAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:1121210 original size:28 final size:28
Alignment explanation
Indices: 1121156--1121210 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1121146 TATAAATTCA
* * *
1121156 AAATATTTAATAAATAAAATTTTATAAT
1 AAATATTAAATAAATAAAATCTAATAAT
*
1121184 AAATATTAAATATATAAAATCTAATAA
1 AAATATTAAATAAATAAAATCTAATAA
1121211 AAGATTCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATATTAAATAAATAAAATCTAATAAT
Found at i:1124002 original size:2 final size:2
Alignment explanation
Indices: 1123997--1124038 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1123987 TCTCTCTCTC
* *
1123997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1124039 AAAAAAATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1124104 original size:17 final size:17
Alignment explanation
Indices: 1124084--1124118 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1124074 TTATTGCCAA
1124084 AAGATTATTACGTGAAT
1 AAGATTATTACGTGAAT
*
1124101 AAGATTATTATGTGAAT
1 AAGATTATTACGTGAAT
1124118 A
1 A
1124119 CAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (17 bp):
AAGATTATTACGTGAAT
Found at i:1131896 original size:210 final size:210
Alignment explanation
Indices: 1131530--1131930 Score: 613
Period size: 210 Copynumber: 1.9 Consensus size: 210
1131520 GAAAACGTTG
* *
1131530 AAGCAAAGAGCGATTTCTACATGGAATCACTCATGCATTCAGCTTCTAATGTGGTAACGCCATGT
1 AAGCAAAGAGCGATTTCTACATGGAATCACTCATGCATTCAGCTTATAATGTGGTAACGCCACGT
* * *
1131595 CAGACAGCAATACCAATGTGGATTCGCAATGTTGAACAGCGCATCTAGGCCGAGAACACTAACAA
66 CAGACAACAATACCAATGTGGATTCGCAATGTTGAACAGCGCATCCAAGCCGAGAACACTAACAA
* * * *
1131660 ATCCAACGTATCCCATGTGGCATTTTTCATTGACCCATTCGGAGTATTGAAGACCACATGGCGGC
131 ATCCAACATATCCCATGTGACATTTTTCATTGACCCATCCGGAGTACTGAAGACCACATGGCGGC
1131725 CACATGGAAACGCTA
196 CACATGGAAACGCTA
* * * * *
1131740 AAGCAAAGAGCGATTTCTGCATGGAATCGCTCATGCATTTAGCTTATGATGTGGTAATGCCACGT
1 AAGCAAAGAGCGATTTCTACATGGAATCACTCATGCATTCAGCTTATAATGTGGTAACGCCACGT
* * * ** *
1131805 CAGACAACGATTCCAATGTGGATTCGCCATGTTGAACAGCGCATCCAAGTTGAGAACGCTAACAA
66 CAGACAACAATACCAATGTGGATTCGCAATGTTGAACAGCGCATCCAAGCCGAGAACACTAACAA
*
1131870 ATCCAACATATCCCATGTGACATTTTTCATTGACCCATCCGGAGTACTGGAGACCACATGG
131 ATCCAACATATCCCATGTGACATTTTTCATTGACCCATCCGGAGTACTGAAGACCACATGG
1131931 ACTACGTGGC
Statistics
Matches: 170, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
210 170 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (210 bp):
AAGCAAAGAGCGATTTCTACATGGAATCACTCATGCATTCAGCTTATAATGTGGTAACGCCACGT
CAGACAACAATACCAATGTGGATTCGCAATGTTGAACAGCGCATCCAAGCCGAGAACACTAACAA
ATCCAACATATCCCATGTGACATTTTTCATTGACCCATCCGGAGTACTGAAGACCACATGGCGGC
CACATGGAAACGCTA
Found at i:1135406 original size:20 final size:20
Alignment explanation
Indices: 1135381--1135431 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1135371 TGCCTGCATA
1135381 TATCGATACATTGAATAATG
1 TATCGATACATTGAATAATG
1135401 TATCGATACATTGAATAATG
1 TATCGATACATTGAATAATG
1135421 TATCGATACAT
1 TATCGATACAT
1135432 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATTGAATAATG
Found at i:1135486 original size:13 final size:13
Alignment explanation
Indices: 1135468--1135495 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1135458 ATACAAAGAT
1135468 CAATGTATCGATA
1 CAATGTATCGATA
1135481 CAATGTATCGATA
1 CAATGTATCGATA
1135494 CA
1 CA
1135496 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1135572 original size:19 final size:19
Alignment explanation
Indices: 1135548--1135610 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
1135538 AGCGATACAT
1135548 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1135567 TGTATCGAT---GCA--T-
1 TGTATCGATACAACACTTA
*
1135580 TGTATCGGTACAACACTTA
1 TGTATCGATACAACACTTA
1135599 TGTATCGATACA
1 TGTATCGATACA
1135611 GTTACTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 4 0.12
18 1 0.03
19 20 0.59
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1135586 original size:32 final size:32
Alignment explanation
Indices: 1135540--1135610 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1135530 AGCTTCGTAG
1135540 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
1135572 CGATGCATTGTATCGGTACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1135604 CGATACA
1 CGATACA
1135611 GTTACTTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1136418 original size:52 final size:51
Alignment explanation
Indices: 1136340--1137288 Score: 1037
Period size: 52 Copynumber: 18.8 Consensus size: 51
1136330 AAAAGGATGT
* * * * * **
1136340 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAATAATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAA-GGTGC
* ** **
1136392 CAATATGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGACGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGA-GAAGGTGC
* * * *
1136445 CAATATGCTAATTCAAGGCCAGCGATACTGGTCTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
1136494 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* *
1136546 CAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
1136595 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGA-GAAGGTGC
* *
1136648 CAATATGCTGATTCAAGGCCAGCGATATTGGAGTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
1136697 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGA-GAAGGTGC
* *
1136750 CAATATGCTGATTCAAGGCCAGCGATATTGGACATAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
1136799 TAATGTACTGATTCAAGGCCAGCGACATTGGA-TTGAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGA-GAAGGTGC
* * * * *
1136851 TAATATGCTGATTCAAGGCCAGCGATACTAGTCTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* **
1136900 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * **
1136952 CAATATGCTGATTCAAGGCCAGCGACATTGG-TTTGAAAGATGACGGAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGA-GAAGGTGC
* * *
1137004 CAATATGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
*
1137053 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * * *
1137105 CAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGAT--GAAGGTGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
1137154 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * *
1137206 CAATATGCTGATTCAAGACCAGCGATATTGGAC------CT-A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * *
1137249 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
1137289 AGACGCCACC
Statistics
Matches: 758, Mismatches: 104, Indels: 73
0.81 0.11 0.08
Matches are distributed among these distances:
43 34 0.04
45 1 0.00
46 1 0.00
48 1 0.00
49 287 0.38
50 12 0.02
51 2 0.00
52 299 0.39
53 118 0.16
54 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
Found at i:1136565 original size:101 final size:101
Alignment explanation
Indices: 1136389--1137244 Score: 1089
Period size: 101 Copynumber: 8.4 Consensus size: 101
1136379 ATGAGAATAA
* * ** * *
1136389 TGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGACGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGCGCCAATATGCT
* * *
1136454 AATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
1136491 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
1136556 ATTCAAGGCCAGCGATATTGAACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
1136592 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATGACAAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
*
1136657 GATTCAAGGCCAGCGATATTGGAGTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
1136694 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
*
1136759 GATTCAAGGCCAGCGATATTGGACATAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1136796 TGCTAATGTACTGATTCAAGGCCAGCGACATTGGA-TTGAAAGATGACGAAGGCGCTAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
* * *
1136860 GATTCAAGGCCAGCGATACTAGTCTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
** *
1136897 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* *
1136962 ATTCAAGGCCAGCGACATTGG-TTTGAAAGATGACGGAGG
66 ATTCAAGGCCAGCGATATTGGACTT-AAAGATGA---AGG
** * * * * * *
1137001 CACCAATATGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGATG---AAGGTGCCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
1137063 ATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTT-AA-A-GATGAAGG
* * * * * * *
1137102 TGCCAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGATG---AAGGTGTCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
1137164 ATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTT-AA-A-GATGAAGG
* * * * *
1137203 CGCCAATATGCTGATTCAAGACCAGCGATATTGGACCTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1137245 GTGCCAATGT
Statistics
Matches: 684, Mismatches: 61, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
100 2 0.00
101 407 0.60
102 227 0.33
103 1 0.00
104 47 0.07
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:1137418 original size:34 final size:32
Alignment explanation
Indices: 1137374--1137691 Score: 270
Period size: 34 Copynumber: 10.0 Consensus size: 32
1137364 TTGTAGACTT
*
1137374 AAAAGGGTGCCACAGAGTTGTGGACTTTAAAACG
1 AAAAAGGTGCCACAGAGTTGTGGAC-TTAAAA-G
1137408 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAACG
1 AAAAAGGTGCCACAGAGTTGTGGAC-TTAAAA-G
*
1137442 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
1137474 -----GGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAA-G
* ** *
1137502 AAAAAGAGTGCTATGGAGTTGTGGGCTTTAAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGAC-TT--AAAAG
*
1137538 AAAAATGTGCCACAGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
1137570 -----GGTGCCATAGAGTTGTGGGCTGTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACT-T-AAAAG
*
1137599 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
1137631 -----GGTGCCATAGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAG
* *
1137660 AAAAAGTTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
1137692 GGTGCCATAG
Statistics
Matches: 235, Mismatches: 25, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
27 60 0.26
28 4 0.02
29 10 0.04
32 16 0.07
33 10 0.04
34 108 0.46
35 17 0.07
36 6 0.03
37 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (32 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
Found at i:1137428 original size:61 final size:61
Alignment explanation
Indices: 1137355--1137744 Score: 395
Period size: 61 Copynumber: 6.3 Consensus size: 61
1137345 AGGAGAAAAC
* * * *
1137355 GCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAACGAAAAAGGT
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGT
* ** *
1137416 GCCACAGAGTTGTGGACTTTAAAACGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG-----
1 GCCACGGAGTTGTGGAC-TTAAAA-G-----GGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAA
1137474 GGT
59 GGT
* * *
1137477 GCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCTATGGAGTTGTGGGCTTTAAAAAAGAAAA
1 GCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCATAGAGTTGTGGGCTTT-AAAAAGAAAA
*
1137542 ATGT
58 AGGT
* *
1137546 GCCACAGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTGTAAAAAGAAAAAGGT
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGT
*
1137607 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGTT
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGT
* * *
1137668 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGGCTTT--GAAG-AAAAGAT
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGT
* *
1137726 GCCACTGAGTCGTGGACTT
1 GCCACGGAGTTGTGGACTT
1137745 TGGAAAGAGA
Statistics
Matches: 288, Mismatches: 25, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
58 23 0.08
59 3 0.01
60 13 0.05
61 166 0.58
62 27 0.09
63 2 0.01
64 5 0.02
66 4 0.01
67 2 0.01
68 20 0.07
69 23 0.08
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (61 bp):
GCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGT
Found at i:1137461 original size:95 final size:95
Alignment explanation
Indices: 1137355--1137629 Score: 383
Period size: 96 Copynumber: 2.9 Consensus size: 95
1137345 AGGAGAAAAC
* *
1137355 GCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAACGAAAAAGGTGCCA
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCA
* *
1137420 CAGAGTTGTGGACTTTAAAACGAAAAAGGT
66 CGGAGTTGTGGACTTTAAAAAGAAAAAGGT
* * * *
1137450 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGAAAAAGAGTGCT
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAG-GTGCC
* * *
1137514 ATGGAGTTGTGGGCTTTAAAAAAGAAAAATGT
65 ACGGAGTTGTGGACTTT-AAAAAGAAAAAGGT
* * * *
1137546 GCCACAGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCA
1 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCA
1137611 CGGAGTTGTGGAC-TTAAAA
66 CGGAGTTGTGGACTTTAAAA
1137630 GGGTGCCATA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
94 17 0.11
95 61 0.39
96 67 0.43
97 12 0.08
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (95 bp):
GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCA
CGGAGTTGTGGACTTTAAAAAGAAAAAGGT
Found at i:1137582 original size:157 final size:159
Alignment explanation
Indices: 1137380--1137690 Score: 423
Period size: 157 Copynumber: 1.9 Consensus size: 159
1137370 ACTTAAAAGG
* *
1137380 GTGCCACAGAGTTGTGGACTTTAAAACGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAACGAAA
1 GTGCCACAGAGTTGTGGACTTTAAAACG----AGGTGCCACAGAGTTGTGGACTGTAAAAAGAAA
* *
1137445 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGAAAAAGA
62 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAG-
* * *
1137509 GTGCTATGGAGTTGTGGGCTTTAAAAAAGAAAAAT
126 GTGCCACGGAGTTGTGGAC-TTAAAAAAGAAAAAT
* *
1137544 GTGCCACAGAGTTGTGGAC-TTAAAA-G-GGTGCCATAGAGTTGTGGGCTGTAAAAAGAAAAAGG
1 GTGCCACAGAGTTGTGGACTTTAAAACGAGGTGCCACAGAGTTGTGGACTGTAAAAAGAAAAAGG
* * * *
1137606 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGTTGCC
66 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGGTGCC
1137671 ACGGAGTTGTGGACTTAAAA
131 ACGGAGTTGTGGACTTAAAA
1137691 GGGTGCCATA
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
156 6 0.05
157 88 0.66
158 13 0.10
162 1 0.01
163 6 0.05
164 19 0.14
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (159 bp):
GTGCCACAGAGTTGTGGACTTTAAAACGAGGTGCCACAGAGTTGTGGACTGTAAAAAGAAAAAGG
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGGTGCC
ACGGAGTTGTGGACTTAAAAAAGAAAAAT
Found at i:1137729 original size:31 final size:31
Alignment explanation
Indices: 1137701--1138053 Score: 363
Period size: 31 Copynumber: 11.6 Consensus size: 31
1137691 GGGTGCCATA
* *
1137701 GAGTTATGGGCTTTGAAGAAAAGATGCCACT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
*
1137732 GAGTCGTGGACTTTG--GAAAGAGATGCCACT
1 GAGTCATGGACTTTGAAGAAA-AGATGCCACT
1137762 GAGTCATGGACTTT-AAGAAAAAGATGCCACT
1 GAGTCATGGACTTTGAAG-AAAAGATGCCACT
* * * *
1137793 GAATCGTGGACTTTG-AGAAGAGATGCCATT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
*
1137823 GAGTCGTGGACTTTG--GAAAGAGATGCCACT
1 GAGTCATGGACTTTGAAGAAA-AGATGCCACT
* * * *
1137853 GAGTCGTGGACTTGGAAGTAAATATGCCACT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
* * *
1137884 GAGTCGTGGACTTGGAAGTAAAGATGCCACT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
* *
1137915 GAGTCGTGGACTTTGAAGAAGAGATGCCACT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
*
1137946 GAGTCGTGGACTTTG--GAAAGAGATGCCACT
1 GAGTCATGGACTTTGAAGAAA-AGATGCCACT
*
1137976 GAGTCGTGGACTTTG-AGAAAAAGATGCCACT
1 GAGTCATGGACTTTGAAG-AAAAGATGCCACT
* *
1138007 GAATCGTGGACTTTG-AG--AAGATGCCACT
1 GAGTCATGGACTTTGAAGAAAAGATGCCACT
* *
1138035 GAATCGTGGACTTT-AAGAA
1 GAGTCATGGACTTTGAAGAA
1138054 GAGAGATTTG
Statistics
Matches: 288, Mismatches: 20, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
28 27 0.09
29 10 0.03
30 96 0.33
31 146 0.51
32 9 0.03
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (31 bp):
GAGTCATGGACTTTGAAGAAAAGATGCCACT
Found at i:1137759 original size:61 final size:61
Alignment explanation
Indices: 1137711--1138048 Score: 435
Period size: 61 Copynumber: 5.6 Consensus size: 61
1137701 GAGTTATGGG
*
1137711 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCATGGA
1 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGA
* *
1137772 CTTT-AAGAAAAAGATGCCACTGAATCGTGGACTTT-GAGAAGAGATGCCATTGAGTCGTGGA
1 CTTTGAAG-AAAAGATGCCACTGAGTCGTGGACTTTGGA-AAGAGATGCCACTGAGTCGTGGA
* *
1137833 CTTTG--GAAAGAGATGCCACTGAGTCGTGGAC-TTGGAAGTAAATATGCCACTGAGTCGTGGA
1 CTTTGAAGAAA-AGATGCCACTGAGTCGTGGACTTTGGAA--AGAGATGCCACTGAGTCGTGGA
* * *
1137894 CTTGGAAGTAAAGATGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGA
1 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGA-AAGAGATGCCACTGAGTCGTGGA
* *
1137956 CTTTG--GAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAATCGTGGA
1 CTTTGAAGAAA-AGATGCCACTGAGTCGTGGACTTTG-GAAAGAGATGCCACTGAGTCGTGGA
*
1138017 CTTTG-AG--AAGATGCCACTGAATCGTGGACTTT
1 CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
1138049 AAGAAGAGAG
Statistics
Matches: 245, Mismatches: 18, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
59 29 0.12
60 32 0.13
61 129 0.53
62 47 0.19
63 7 0.03
64 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (61 bp):
CTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGA
Found at i:1137759 original size:122 final size:119
Alignment explanation
Indices: 1137504--1137869 Score: 359
Period size: 122 Copynumber: 3.0 Consensus size: 119
1137494 TTAAAAGGAA
*
1137504 AAAGAGTGCTATGGAGTTGTGGGCTTTAAAAAAGAAAAA-TGTGCCACAGAGTTGTGGACTTAAA
1 AAAGAGTGCCAT-GAGTTGTGGGCTTT-AAAAAGAAAAAGT-TGCCACAGAGTTGTGGACTTAAA
** * * * *
1137568 AGGGTGCCATAGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT-A
63 AGGGTGCCATAGAGTTGTGGGCT-T-TGAAG-AAAAGATGCCACTGAGTCGTGGACTTGG
* *
1137627 AAAGGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGTTGCCACGGAGTTGTGGACTTAAAAG
1 AAAGAGTGCCAT-GAGTTGTGGGCTTTAAAAAGAAAAAGTTGCCACAGAGTTGTGGACTTAAAAG
*
1137692 GGTGCCATAGAGTTATGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
65 GGTGCCATAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGAC-TTGG
** * * * * * *
1137748 AAAGAGATGCCACTGAGTCATGGACTTT---AAGAAAAAGATGCCACTGAATCGTGGACTTTGAG
1 AAAGAG-TGCCA-TGAGTTGTGGGCTTTAAAAAGAAAAAGTTGCCACAGAGTTGTGGAC-TT-AA
* * * *
1137810 AAGAGATGCCATTGAGTCGTGGACTTTG--GAAAGAGATGCCACTGAGTCGTGGACTTGG
62 AAG-GGTGCCATAGAGTTGTGGGCTTTGAAGAAA-AGATGCCACTGAGTCGTGGACTTGG
1137868 AA
1 AA
1137870 GTAAATATGC
Statistics
Matches: 209, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
119 45 0.22
120 17 0.08
121 31 0.15
122 90 0.43
123 26 0.12
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (119 bp):
AAAGAGTGCCATGAGTTGTGGGCTTTAAAAAGAAAAAGTTGCCACAGAGTTGTGGACTTAAAAGG
GTGCCATAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTGG
Found at i:1139370 original size:11 final size:11
Alignment explanation
Indices: 1139356--1139396 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
1139346 TTTGTTATTG
1139356 TTTTTTTTTCA
1 TTTTTTTTTCA
1139367 TTTTTTTTTC-
1 TTTTTTTTTCA
1139377 TTTTTTTTCATCA
1 TTTTTTTT--TCA
1139390 TTTTTTT
1 TTTTTTT
1139397 AAGGGAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.30
11 10 0.37
12 2 0.07
13 7 0.26
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:1139393 original size:20 final size:20
Alignment explanation
Indices: 1139357--1139395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1139347 TTGTTATTGT
**
1139357 TTTTTTTTCATTTTTTTTTC
1 TTTTTTTTCATCATTTTTTC
1139377 TTTTTTTTCATCATTTTTT
1 TTTTTTTTCATCATTTTTT
1139396 TAAGGGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTTCATCATTTTTTC
Found at i:1150879 original size:52 final size:52
Alignment explanation
Indices: 1150810--1150929 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
1150800 AAAATTTATT
*
1150810 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
1150862 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
1150914 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1150930 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:1150942 original size:52 final size:51
Alignment explanation
Indices: 1150810--1150949 Score: 210
Period size: 52 Copynumber: 2.7 Consensus size: 51
1150800 AAAATTTATT
1150810 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
* *
1150862 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
*
1150914 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1150950 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1150956 original size:13 final size:13
Alignment explanation
Indices: 1150938--1150962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1150928 CAAAGATCAG
1150938 TGTATCGATACAA
1 TGTATCGATACAA
1150951 TGTATCGATACA
1 TGTATCGATACA
1150963 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1151045 original size:13 final size:13
Alignment explanation
Indices: 1151027--1151051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1151017 AAAAAAAATA
1151027 TGTATCGATACAT
1 TGTATCGATACAT
1151040 TGTATCGATACA
1 TGTATCGATACA
1151052 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1153510 original size:19 final size:21
Alignment explanation
Indices: 1153467--1153518 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
1153457 TTCAATAATT
*
1153467 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
*
1153488 TGTATTGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1153507 TGTATCGATACA
1 TGTATCGATACA
1153519 GTGTATCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 11 0.39
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1153837 original size:13 final size:13
Alignment explanation
Indices: 1153819--1153843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1153809 TTCAACGATT
1153819 TGTATCGATACAA
1 TGTATCGATACAA
1153832 TGTATCGATACA
1 TGTATCGATACA
1153844 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1153992 original size:52 final size:53
Alignment explanation
Indices: 1153928--1154076 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 53
1153918 ATCGATATAT
*** * ** * *
1153928 TGTATCGATACACTAAT-CTTTGTATCGATACATGTAGGCCAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATATATCGATACATACAAGCAAATTTGCCCAGA
1153980 TGTATCGATACACT-ATGAAATATATCGATACATACAAGCAAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATATATCGATACATACAAGCAAATTTGCCCAGA
* *
1154032 TGTATCGATACACT-ATGAAATGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACACTAATGAAATATATCGATACATACAAGCAAATTT
1154077 TCATATTTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (53 bp):
TGTATCGATACACTAATGAAATATATCGATACATACAAGCAAATTTGCCCAGA
Found at i:1157216 original size:13 final size:13
Alignment explanation
Indices: 1157198--1157223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1157188 ATTTGTAGAA
1157198 TGTATCGATACAT
1 TGTATCGATACAT
1157211 TGTATCGATACAT
1 TGTATCGATACAT
1157224 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1159677 original size:27 final size:28
Alignment explanation
Indices: 1159645--1159714 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
1159635 TTCATAATCA
* *
1159645 GGGATACTCCAACCCCGTTA-ATCAT-CG
1 GGGATACTCCAACCCCATTATATC-TGAG
*
1159672 GGGATACTCCAACCCCATTATTTCTGAG
1 GGGATACTCCAACCCCATTATATCTGAG
1159700 GGGATACTCCAACCC
1 GGGATACTCCAACCC
1159715 TGGCTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATATCTGAG
Found at i:1159755 original size:79 final size:79
Alignment explanation
Indices: 1159668--1160110 Score: 694
Period size: 79 Copynumber: 5.6 Consensus size: 79
1159658 CCCGTTAATC
* *
1159668 ATCGGGGATACTCCAACCCCATTA-TTTCTGAGGGGATACTCCAACCCTGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
*
1159732 TATTGATTTCTCATA
65 TATTGATTTCTCACA
* * *
1159747 ATCAGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1159812 ATTGATTTCTCACA
66 ATTGATTTCTCACA
** * *
1159826 ATCGGGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1159891 ATTGATTTCTCACA
66 ATTGATTTCTCACA
*
1159905 ATCGGGGTTACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1159969 TATTGATTTCTCACA
65 TATTGATTTCTCACA
* * * *
1159984 ATTGGGGATACTCCAACCCCATTATTTTCGAGAGGATACTCCAA-CCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1160048 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
1160062 ATCGGGGATACTCCAACCCCGTTATTTTCGCGGGGATAGTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1160111 TTATTTTTGA
Statistics
Matches: 332, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
78 75 0.23
79 249 0.75
80 8 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:1160104 original size:28 final size:28
Alignment explanation
Indices: 1160064--1160136 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
1160054 TTCTCACAAT
1160064 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
1160092 CGGGGATAGTCCAACCCCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* * *
1160120 AGAGGATACTCAAACCC
1 CGGGGATACTCCAACCC
1160137 TGATTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:1164155 original size:16 final size:16
Alignment explanation
Indices: 1164134--1164167 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1164124 TACTTAATAT
1164134 TTATTAATATAATTAA
1 TTATTAATATAATTAA
1164150 TTATTAATATAATTAA
1 TTATTAATATAATTAA
1164166 TT
1 TT
1164168 CAAATTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTAATATAATTAA
Found at i:1164384 original size:29 final size:29
Alignment explanation
Indices: 1164329--1164390 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
1164319 TTTACGTAAC
*
1164329 AAAACAATAATATTTTGATAAAATATTTT
1 AAAACAATAATATTTTGATAAAATATTTA
* * **
1164358 AAAATAATATTATTTTGATAATTTATTTA
1 AAAACAATAATATTTTGATAAAATATTTA
1164387 AAAA
1 AAAA
1164391 ACAAAGGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (29 bp):
AAAACAATAATATTTTGATAAAATATTTA
Found at i:1165584 original size:18 final size:18
Alignment explanation
Indices: 1165563--1165605 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1165553 TTTTATGATA
1165563 AATTTTA-TTTTAATTATT
1 AATTTTATTTTTAATT-TT
*
1165581 AATTTTATTTTTTATTTT
1 AATTTTATTTTTAATTTT
1165599 AATTTTA
1 AATTTTA
1165606 AAAGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTAATTTT
Found at i:1165605 original size:6 final size:6
Alignment explanation
Indices: 1165563--1165606 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
1165553 TTTTATGATA
* *
1165563 AATTTT -ATTTT AATTATT AATTTT ATTTTT TATTTT AATTTT AA
1 AATTTT AATTTT AATT-TT AATTTT AATTTT AATTTT AATTTT AA
1165607 AAGTATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
AATTTT
Found at i:1166038 original size:2 final size:2
Alignment explanation
Indices: 1166031--1166069 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1166021 GATGTTAAAC
1166031 AT AT 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 AT AT A
1166070 AAACTAGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1170353 original size:24 final size:24
Alignment explanation
Indices: 1170324--1170407 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
1170314 TAAAATTTGA
1170324 TTTTATA-TGATATAATTTTATTAT
1 TTTTATATTGATATAATTTTATT-T
** *
1170348 TTTTATATTTTTATATTTTTATTT
1 TTTTATATTGATATAATTTTATTT
* * *
1170372 TTTTATTATTTTAAATATATTTTAATT
1 TTTTA-TA-TTGATATA-ATTTTATTT
1170399 TTTTATATT
1 TTTTATATT
1170408 TTATAATACA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
24 13 0.27
25 16 0.33
26 8 0.16
27 12 0.24
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (24 bp):
TTTTATATTGATATAATTTTATTT
Found at i:1170356 original size:8 final size:8
Alignment explanation
Indices: 1170334--1170409 Score: 73
Period size: 8 Copynumber: 9.0 Consensus size: 8
1170324 TTTTATATGA
*
1170334 TATAATTT
1 TATATTTT
1170342 TATTATTTT
1 TA-TATTTT
1170351 TATATTTT
1 TATATTTT
1170359 TATATTTT
1 TATATTTT
*
1170367 TATTTTTT
1 TATATTTT
1170375 TATTATTTT
1 TA-TATTTT
*
1170384 AAATATATTT
1 -TATAT-TTT
1170394 TA-ATTTTT
1 TATA-TTTT
1170402 TATATTTT
1 TATATTTT
1170410 ATAATACATT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
8 35 0.61
9 18 0.32
10 4 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATATTTT
Found at i:1170364 original size:16 final size:17
Alignment explanation
Indices: 1170334--1170409 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
1170324 TTTTATATGA
*
1170334 TATAATTTTATTATTTT
1 TATATTTTTATTATTTT
1170351 TATATTTTTA-TATTTT
1 TATATTTTTATTATTTT
*
1170367 TATTTTTTTATTATTTT
1 TATATTTTTATTATTTT
* *
1170384 AAATATATTTTAAT-TTTT
1 -TATAT-TTTTATTATTTT
1170402 TATATTTT
1 TATATTTT
1170410 ATAATACATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
16 18 0.36
17 19 0.38
18 7 0.14
19 6 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATATTTTTATTATTTT
Found at i:1170415 original size:27 final size:27
Alignment explanation
Indices: 1170323--1170421 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 27
1170313 TTAAAATTTG
1170323 ATTTTATATGATATAATTTTATTATTTTTAT
1 ATTTTATA--ATAT-ATTTTATT-TTTTTAT
1170354 ATTTT-T-ATAT-TTTTATTTTTTTATT
1 ATTTTATAATATATTTTATTTTTTTA-T
*
1170379 ATTTTA-AATATATTTTAATTTTTTAT
1 ATTTTATAATATATTTTATTTTTTTAT
*
1170405 ATTTTATAATACATTTT
1 ATTTTATAATATATTTT
1170422 TACGATAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.10
25 13 0.21
26 11 0.18
27 25 0.41
30 1 0.02
31 5 0.08
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (27 bp):
ATTTTATAATATATTTTATTTTTTTAT
Found at i:1170870 original size:54 final size:53
Alignment explanation
Indices: 1170752--1170873 Score: 154
Period size: 53 Copynumber: 2.3 Consensus size: 53
1170742 TGAGTTTAGG
* * * **
1170752 TCATTTCAGATTTTGGTCAATCGGGTTTAACACTCGAATTAATCGGGTTCATG
1 TCATTTTAGATTTAGGTCAATCGGGTTTAACACTCGAATTAATCGAGTTCAAA
* * * *
1170805 TCATTCTAGATTTAGGTCAATTGGGTTTAACATTCGAGTTAAATCGAGTTCAAA
1 TCATTTTAGATTTAGGTCAATCGGGTTTAACACTCGAATT-AATCGAGTTCAAA
1170859 TCATTTTAGATTTAG
1 TCATTTTAGATTTAG
1170874 ATTTTAGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
53 34 0.59
54 24 0.41
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (53 bp):
TCATTTTAGATTTAGGTCAATCGGGTTTAACACTCGAATTAATCGAGTTCAAA
Found at i:1174890 original size:23 final size:24
Alignment explanation
Indices: 1174858--1174904 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1174848 CAATTGATAA
1174858 AAAAAGTTGTCCCATGATTTTTAT
1 AAAAAGTTGTCCCATGATTTTTAT
**
1174882 AAAAA-TTGTCTTATGATTTTTAT
1 AAAAAGTTGTCCCATGATTTTTAT
1174905 GGAAATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (24 bp):
AAAAAGTTGTCCCATGATTTTTAT
Found at i:1177634 original size:10 final size:9
Alignment explanation
Indices: 1177613--1177651 Score: 60
Period size: 9 Copynumber: 4.1 Consensus size: 9
1177603 CACTTTCTCA
1177613 TTTAGATAT
1 TTTAGATAT
1177622 TTTAGATTAT
1 TTTAGA-TAT
1177632 TTTAGATAT
1 TTTAGATAT
1177641 TTTAGAATAT
1 TTTAG-ATAT
1177651 T
1 T
1177652 CATTTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (9 bp):
TTTAGATAT
Found at i:1177637 original size:19 final size:19
Alignment explanation
Indices: 1177613--1177651 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1177603 CACTTTCTCA
*
1177613 TTTAGATATTTTAGATTAT
1 TTTAGATATTTTAGAATAT
1177632 TTTAGATATTTTAGAATAT
1 TTTAGATATTTTAGAATAT
1177651 T
1 T
1177652 CATTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTAGATATTTTAGAATAT
Found at i:1180807 original size:20 final size:20
Alignment explanation
Indices: 1180736--1180808 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
1180726 TACCTAGATA
* *
1180736 TATCGATACATTTTTCAATA
1 TATCGATACATTCTTCAATG
1180756 TATCGATACATT-TAT-AATG
1 TATCGATACATTCT-TCAATG
1180775 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
1180795 TATCGATACATTCT
1 TATCGATACATTCT
1180809 GTCTTTTTAC
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
19 17 0.35
20 32 0.65
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:1180927 original size:13 final size:13
Alignment explanation
Indices: 1180909--1180933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1180899 CATAAAGTGT
1180909 TGTATCGATACAA
1 TGTATCGATACAA
1180922 TGTATCGATACA
1 TGTATCGATACA
1180934 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1180949 original size:32 final size:33
Alignment explanation
Indices: 1180889--1180954 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
1180879 TTCAATGATT
1180889 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
1180922 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1180954 T
1 T
1180955 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1181013 original size:13 final size:13
Alignment explanation
Indices: 1180995--1181019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1180985 ATTACTCAAA
1180995 TGTATCGATACAT
1 TGTATCGATACAT
1181008 TGTATCGATACA
1 TGTATCGATACA
1181020 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1181122 original size:52 final size:52
Alignment explanation
Indices: 1181028--1181155 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1181018 CACTGATCTT
1181028 TGTATCGATACATGCA-GCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1181079 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1181131 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1181156 TCATATTTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 16 0.22
52 58 0.78
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1186013 original size:77 final size:79
Alignment explanation
Indices: 1185909--1186282 Score: 311
Period size: 78 Copynumber: 4.8 Consensus size: 79
1185899 GAAAATTTTA
* * *
1185909 ATATTTTGG-AAGAAAAATGGGGTTGGAGTATCCCCTC-GAAAATGATAGGGTTGGAGTAT-CTC
1 ATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAG-AAATAATAGGGTTGGAGTATCCTC
* *
1185971 GAT-ATGAAAATTTT
65 GATAATGAAAAATTG
* * * * *
1185985 ATATTTTGAAAATAAAAATAAGGTTGGAGTATCCCCTCAGAAATAACATGGTTGGAGTATCCTCA
1 ATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCTCG
* * *
1186050 ATGATTAAAAATCG
66 ATAATGAAAAATTG
* *
1186064 ATATTTTGGAAATAAAAATAGGGTTAGA-TACTCCATCCTCAGAAATAATAGGGCTGGAGTATCC
1 ATATTTTGGAAATAAAAATAGGGTTGGAGTA-TCC--CCTCAGAAATAATAGGGTTGGAGTATCC
*
1186128 TTGATAATGAAAAATTG
63 TCGATAATGAAAAATTG
* * * *** * ** ** * **
1186145 ATATTTTGGAAATAAAAACAGAGTTGGAATATTTTCTCA-AAAAAACGGGGTTAAAGTATTCTTA
1 ATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCTCG
* *
1186209 ATAGTGAAAAATCG
66 ATAATGAAAAATTG
* * *
1186223 ATATTTTGAAAATAAAAAT-GGGATTAGAGTATTCCCT-A-AAA-AA-AGGGTTGGAGTATCCTC
1 ATATTTTGGAAATAAAAATAGGG-TTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCTC
1186283 TTGGAAATAA
Statistics
Matches: 238, Mismatches: 51, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
75 12 0.05
76 10 0.04
77 48 0.20
78 64 0.27
79 39 0.16
81 63 0.26
82 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (79 bp):
ATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGGAGTATCCTCG
ATAATGAAAAATTG
Found at i:1188335 original size:30 final size:30
Alignment explanation
Indices: 1188301--1188362 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1188291 GATAGTTGAA
*
1188301 ATTTGGTTTGAAAT-AGTCAAAATAGACTGC
1 ATTTGGTTCGAAATGA-TCAAAATAGACTGC
*
1188331 ATTTGGTTCGAAATGATCAAAATAGCCTGC
1 ATTTGGTTCGAAATGATCAAAATAGACTGC
1188361 AT
1 AT
1188363 GTATCGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (30 bp):
ATTTGGTTCGAAATGATCAAAATAGACTGC
Found at i:1192425 original size:26 final size:27
Alignment explanation
Indices: 1192395--1192462 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 27
1192385 GTGCATAAAA
1192395 ATTGATTTAAAATGATAATATTTTAAG
1 ATTGATTTAAAATGATAATATTTTAAG
*
1192422 -TTGATTTAAAACGATAATATTTTAAG
1 ATTGATTTAAAATGATAATATTTTAAG
* *
1192448 ATTGAATTGAAATGA
1 ATTGATTTAAAATGA
1192463 CTATGACTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 25 0.69
27 11 0.31
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.41
Consensus pattern (27 bp):
ATTGATTTAAAATGATAATATTTTAAG
Found at i:1192879 original size:20 final size:19
Alignment explanation
Indices: 1192856--1192893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1192846 TGAGAAAATA
1192856 AAAAATAAAACAAAAAAAGC
1 AAAAATAAAA-AAAAAAAGC
*
1192876 AAAAATTAAAAAAAAAAG
1 AAAAATAAAAAAAAAAAG
1192894 TCAAGATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAATAAAAAAAAAAAGC
Found at i:1194121 original size:34 final size:34
Alignment explanation
Indices: 1194075--1194283 Score: 184
Period size: 34 Copynumber: 6.4 Consensus size: 34
1194065 TTTACCATTA
*
1194075 ATTTGGTGGTTTGTCATTATTGACTAAATGGGAG
1 ATTTGGTGGTTTGCCATTATTGACTAAATGGGAG
* * *
1194109 ATTTGGTAGTTTGCCATTATTAATTAAAT-GGATG
1 ATTTGGTGGTTTGCCATTATTGACTAAATGGGA-G
* * * *
1194143 ATTTGGTGGTTTACCATTGTTAACTAAATGGAAG
1 ATTTGGTGGTTTGCCATTATTGACTAAATGGGAG
* *
1194177 ATTTGGTAG-TTG------TTGA-TCAAATGGGTG
1 ATTTGGTGGTTTGCCATTATTGACT-AAATGGGAG
* * *
1194204 ATTTGATGGTTTGCCATTGTTGACTAAATAGGAG
1 ATTTGGTGGTTTGCCATTATTGACTAAATGGGAG
* * * *
1194238 ATTTGGTAGTTTGCCATTGTTGATTAAATGGGTG
1 ATTTGGTGGTTTGCCATTATTGACTAAATGGGAG
1194272 ATTTGGTGGTTT
1 ATTTGGTGGTTT
1194284 TTACCAAACC
Statistics
Matches: 140, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 17 0.12
28 3 0.02
33 5 0.04
34 111 0.79
35 3 0.02
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.42
Consensus pattern (34 bp):
ATTTGGTGGTTTGCCATTATTGACTAAATGGGAG
Found at i:1194230 original size:61 final size:61
Alignment explanation
Indices: 1194134--1194248 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
1194124 ATTATTAATT
*
1194134 AAATGGATGATTTGGTGGTTTACCATTGTTAACTAAAT-GGAAGATTTGGTAGTTGTTGATC
1 AAATGGATGATTTGATGGTTTACCATTGTTAACTAAATAGG-AGATTTGGTAGTTGTTGATC
* * *
1194195 AAATGGGTGATTTGATGGTTTGCCATTGTTGACTAAATAGGAGATTTGGTAGTT
1 AAATGGATGATTTGATGGTTTACCATTGTTAACTAAATAGGAGATTTGGTAGTT
1194249 TGCCATTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
61 47 0.96
62 2 0.04
ACGTcount: A:0.27, C:0.06, G:0.28, T:0.39
Consensus pattern (61 bp):
AAATGGATGATTTGATGGTTTACCATTGTTAACTAAATAGGAGATTTGGTAGTTGTTGATC
Found at i:1194232 original size:95 final size:95
Alignment explanation
Indices: 1194100--1194278 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 95
1194090 ATTATTGACT
* * *
1194100 AAATGGGAGATTTGGTAGTTTGCCATTATTAATTAAAT-GGATGATTTGGTGGTTTACCATTGTT
1 AAATGGGAGATTTGATAGTTTGCCATTATTAACTAAATAGGA-GATTTGGTAGTTTACCATTGTT
1194164 AACTAAATGGAAGATTTGGTAGTTGTTGATC
65 AACTAAATGGAAGATTTGGTAGTTGTTGATC
* * * * * *
1194195 AAATGGGTGATTTGATGGTTTGCCATTGTTGACTAAATAGGAGATTTGGTAGTTTGCCATTGTTG
1 AAATGGGAGATTTGATAGTTTGCCATTATTAACTAAATAGGAGATTTGGTAGTTTACCATTGTTA
* **
1194260 ATTAAATGGGTGATTTGGT
66 ACTAAATGGAAGATTTGGT
1194279 GGTTTTTACC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 68 0.96
96 3 0.04
ACGTcount: A:0.26, C:0.06, G:0.27, T:0.40
Consensus pattern (95 bp):
AAATGGGAGATTTGATAGTTTGCCATTATTAACTAAATAGGAGATTTGGTAGTTTACCATTGTTA
ACTAAATGGAAGATTTGGTAGTTGTTGATC
Found at i:1194606 original size:19 final size:18
Alignment explanation
Indices: 1194583--1194644 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 18
1194573 TGATTGTTGA
1194583 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
1194601 AGGTACTATTCACGTATAC
1 -GGTACTATTCACGTATAC
* *
1194620 GAGAACTATTCACATATAC
1 G-GTACTATTCACGTATAC
1194639 GGTACT
1 GGTACT
1194645 GTGCACGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.13
19 34 0.87
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:1198817 original size:68 final size:67
Alignment explanation
Indices: 1198737--1198950 Score: 331
Period size: 68 Copynumber: 3.1 Consensus size: 67
1198727 TACCATTGAT
* *
1198737 TTTGTGGTTTACCATTATTGACTAAATGGGAGATTTTGTAGTTTGCCATTGTTGATTAAATGGAT
1 TTTGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAATGGAT
1198802 GA
66 GA
* * *
1198804 TTTAGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTGTACCATTGTTGATTAAATGGG
1 TTT-GTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAATGGA
1198869 TGA
65 TGA
*
1198872 TTTGATGGTTTGCCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT-GA
1 TTTG-TGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAATGGA
1198936 GTGA
65 -TGA
1198940 TTTGGTGGTTT
1 TTT-GTGGTTT
1198951 TTACCAAACC
Statistics
Matches: 134, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
67 5 0.04
68 128 0.96
69 1 0.01
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (67 bp):
TTTGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAATGGAT
GA
Found at i:1198942 original size:34 final size:34
Alignment explanation
Indices: 1198733--1198950 Score: 256
Period size: 34 Copynumber: 6.4 Consensus size: 34
1198723 AGTTTACCAT
* *
1198733 TGATTTTGTGGTTTACCATTATTGACTAAATGGG
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
* * * * * *
1198767 AGATTTTGTAGTTTGCCATTGTTGATTAAATGGA
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
*
1198801 TGATTTAGTGGTTTACCATTGTTGACTAAATGGG
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
* * * *
1198835 AGATTTGGTAGTGTACCATTGTTGATTAAATGGG
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
* *
1198869 TGATTTGATGGTTTGCCATTGTTGACTAAATGGG
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
* * * * *
1198903 AGATTTGGTAGTTTGCCATTGTTGATTAAATGAG
1 TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
1198937 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
1198951 TTACCAAACC
Statistics
Matches: 154, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 154 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (34 bp):
TGATTTGGTGGTTTACCATTGTTGACTAAATGGG
Found at i:1202049 original size:20 final size:20
Alignment explanation
Indices: 1201994--1202063 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1201984 CAGATATATT
* *
1201994 GATACATTTTTCAATATATC
1 GATACATTCTTCAATGTATC
* * *
1202014 AATACATGT-ATAAATGTATC
1 GATACAT-TCTTCAATGTATC
*
1202034 GATACATTCTTCAATGTCTC
1 GATACATTCTTCAATGTATC
1202054 GATACATTCT
1 GATACATTCT
1202064 ATCTTTTTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (20 bp):
GATACATTCTTCAATGTATC
Found at i:1213771 original size:15 final size:16
Alignment explanation
Indices: 1213751--1213780 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1213741 TTTGTCAGAC
1213751 CCGCCAGTG-TTGGTA
1 CCGCCAGTGCTTGGTA
1213766 CCGCCAGTGCTTGGT
1 CCGCCAGTGCTTGGT
1213781 TGTCCTTTAA
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:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (16 bp):
CCGCCAGTGCTTGGTA
Found at i:1216024 original size:10 final size:10
Alignment explanation
Indices: 1216009--1216087 Score: 99
Period size: 10 Copynumber: 7.8 Consensus size: 10
1215999 CTTTACAACT
1216009 AAAAAAAACA
1 AAAAAAAACA
1216019 AAAAAAAACA
1 AAAAAAAACA
*
1216029 AAACAAAACA
1 AAAAAAAACA
1216039 AAACAAAAA-A
1 AAA-AAAAACA
*
1216049 ACAAAAAACA
1 AAAAAAAACA
1216059 AAAAAAAA-A
1 AAAAAAAACA
1216068 CAAAAAAAACA
1 -AAAAAAAACA
1216079 AAGAAAAAA
1 AA-AAAAAA
1216088 ATAGCAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
9 6 0.10
10 43 0.72
11 11 0.18
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:1216062 original size:40 final size:42
Alignment explanation
Indices: 1216010--1216103 Score: 133
Period size: 40 Copynumber: 2.3 Consensus size: 42
1216000 TTTACAACTA
1216010 AAAAAAACAAAAAAAAACAAAACAAAACAAA-ACAAAAAA-A-C
1 AAAAAAACAAAAAAAAACAAAA-AAAACAAAGA-AAAAAATAGC
1216051 -AAAAAACAAAAAAAAAACAAAAAAAACAAAGAAAAAAATAGC
1 AAAAAAAC-AAAAAAAAACAAAAAAAACAAAGAAAAAAATAGC
1216093 AAAAAAACAAA
1 AAAAAAACAAA
1216104 CAGGGGTCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
40 21 0.44
41 16 0.33
42 4 0.08
43 7 0.15
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (42 bp):
AAAAAAACAAAAAAAAACAAAAAAAACAAAGAAAAAAATAGC
Found at i:1216099 original size:1 final size:1
Alignment explanation
Indices: 1216009--1216088 Score: 70
Period size: 1 Copynumber: 80.0 Consensus size: 1
1215999 CTTTACAACT
* * * * * * * *
1216009 AAAAAAAACAAAAAAAAACAAAACAAAACAAAACAAAAAAACAAAAAACAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1216074 AAACAAAGAAAAAAA
1 AAAAAAAAAAAAAAA
1216089 TAGCAAAAAA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:1217384 original size:29 final size:29
Alignment explanation
Indices: 1217315--1218191 Score: 990
Period size: 28 Copynumber: 29.9 Consensus size: 29
1217305 CGTTCATCTC
1217315 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1217343 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217372 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
* *
1217404 TTCAAAGCCCACACAAGTTAGTGGCACCATTTTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCA-C---TCTT
* * * *
1217439 TTAAAAAAAAGCCCACGTAAGTCAATGACAC-CCT
1 TT----CAAAGCCCAC--AAGTCAGTGGCACTCTT
*
1217473 TTCAAAGCCCACAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217502 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217531 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217559 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217588 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1217616 TTCAAAGCCCACAAGTCAGTAGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1217645 TTCAAAGCCCACAAGTCAGTAGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1217673 TTCAAAGCCCACAAGTTAGTGGCAGTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
1217702 TTCAAAACCCATAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1217730 TTCAAAGCCCACAAGTCAATGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1217758 TTCAAAGCTCACGCAAGTCAGTGACAC-CCT
1 TTCAAAGC-C-CACAAGTCAGTGGCACTCTT
*
1217788 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217817 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1217845 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1217874 TTCAAAGCCCATAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1217902 TTCAAAGCCCACAAGTCAGTGGCAC-CAT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1217930 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
**
1217959 TTCAAAGCCCACACGAGTTTGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
1217991 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
1218019 TTCAAAGCCCACAAGTTAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
1218048 TTCAAAGCCCATAAGTTAGTGACA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1218076 TTCAAAGCCCACAAGTTATTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
1218104 TTCAAAGCCTATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
1218133 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
1218165 TTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CACAAGTCAGTGGCAC
1218192 CATTTTTTTT
Statistics
Matches: 734, Mismatches: 79, Indels: 69
0.83 0.09 0.08
Matches are distributed among these distances:
28 314 0.43
29 243 0.33
30 42 0.06
31 32 0.04
32 70 0.10
33 2 0.00
34 7 0.01
35 5 0.01
37 3 0.00
38 3 0.00
39 13 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:1217568 original size:57 final size:57
Alignment explanation
Indices: 1217446--1218192 Score: 935
Period size: 57 Copynumber: 12.9 Consensus size: 57
1217436 TTTTTAAAAA
* * * * *
1217446 AAAGCCCACGTAAGTCAATGACAC-CCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 AAAGCCCAC--AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
*
1217505 AAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
1217562 AAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
1217619 AAAGCCCACAAGTCAGTAGTACTCTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * *
1217676 AAAGCCCACAAGTTAGTGGCAGTCTTTTCAAAACCCATAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * *
1217733 AAAGCCCACAAGTCAATGGCA-TCCTTTCAAAGCTCACGCAAGTCAGTGACACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTC
*
1217791 AAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
1217848 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* *
1217905 AAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
** *
1217962 AAAGCCCACACGAGTTTGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
1 AAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * *
1218022 AAAGCCCACAAGTTAGTGGCACTTTTTTCAAAGCCCATAAGTTAGTGACATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * * *
1218079 AAAGCCCACAAGTTATTGGCAC-CCTTTCAAAGCCTATAAGTTAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
* *
1218136 AAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 AAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACC
1218193 ATTTTTTTTA
Statistics
Matches: 605, Mismatches: 67, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
56 57 0.09
57 369 0.61
58 73 0.12
59 33 0.05
60 20 0.03
61 36 0.06
62 3 0.00
63 14 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
Found at i:1218702 original size:20 final size:20
Alignment explanation
Indices: 1218655--1218703 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1218645 TTTTACCTAG
* * *
1218655 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATAA
1218675 ATAG-ATCGATACATGTATAA
1 AT-GTATCGATACATGTATAA
1218695 ATGTATCGA
1 ATGTATCGA
1218704 AATATTCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGTATAA
Found at i:1219664 original size:20 final size:21
Alignment explanation
Indices: 1219632--1219671 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1219622 AGCCTTTGAC
*
1219632 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
1219653 CATGCA-TTTTTAATATGTT
1 CATGCATTTTTTAATATGTT
1219672 CAGCATCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:1223020 original size:15 final size:16
Alignment explanation
Indices: 1222989--1223021 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1222979 TCAAAATAAT
*
1222989 TTTTTAAAGAAATTTG
1 TTTTTAAAGAAAATTG
1223005 TTTTTAAA-AAAATTG
1 TTTTTAAAGAAAATTG
1223020 TT
1 TT
1223022 CACAAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTTTTAAAGAAAATTG
Found at i:1223489 original size:19 final size:21
Alignment explanation
Indices: 1223467--1223505 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1223457 TTATAGTTTT
1223467 ATTTATTTTA-T-TTTTTAAA
1 ATTTATTTTACTATTTTTAAA
1223486 ATTTATTTTACTATTTTTAA
1 ATTTATTTTACTATTTTTAA
1223506 TTATTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTATTTTACTATTTTTAAA
Found at i:1223742 original size:23 final size:23
Alignment explanation
Indices: 1223696--1223742 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1223686 TCTAATAGGA
* *
1223696 TTTAAATATTAATTATTTTCTTT
1 TTTAAATATTAATAATTATCTTT
1223719 TTTAAATATTAATAAATTAT-TTT
1 TTTAAATATTAAT-AATTATCTTT
1223742 T
1 T
1223743 CATCTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTAAATATTAATAATTATCTTT
Found at i:1247143 original size:195 final size:195
Alignment explanation
Indices: 1246809--1247173 Score: 685
Period size: 195 Copynumber: 1.9 Consensus size: 195
1246799 GAATACAAAG
*
1246809 TCATCTTGGTCTTATACTTGGAGAGGTCTGGTAAAAGCTTGTAAAGATCTATCTCATGGTTTAAA
1 TCATCTTGGTCTTATACTTGGAAAGGTCTGGTAAAAGCTTGTAAAGATCTATCTCATGGTTTAAA
*
1246874 ATGGAGAATTAATGATGGTCGGGTGGTGAGCTTTTGGAAGGATCTTTGGCTGGATACACCACTTA
66 ATGGAGAATTAATGATGGTCGGGTGGTGAGCTTTTGGAAGGATATTTGGCTGGATACACCACTTA
*
1246939 TTGAAAAGATTGGTTCATCTCCTATTGTTGATTATGAAGACTCTATTATGCACGAAAAGATTGGT
131 TTAAAAAGATTGGTTCATCTCCTATTGTTGATTATGAAGACTCTATTATGCACGAAAAGATTGGT
* *
1247004 TCATCTTGGTCTTATACTTGGAAAGGTCTGGTAAAGGCTTGTAAAGATCTATCTTATGGTTTAAA
1 TCATCTTGGTCTTATACTTGGAAAGGTCTGGTAAAAGCTTGTAAAGATCTATCTCATGGTTTAAA
1247069 ATGGAGAATTAATGATGGTCGGGTGGTGAGCTTTTGGAAGGATATTTGGCTGGATACACCACTTA
66 ATGGAGAATTAATGATGGTCGGGTGGTGAGCTTTTGGAAGGATATTTGGCTGGATACACCACTTA
1247134 TTAAAAAGATTGGTTCATCTCCTATTGTTGATTATGAAGA
131 TTAAAAAGATTGGTTCATCTCCTATTGTTGATTATGAAGA
1247174 TTTTATTGTG
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 165 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (195 bp):
TCATCTTGGTCTTATACTTGGAAAGGTCTGGTAAAAGCTTGTAAAGATCTATCTCATGGTTTAAA
ATGGAGAATTAATGATGGTCGGGTGGTGAGCTTTTGGAAGGATATTTGGCTGGATACACCACTTA
TTAAAAAGATTGGTTCATCTCCTATTGTTGATTATGAAGACTCTATTATGCACGAAAAGATTGGT
Found at i:1248544 original size:3 final size:3
Alignment explanation
Indices: 1248536--1248598 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
1248526 GTTACGACAT
1248536 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1248584 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
1248599 GTATGAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1248734 original size:20 final size:20
Alignment explanation
Indices: 1248709--1248751 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1248699 AAATTGCTTC
1248709 TATTTAAACTAATTAATGTT
1 TATTTAAACTAATTAATGTT
1248729 TATTTAAACTAATTAATGTT
1 TATTTAAACTAATTAATGTT
1248749 TAT
1 TAT
1248752 ACATATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TATTTAAACTAATTAATGTT
Done.