Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 8 of 10
Found at i:1162398 original size:11 final size:11
Alignment explanation
Indices: 1162361--1162409 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
1162351 CAAACAAAAG
1162361 AAAAAAA-AGA
1 AAAAAAACAGA
* *
1162371 AAGAGAA-AGA
1 AAAAAAACAGA
1162381 AAAAAAACA-A
1 AAAAAAACAGA
1162391 AGAAAAAACAGA
1 A-AAAAAACAGA
1162403 AAAAAAA
1 AAAAAAA
1162410 TAAAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 15 0.47
11 15 0.47
12 2 0.06
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAACAGA
Found at i:1162419 original size:11 final size:11
Alignment explanation
Indices: 1162381--1162431 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
1162371 AAGAGAAAGA
1162381 AAAAAAACAA-
1 AAAAAAACAAC
*
1162391 AGAAAAAACAGAA
1 A-AAAAAACA-AC
*
1162404 AAAAAATAAAAC
1 AAAAAA-ACAAC
1162416 AAAAAAACAAC
1 AAAAAAACAAC
1162427 AAAAA
1 AAAAA
1162432 GGGTCCGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.03
11 17 0.50
12 13 0.38
13 3 0.09
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:1162419 original size:23 final size:22
Alignment explanation
Indices: 1162352--1162421 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
1162342 TGGACAAAAC
* *
1162352 AAACA-AAAGAAAAAAAAGAAA
1 AAACAGAAAAAAAAAAAACAAA
* *
1162373 GAGAA-AGAAAAAAAACAAAGAAA
1 -A-AACAGAAAAAAAAAAAACAAA
1162396 AAACAGAAAAAAAATAAAACAAA
1 AAACAGAAAAAAAA-AAAACAAA
1162419 AAA
1 AAA
1162422 ACAACAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.05
22 13 0.32
23 25 0.62
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.01
Consensus pattern (22 bp):
AAACAGAAAAAAAAAAAACAAA
Found at i:1162427 original size:27 final size:26
Alignment explanation
Indices: 1162374--1162431 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
1162364 AAAAAGAAAG
*
1162374 AGAAAGAAAAAAAACAAAGAAAAAAC
1 AGAAAAAAAAAAAACAAAGAAAAAAC
1162400 AGAAAAAAAATAAAACAAA-AAAACAAC
1 AGAAAAAAAA-AAAACAAAGAAAA-AAC
1162427 A-AAAA
1 AGAAAA
1162432 GGGTCCGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.83, C:0.09, G:0.07, T:0.02
Consensus pattern (26 bp):
AGAAAAAAAAAAAACAAAGAAAAAAC
Found at i:1164008 original size:34 final size:33
Alignment explanation
Indices: 1163928--1164092 Score: 172
Period size: 34 Copynumber: 4.8 Consensus size: 33
1163918 CAACCTTCTA
* *
1163928 AAGTCCACAACT-TCGTGGCACCTTTTTTTCTTTTT
1 AAGTCCACAACTCT-GTGGCA-C-TCTTTTCCTTTT
* *
1163963 AAAGCCCACAACTCTGTGGCACTCTTTTCCTTCT
1 -AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
*
1163997 AAGTCCTACAACTCCGTGGCACTCTTCTTCCTTTT
1 AAGTCC-ACAACTCTGTGGCACTCTT-TTCCTTTT
*
1164032 AAGCCCACAACT-TCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCT-GTGGCACTC-TTTTCCTTTT
* *
1164066 AAGTCCATAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTT
1164093 AAGCCCACAA
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
33 9 0.08
34 68 0.61
35 16 0.14
36 17 0.15
37 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.38
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
Found at i:1164015 original size:70 final size:69
Alignment explanation
Indices: 1163921--1164092 Score: 215
Period size: 69 Copynumber: 2.5 Consensus size: 69
1163911 CCAGTGGCAA
* *
1163921 CCTTCTAAAGTCCACAACTTCGTGGCACCTTTTTTTCTTTTTAAAGCCCACAAC-TCTGTGGCAC
1 CCTTCT-AAGTCCACAACTCCGTGGCACCTTTTTTTCCTTTT-AAGCCCACAACTTC-GTGGCAC
1163985 TC-TTTT
63 TCTTTTT
* *
1163991 CCTTCTAAGTCCTACAACTCCGTGGCA-CTCTTCTTCCTTTTAAGCCCACAACTTCGTGGCACTC
1 CCTTCTAAGTCC-ACAACTCCGTGGCACCTTTTTTTCCTTTTAAGCCCACAACTTCGTGGCACTC
1164055 TTTTT
65 TTTTT
* * * *
1164060 CCTTTTAAGTCCATAACTCTGTGGCACCCTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACCTTTTT
1164093 AAGCCCACAA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
68 32 0.36
69 37 0.42
70 19 0.22
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.38
Consensus pattern (69 bp):
CCTTCTAAGTCCACAACTCCGTGGCACCTTTTTTTCCTTTTAAGCCCACAACTTCGTGGCACTCT
TTTT
Found at i:1164078 original size:68 final size:68
Alignment explanation
Indices: 1163921--1164086 Score: 210
Period size: 68 Copynumber: 2.4 Consensus size: 68
1163911 CCAGTGGCAA
* * * *
1163921 CCTTCTAAAGTCCACAACTTCGTGGCACCTTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCCGTGGCA-CTCTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACT
1163986 CTTTT
64 CTTTT
1163991 CCTTCTAAGTCCTACAACTCCGTGGCACTCTTCTTCCTTTT-AAGCCCACAACT-TCGTGGCACT
1 CCTTCTAAGTCC-ACAACTCCGTGGCACTCTTCTTCCTTTTAAAGCCCACAACTCT-GTGGCACT
1164054 CTTTTT
64 C-TTTT
* * *
1164060 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCCGTGGCAC
1164087 CCTTTTAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
67 1 0.01
68 34 0.40
69 32 0.37
70 19 0.22
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCCGTGGCACTCTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACTCT
TTT
Found at i:1164091 original size:27 final size:28
Alignment explanation
Indices: 1164060--1164141 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
1164050 CACTCTTTTT
* *
1164060 CCTTTTAAGTCCATAACTCT-GTGGCA-C
1 CCTTTTAAGCCCACAACT-TGGTGGCACC
*
1164087 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAACTTGGTGGCACC
* *
1164115 CCTTTTAAAGCCCACAAGTTAGTGGCA
1 CCTTTT-AAGCCCACAACTTGGTGGCA
1164142 ACCTTCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 21 0.44
28 7 0.15
29 19 0.40
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (28 bp):
CCTTTTAAGCCCACAACTTGGTGGCACC
Found at i:1164130 original size:29 final size:28
Alignment explanation
Indices: 1164080--1164187 Score: 112
Period size: 28 Copynumber: 3.8 Consensus size: 28
1164070 CCATAACTCT
*
1164080 GTGGCACCCTTT-TAAGCCCACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
* *
1164107 GTGGCACCCCTTTTAAAGCCCACAAGTTA
1 GTGGCA-CCCTTTAAAAGCCCACAAGTTG
* * *
1164136 GTGGCAACCTTCAAAAGCACACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
*
1164164 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-AAAAGCCCACA
1164188 CAAGTTGATG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 8 0.12
28 29 0.44
29 29 0.44
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (28 bp):
GTGGCACCCTTTAAAAGCCCACAAGTTG
Found at i:1164420 original size:49 final size:49
Alignment explanation
Indices: 1164204--1164541 Score: 251
Period size: 49 Copynumber: 6.9 Consensus size: 49
1164194 GATGGCGTCT
* * * * **
1164204 TCTTCTAAGTCCAATATCGCGGGCCTTGAATCAGCATATTGGCACCTTTT
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
** * * *
1164254 TCTTTAAAACTCAATATCACTGGCCTTGAATCAGCATATT-G-A----CA
1 TCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
* * * * ** *
1164298 CCTTGAAGACCAATGTCCCTGGCCTTGAATCAGGTCATTGGCACCTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCT---CA
* *
1164350 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCCTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
* * * * *
1164399 TCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
* * * **
1164448 CCTTTAAGTCCAATAG-CGCTGGCTTTGAATCAGCATATTGGCA-CCTTT
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
* * *
1164496 TCGTCTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TC-T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1164542 AAGTCCAATA
Statistics
Matches: 232, Mismatches: 41, Indels: 29
0.77 0.14 0.10
Matches are distributed among these distances:
43 24 0.10
44 8 0.03
45 1 0.00
48 5 0.02
49 87 0.38
50 65 0.28
52 42 0.18
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCA
Found at i:1164427 original size:101 final size:99
Alignment explanation
Indices: 1164209--1164541 Score: 281
Period size: 98 Copynumber: 3.4 Consensus size: 99
1164199 CGTCTTCTTC
* * * * *** * * *
1164209 TAAGTCCAATATCGCGGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAAACTCAATATCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTAACCTTTAAGAC-CAATAGCGC
* * *
1164274 TGGCCTTGAATCAGCATATTGACACCT--T-G---
65 TGGCCTTGAATCAACACATTGGCACCTCATCGTCT
* ** **
1164303 -AAGACCAATGTCCCTGGCCTTGAATCAGGTCATTGGCACCTTAACCATCTTTAAGACCAAT-GT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTAA-C--CTTTAAGACCAATAG-
1164366 CGCTGGCCTTGAATCAACACATTGGCACCCTCATC-T-T
62 CGCTGGCCTTGAATCAACACATTGGCA-CCTCATCGTCT
* * * *
1164403 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCATCTTTACCTTTAAGTCCAATAGCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTAACCTTTAAGACCAATAGCGCT
* * * **
1164468 GGCTTTGAATCAGCATATTGGCACCTTTTCGTCT
66 GGCCTTGAATCAACACATTGGCACCTCATCGTCT
* *
1164502 TGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1164542 AAGTCCAATA
Statistics
Matches: 191, Mismatches: 34, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
93 35 0.18
95 27 0.14
96 11 0.06
97 5 0.03
98 38 0.20
99 38 0.20
100 1 0.01
101 36 0.19
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (99 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTAACCTTTAAGACCAATAGCGCT
GGCCTTGAATCAACACATTGGCACCTCATCGTCT
Found at i:1165379 original size:19 final size:19
Alignment explanation
Indices: 1165355--1165418 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1165345 TTTCAACGAT
1165355 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
*
1165374 TTGTATCCATAC---A--A
1 TTGTATCGATACATAAGTA
*
1165388 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1165406 TTGTATCGATACA
1 TTGTATCGATACA
1165419 ATGTACAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
19 23 0.64
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1165397 original size:32 final size:32
Alignment explanation
Indices: 1165356--1165423 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1165346 TTCAACGATT
1165356 TGTATCGATACATAAGTATTGTATCCATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
* *
1165388 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
1165420 TGTA
1 TGTA
1165424 CAGTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCCATACAA
Found at i:1165489 original size:13 final size:13
Alignment explanation
Indices: 1165471--1165495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1165461 ATTACTTAAA
1165471 TGTATCGATACAT
1 TGTATCGATACAT
1165484 TGTATCGATACA
1 TGTATCGATACA
1165496 CTAATCTTTG
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:1165548 original size:52 final size:53
Alignment explanation
Indices: 1165504--1165626 Score: 212
Period size: 53 Copynumber: 2.3 Consensus size: 53
1165494 CACTAATCTT
1165504 TGTATCGATACATGCAGGCAAA-TTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAGATGTATCGATACACTATGAAA
* * *
1165556 TGTATCGATACTTGCAAGCAAATTTTGCCCAGATCTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAGATGTATCGATACACTATGAAA
1165609 TGTATCGATACATGCAGG
1 TGTATCGATACATGCAGG
1165627 TAATTTTTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 20 0.31
53 45 0.69
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1171062 original size:28 final size:28
Alignment explanation
Indices: 1171006--1171063 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
1170996 GAAATAAAGC
** *
1171006 CGGGGTTGGAGTATCCCCTCGGCAGTAA
1 CGGGGTTGGAGTATCCCCAAGGCAATAA
*
1171034 CGGGGTTGGAGTATCCCCAATGCAATAA
1 CGGGGTTGGAGTATCCCCAAGGCAATAA
1171062 CG
1 CG
1171064 AGGTCGGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAAGGCAATAA
Found at i:1171155 original size:52 final size:52
Alignment explanation
Indices: 1171099--1171235 Score: 143
Period size: 52 Copynumber: 2.6 Consensus size: 52
1171089 AAATTGGTAT
* *
1171099 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* * * ** *
1171151 TTTTGAAAACAAAACCAGGA-TTGGAGTATCCCCGGTTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
1171203 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
1171236 TCGAAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
51 5 0.07
52 61 0.88
53 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:1171254 original size:28 final size:28
Alignment explanation
Indices: 1171209--1171290 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
1171199 AGTGTTTTAG
* *
1171209 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1171236 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
1171263 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1171291 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:1171340 original size:55 final size:51
Alignment explanation
Indices: 1171281--1171408 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 51
1171271 AACGGGGTTG
* *
1171281 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTG-AGAAATTAGTG---TTTTGAAAATAAAATCGGAGTTA
* *
1171336 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGAGTTA
* *
1171387 GAATATCCTCGATTGTGGAGAA
1 GAGTATCCCCGATTGT-GAGAA
1171409 TTGATAAACT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
51 34 0.54
52 2 0.03
53 4 0.06
54 8 0.13
55 15 0.24
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:1173783 original size:13 final size:13
Alignment explanation
Indices: 1173765--1173790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1173755 ACAAAGATCC
1173765 ATGTATCGATACA
1 ATGTATCGATACA
1173778 ATGTATCGATACA
1 ATGTATCGATACA
1173791 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1173786 original size:33 final size:33
Alignment explanation
Indices: 1173744--1173810 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1173734 AAAATTTCCA
***
1173744 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1173777 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1173810 A
1 A
1173811 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1173854 original size:19 final size:18
Alignment explanation
Indices: 1173830--1173897 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1173820 CAGTAGCTAA
1173830 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1173849 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1173864 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1173881 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1173898 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1173870 original size:13 final size:13
Alignment explanation
Indices: 1173852--1173876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173842 ACAATACTTA
1173852 TGTATCGATACAT
1 TGTATCGATACAT
1173865 TGTATCGATACA
1 TGTATCGATACA
1173877 AAACTTATGT
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:1173874 original size:32 final size:32
Alignment explanation
Indices: 1173833--1173895 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1173823 TAGCTAATTA
*
1173833 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1173865 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1173896 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1173977 original size:21 final size:22
Alignment explanation
Indices: 1173953--1174010 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 22
1173943 CATTTGTAGG
1173953 ATGTATCGATACATTCCAC-AA
1 ATGTATCGATACATTCCACAAA
*
1173974 ATGTATCGATACATTCTACAAA
1 ATGTATCGATACATTCCACAAA
1173996 ATGTATCGATACATT
1 ATGTATCGATACATT
1174011 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (22 bp):
ATGTATCGATACATTCCACAAA
Found at i:1174035 original size:13 final size:13
Alignment explanation
Indices: 1174017--1174042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1174007 CATTTAATTT
1174017 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
1174030 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
1174043 ACACTTTATC
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:1183805 original size:10 final size:10
Alignment explanation
Indices: 1183792--1183903 Score: 88
Period size: 10 Copynumber: 10.7 Consensus size: 10
1183782 ATAAAACAGG
1183792 AAAAAAAAAC
1 AAAAAAAAAC
*
1183802 AAAACAAAAC
1 AAAAAAAAAC
*
1183812 -AAAACAAAC
1 AAAAAAAAAC
1183821 AAAAGAAAAA-
1 AAAA-AAAAAC
1183831 AAAAGAAAGAGA-
1 AAAA-AAA-A-AC
1183843 AAGAAAAAAAC
1 AA-AAAAAAAC
1183854 AAAGAAAAAAC
1 AAA-AAAAAAC
*
1183865 AGAAAAAAAC
1 AAAAAAAAAC
1183875 AAAACAAAAA-
1 AAAA-AAAAAC
1183885 AACAAAAAAAC
1 AA-AAAAAAAC
1183896 AACAAAAA
1 AA-AAAAA
1183904 GGGTCCGGAT
Statistics
Matches: 86, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
9 7 0.08
10 39 0.45
11 32 0.37
12 6 0.07
13 2 0.02
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1183822 original size:4 final size:5
Alignment explanation
Indices: 1183792--1183902 Score: 68
Period size: 5 Copynumber: 21.8 Consensus size: 5
1183782 ATAAAACAGG
* * * * *
1183792 AAAAA AAAAC AAAAC AAAAC AAAAC -AAAC AAAAG AAAAA AAAAG AAAGAGA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA-A-C
* *
1183843 AAGAAA AAAAC AAAGAA AAAAC AGAAA- AAAAC AAAAC -AAA- AAAAC
1 AA-AAC AAAAC AAA-AC AAAAC A-AAAC AAAAC AAAAC AAAAC AAAAC
*
1183888 AAAAA AACAAC AAAA
1 AAAAC AA-AAC AAAA
1183903 AGGGTCCGGA
Statistics
Matches: 86, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
4 13 0.15
5 54 0.63
6 15 0.17
7 3 0.03
8 1 0.01
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1183851 original size:22 final size:20
Alignment explanation
Indices: 1183826--1183894 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 20
1183816 CAAACAAAAG
1183826 AAAAAAAAAGAAAGAGAAAGAA
1 AAAAAAAAAGAAA-A-AAAGAA
*
1183848 AAAAACAAAGAAAAAACAGAA
1 AAAAAAAAAGAAAAAA-AGAA
* *
1183869 AAAAACAAAACAAAAAAACAA
1 AAAAA-AAAAGAAAAAAAGAA
1183890 AAAAA
1 AAAAA
1183895 CAACAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 18 0.44
22 21 0.51
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAGAA
Found at i:1183903 original size:1 final size:1
Alignment explanation
Indices: 1183792--1183894 Score: 53
Period size: 1 Copynumber: 103.0 Consensus size: 1
1183782 ATAAAACAGG
* * * * * * * * * * *
1183792 AAAAAAAAACAAAACAAAACAAAACAAACAAAAGAAAAAAAAAGAAAGAGAAAGAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
1183857 GAAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1183895 CAACAAAAAG
Statistics
Matches: 68, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:1185504 original size:34 final size:33
Alignment explanation
Indices: 1185401--1185556 Score: 195
Period size: 34 Copynumber: 4.6 Consensus size: 33
1185391 TAAAGTCCAT
* *
1185401 AACTCTGTGGCACCTTTTTTTCTTTTTAACGCCCAC
1 AACTCTGTGGCA-C-TCTTTTCCTTTTAA-GCCCAC
* *
1185437 AACTCTGTGGCACTCTTTTCCTTCTAAGTCCAC
1 AACTCTGTGGCACTCTTTTCCTTTTAAGCCCAC
**
1185470 AACTCCATGGCACTCTTCTTCCTTTTAAGCCCAC
1 AACTCTGTGGCACTCTT-TTCCTTTTAAGCCCAC
*
1185504 AACTCTGTGGCACTCTTTTTCCTTTTAAGTCCAC
1 AACTCTGTGGCACTC-TTTTCCTTTTAAGCCCAC
*
1185538 AACTCTGTGGCACCCTTTT
1 AACTCTGTGGCACTCTTTT
1185557 AAGCCCACAA
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
33 24 0.23
34 67 0.63
35 3 0.03
36 12 0.11
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.38
Consensus pattern (33 bp):
AACTCTGTGGCACTCTTTTCCTTTTAAGCCCAC
Found at i:1185522 original size:27 final size:30
Alignment explanation
Indices: 1185424--1185595 Score: 95
Period size: 34 Copynumber: 5.5 Consensus size: 30
1185414 CTTTTTTTCT
*
1185424 TTTTAACGCCCACAACTCTGTGGCACTCTTTTCC
1 TTTTAA-GCCCACAACTCTGTGGCAC-C--TCCC
* * **
1185458 TTCTAAGTCCACAACTCCATGGCACTCTTCTTCC
1 TTTTAAGCCCACAACTCTGTGGCAC-C-TC--CC
*
1185492 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCTGTGGCAC-C---TCCC
*
1185526 TTTTAAGTCCACAACTCTGTGGCA---CCC
1 TTTTAAGCCCACAACTCTGTGGCACCTCCC
*
1185553 TTTTAAGCCCACAAGT-TGGTGGCA-C-CCC
1 TTTTAAGCCCACAACTCT-GTGGCACCTCCC
*
1185581 TTTTAAATCCCACAA
1 TTTT-AAGCCCACAA
1185596 GTTAGTGGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.01
27 22 0.19
28 7 0.06
29 9 0.08
32 2 0.02
33 18 0.16
34 55 0.47
36 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTTAAGCCCACAACTCTGTGGCACCTCCC
Found at i:1185549 original size:68 final size:68
Alignment explanation
Indices: 1185386--1185550 Score: 233
Period size: 68 Copynumber: 2.4 Consensus size: 68
1185376 CCAGTGGCAG
* * * *
1185386 CCTTCTAAAGTCCATAACTCTGTGGCACCTTTTTTTCTTTTTAACGCCCACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCTGTGGCA-CTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACT
1185451 CTTTT
64 CTTTT
**
1185456 CCTTCTAAGTCCACAACTCCATGGCACTCTTCTTCCTTTTAA-GCCCACAACTCTGTGGCACTCT
1 CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACTC-
1185520 TTTT
65 TTTT
*
1185524 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
1185551 CCTTTTAAGC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
67 21 0.25
68 41 0.48
69 17 0.20
70 6 0.07
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACTCT
TTT
Found at i:1185610 original size:28 final size:27
Alignment explanation
Indices: 1185524--1185610 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
1185514 CACTCTTTTT
* *
1185524 CCTTTTAAGTCCACAACTCT-GTGGCAC
1 CCTTTTAAGCCCACAAGT-TAGTGGCAC
*
1185551 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAAGTTAGTGGCA-C
* *
1185579 CCTTTTAAATCCCACAAGTTAGTGGCAA
1 CCTTTT-AAGCCCACAAGTTAGTGGCAC
1185607 CCTT
1 CCTT
1185611 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 11 0.21
29 18 0.35
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (27 bp):
CCTTTTAAGCCCACAAGTTAGTGGCAC
Found at i:1185884 original size:49 final size:49
Alignment explanation
Indices: 1185668--1186006 Score: 298
Period size: 49 Copynumber: 6.9 Consensus size: 49
1185658 GATGGCGTCT
* * * * *
1185668 TCTTCTAAGTCCAGTATCGCTGGCCTTGAACCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * * *
1185718 TCTTTAAAACTCAATATCACTGGCCTTGAATCAGCATATT-G-A----CA
1 TCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
1185762 CCTTGAAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* *
1185814 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* ** *
1185863 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1185912 CCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACCTT-T
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1185960 TCCGTCTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 T-C-T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1186007 AAGTACAATA
Statistics
Matches: 238, Mismatches: 36, Indels: 29
0.79 0.12 0.10
Matches are distributed among these distances:
43 24 0.10
44 9 0.04
45 1 0.00
48 1 0.00
49 91 0.38
50 33 0.14
51 35 0.15
52 44 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:1185956 original size:150 final size:144
Alignment explanation
Indices: 1185684--1186006 Score: 355
Period size: 150 Copynumber: 2.2 Consensus size: 144
1185674 AAGTCCAGTA
* * *
1185684 TCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACTCAATATCACTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
* * *
1185749 CAGCATATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
66 CAGCACATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
1185814 TCTTTAAGACCAATG
131 TC-TTAAGACCAATG
* ** *
1185829 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTC-CAATGT-AGCTGGCCTTGAA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCA-CTGGCCTTGAA
* * * *
1185892 TCAGCACATTGGCATTTTTACCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCAC
65 TCAGCACATT-G-A----CACCTTGAAGACCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCAC
** * * *
1185956 CTTTTCCGTCTTGAGTCCAATG
123 CTTAACCATCTTAAGACCAATG
* *
1185978 TAGCTGGCCTTGAATCAGCACATTAGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
1186007 AAGTACAATA
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
143 1 0.01
144 25 0.17
145 39 0.26
146 1 0.01
149 36 0.24
150 45 0.30
151 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (144 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
CAGCACATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
TCTTAAGACCAATG
Found at i:1186625 original size:10 final size:10
Alignment explanation
Indices: 1186610--1186641 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1186600 TGTCCGGGCT
1186610 AATTTTCGAC
1 AATTTTCGAC
*
1186620 AATTTTCGAT
1 AATTTTCGAC
1186630 AATTTTCGAC
1 AATTTTCGAC
1186640 AA
1 AA
1186642 AATGGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (10 bp):
AATTTTCGAC
Found at i:1186853 original size:19 final size:19
Alignment explanation
Indices: 1186829--1186892 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1186819 TTTCAACGAT
1186829 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
*
1186848 TTGTATCCATAC---A--A
1 TTGTATCGATACATAAGTA
*
1186862 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1186880 TTGTATCGATACA
1 TTGTATCGATACA
1186893 ATGTACAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
19 23 0.64
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1186871 original size:32 final size:32
Alignment explanation
Indices: 1186830--1186897 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1186820 TTCAACGATT
1186830 TGTATCGATACATAAGTATTGTATCCATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
* *
1186862 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
1186894 TGTA
1 TGTA
1186898 CAGTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCCATACAA
Found at i:1186947 original size:21 final size:21
Alignment explanation
Indices: 1186921--1186979 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
1186911 ACTGCCAAGA
1186921 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
1186942 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
1186963 AAATGTATCGATACATT
1 AAATGTATCGATACATT
1186980 GTATCGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:1187098 original size:53 final size:53
Alignment explanation
Indices: 1186999--1187129 Score: 237
Period size: 53 Copynumber: 2.5 Consensus size: 53
1186989 TACTAATATT
*
1186999 TGTATCGATACATGCAGGCAAA-TTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
*
1187051 TGTATCGATACTTGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
1187104 TGTATCGATACATGCAGGCAAATTTT
1 TGTATCGATACATGCAGGCAAATTTT
1187130 CTTATTTCGG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 21 0.28
53 54 0.72
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
Found at i:1192851 original size:10 final size:10
Alignment explanation
Indices: 1192838--1192949 Score: 88
Period size: 10 Copynumber: 10.7 Consensus size: 10
1192828 ATAAAACAGG
1192838 AAAAAAAAAC
1 AAAAAAAAAC
*
1192848 AAAACAAAAC
1 AAAAAAAAAC
*
1192858 -AAAACAAAC
1 AAAAAAAAAC
1192867 AAAAGAAAAA-
1 AAAA-AAAAAC
1192877 AAAAGAAAGAGA-
1 AAAA-AAA-A-AC
1192889 AAGAAAAAAAC
1 AA-AAAAAAAC
1192900 AAAGAAAAAAC
1 AAA-AAAAAAC
*
1192911 AGAAAAAAAC
1 AAAAAAAAAC
1192921 AAAACAAAAA-
1 AAAA-AAAAAC
1192931 AACAAAAAAAC
1 AA-AAAAAAAC
1192942 AACAAAAA
1 AA-AAAAA
1192950 GGGTCCGGAT
Statistics
Matches: 86, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
9 7 0.08
10 39 0.45
11 32 0.37
12 6 0.07
13 2 0.02
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1192868 original size:4 final size:5
Alignment explanation
Indices: 1192838--1192948 Score: 68
Period size: 5 Copynumber: 21.8 Consensus size: 5
1192828 ATAAAACAGG
* * * * *
1192838 AAAAA AAAAC AAAAC AAAAC AAAAC -AAAC AAAAG AAAAA AAAAG AAAGAGA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA-A-C
* *
1192889 AAGAAA AAAAC AAAGAA AAAAC AGAAA- AAAAC AAAAC -AAA- AAAAC
1 AA-AAC AAAAC AAA-AC AAAAC A-AAAC AAAAC AAAAC AAAAC AAAAC
*
1192934 AAAAA AACAAC AAAA
1 AAAAC AA-AAC AAAA
1192949 AGGGTCCGGA
Statistics
Matches: 86, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
4 13 0.15
5 54 0.63
6 15 0.17
7 3 0.03
8 1 0.01
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1192897 original size:22 final size:20
Alignment explanation
Indices: 1192872--1192940 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 20
1192862 CAAACAAAAG
1192872 AAAAAAAAAGAAAGAGAAAGAA
1 AAAAAAAAAGAAA-A-AAAGAA
*
1192894 AAAAACAAAGAAAAAACAGAA
1 AAAAAAAAAGAAAAAA-AGAA
* *
1192915 AAAAACAAAACAAAAAAACAA
1 AAAAA-AAAAGAAAAAAAGAA
1192936 AAAAA
1 AAAAA
1192941 CAACAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 18 0.44
22 21 0.51
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAGAA
Found at i:1192949 original size:1 final size:1
Alignment explanation
Indices: 1192838--1192940 Score: 53
Period size: 1 Copynumber: 103.0 Consensus size: 1
1192828 ATAAAACAGG
* * * * * * * * * * *
1192838 AAAAAAAAACAAAACAAAACAAAACAAACAAAAGAAAAAAAAAGAAAGAGAAAGAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
1192903 GAAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1192941 CAACAAAAAG
Statistics
Matches: 68, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:1194557 original size:34 final size:33
Alignment explanation
Indices: 1194454--1194609 Score: 195
Period size: 34 Copynumber: 4.6 Consensus size: 33
1194444 TAAAGTCCAT
* *
1194454 AACTCTGTGGCACCTTTTTTTCTTTTTAACGCCCAC
1 AACTCTGTGGCA-C-TCTTTTCCTTTTAA-GCCCAC
* *
1194490 AACTCTGTGGCACTCTTTTCCTTCTAAGTCCAC
1 AACTCTGTGGCACTCTTTTCCTTTTAAGCCCAC
**
1194523 AACTCCATGGCACTCTTCTTCCTTTTAAGCCCAC
1 AACTCTGTGGCACTCTT-TTCCTTTTAAGCCCAC
*
1194557 AACTCTGTGGCACTCTTTTTCCTTTTAAGTCCAC
1 AACTCTGTGGCACTC-TTTTCCTTTTAAGCCCAC
*
1194591 AACTCTGTGGCACCCTTTT
1 AACTCTGTGGCACTCTTTT
1194610 AAGCCCACAA
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
33 24 0.23
34 67 0.63
35 3 0.03
36 12 0.11
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.38
Consensus pattern (33 bp):
AACTCTGTGGCACTCTTTTCCTTTTAAGCCCAC
Found at i:1194575 original size:27 final size:30
Alignment explanation
Indices: 1194477--1194648 Score: 95
Period size: 34 Copynumber: 5.5 Consensus size: 30
1194467 CTTTTTTTCT
*
1194477 TTTTAACGCCCACAACTCTGTGGCACTCTTTTCC
1 TTTTAA-GCCCACAACTCTGTGGCAC-C--TCCC
* * **
1194511 TTCTAAGTCCACAACTCCATGGCACTCTTCTTCC
1 TTTTAAGCCCACAACTCTGTGGCAC-C-TC--CC
*
1194545 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCTGTGGCAC-C---TCCC
*
1194579 TTTTAAGTCCACAACTCTGTGGCA---CCC
1 TTTTAAGCCCACAACTCTGTGGCACCTCCC
*
1194606 TTTTAAGCCCACAAGT-TGGTGGCA-C-CCC
1 TTTTAAGCCCACAACTCT-GTGGCACCTCCC
*
1194634 TTTTAAATCCCACAA
1 TTTT-AAGCCCACAA
1194649 GTTAGTGGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.01
27 22 0.19
28 7 0.06
29 9 0.08
32 2 0.02
33 18 0.16
34 55 0.47
36 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTTAAGCCCACAACTCTGTGGCACCTCCC
Found at i:1194602 original size:68 final size:68
Alignment explanation
Indices: 1194439--1194603 Score: 233
Period size: 68 Copynumber: 2.4 Consensus size: 68
1194429 CCAGTGGCAG
* * * *
1194439 CCTTCTAAAGTCCATAACTCTGTGGCACCTTTTTTTCTTTTTAACGCCCACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCTGTGGCA-CTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACT
1194504 CTTTT
64 CTTTT
**
1194509 CCTTCTAAGTCCACAACTCCATGGCACTCTTCTTCCTTTTAA-GCCCACAACTCTGTGGCACTCT
1 CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACTC-
1194573 TTTT
65 TTTT
*
1194577 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
1194604 CCTTTTAAGC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
67 21 0.25
68 41 0.48
69 17 0.20
70 6 0.07
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGTGGCACTCT
TTT
Found at i:1194663 original size:28 final size:27
Alignment explanation
Indices: 1194577--1194663 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
1194567 CACTCTTTTT
* *
1194577 CCTTTTAAGTCCACAACTCT-GTGGCAC
1 CCTTTTAAGCCCACAAGT-TAGTGGCAC
*
1194604 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAAGTTAGTGGCA-C
* *
1194632 CCTTTTAAATCCCACAAGTTAGTGGCAA
1 CCTTTT-AAGCCCACAAGTTAGTGGCAC
1194660 CCTT
1 CCTT
1194664 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 11 0.21
29 18 0.35
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (27 bp):
CCTTTTAAGCCCACAAGTTAGTGGCAC
Found at i:1194937 original size:49 final size:49
Alignment explanation
Indices: 1194721--1195059 Score: 298
Period size: 49 Copynumber: 6.9 Consensus size: 49
1194711 GATGGCGTCT
* * * * *
1194721 TCTTCTAAGTCCAGTATCGCTGGCCTTGAACCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * * *
1194771 TCTTTAAAACTCAATATCACTGGCCTTGAATCAGCATATT-G-A----CA
1 TCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
1194815 CCTTGAAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* *
1194867 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* ** *
1194916 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1194965 CCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACCTT-T
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1195013 TCCGTCTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 T-C-T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1195060 AAGTCCAATA
Statistics
Matches: 238, Mismatches: 36, Indels: 29
0.79 0.12 0.10
Matches are distributed among these distances:
43 24 0.10
44 9 0.04
45 1 0.00
48 1 0.00
49 91 0.38
50 33 0.14
51 35 0.15
52 44 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:1195009 original size:150 final size:144
Alignment explanation
Indices: 1194737--1195059 Score: 355
Period size: 150 Copynumber: 2.2 Consensus size: 144
1194727 AAGTCCAGTA
* * *
1194737 TCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACTCAATATCACTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
* * *
1194802 CAGCATATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
66 CAGCACATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
1194867 TCTTTAAGACCAATG
131 TC-TTAAGACCAATG
* ** *
1194882 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTC-CAATGT-AGCTGGCCTTGAA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCA-CTGGCCTTGAA
* * * *
1194945 TCAGCACATTGGCATTTTTACCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCAC
65 TCAGCACATT-G-A----CACCTTGAAGACCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCAC
** * * *
1195009 CTTTTCCGTCTTGAGTCCAATG
123 CTTAACCATCTTAAGACCAATG
* *
1195031 TAGCTGGCCTTGAATCAGCACATTAGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
1195060 AAGTCCAATA
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
143 1 0.01
144 25 0.17
145 39 0.26
146 1 0.01
149 36 0.24
150 45 0.30
151 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (144 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
CAGCACATTGACACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
TCTTAAGACCAATG
Found at i:1195678 original size:10 final size:10
Alignment explanation
Indices: 1195663--1195694 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1195653 TGTCCGGGCT
1195663 AATTTTCGAC
1 AATTTTCGAC
*
1195673 AATTTTCGAT
1 AATTTTCGAC
1195683 AATTTTCGAC
1 AATTTTCGAC
1195693 AA
1 AA
1195695 AATGGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (10 bp):
AATTTTCGAC
Found at i:1195906 original size:19 final size:19
Alignment explanation
Indices: 1195882--1195945 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1195872 TTTCAACGAT
1195882 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
*
1195901 TTGTATCCATAC---A--A
1 TTGTATCGATACATAAGTA
*
1195915 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1195933 TTGTATCGATACA
1 TTGTATCGATACA
1195946 ATGTACAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
19 23 0.64
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1195924 original size:32 final size:32
Alignment explanation
Indices: 1195883--1195950 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1195873 TTCAACGATT
1195883 TGTATCGATACATAAGTATTGTATCCATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
* *
1195915 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
1195947 TGTA
1 TGTA
1195951 CAGTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCCATACAA
Found at i:1196130 original size:53 final size:53
Alignment explanation
Indices: 1196031--1196161 Score: 228
Period size: 53 Copynumber: 2.5 Consensus size: 53
1196021 TACTAATCTT
*
1196031 TGTATCGATACATGCAGGCAAA-TTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
*
1196083 TGTATCGATACTTGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
*
1196136 TGTATCGATACATGCAGGTAAATTTT
1 TGTATCGATACATGCAGGCAAATTTT
1196162 CTTATTTCGG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 21 0.28
53 53 0.72
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
Found at i:1201878 original size:10 final size:10
Alignment explanation
Indices: 1201865--1201975 Score: 86
Period size: 10 Copynumber: 10.7 Consensus size: 10
1201855 ATAAAACAGG
1201865 AAAAAAAAAC
1 AAAAAAAAAC
*
1201875 AAAACAAAAC
1 AAAAAAAAAC
*
1201885 -AAAACAAAC
1 AAAAAAAAAC
1201894 AAAAGAAAAA-
1 AAAA-AAAAAC
1201904 AAAGAAAGAGAA-
1 AAA-AAA-A-AAC
*
1201916 AGAAAAAAAC
1 AAAAAAAAAC
1201926 AAAGAAAAAAC
1 AAA-AAAAAAC
*
1201937 AGAAAAAAAC
1 AAAAAAAAAC
1201947 AAAACAAAAA-
1 AAAA-AAAAAC
1201957 AACAAAAAAAC
1 AA-AAAAAAAC
1201968 AACAAAAA
1 AA-AAAAA
1201976 GGGTCCGGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
9 9 0.11
10 37 0.45
11 33 0.40
12 4 0.05
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1201895 original size:4 final size:5
Alignment explanation
Indices: 1201865--1201974 Score: 68
Period size: 5 Copynumber: 21.8 Consensus size: 5
1201855 ATAAAACAGG
* * * *
1201865 AAAAA AAAAC AAAAC AAAAC AAAAC -AAAC AAAAG AAAA- AAAAG AAAGAGA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA-A-C
* *
1201915 AAGAAA AAAAC AAAGAA AAAAC AGAAA- AAAAC AAAAC -AAA- AAAAC
1 AA-AAC AAAAC AAA-AC AAAAC A-AAAC AAAAC AAAAC AAAAC AAAAC
*
1201960 AAAAA AACAAC AAAA
1 AAAAC AA-AAC AAAA
1201975 AGGGTCCGGA
Statistics
Matches: 86, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
4 17 0.20
5 50 0.58
6 15 0.17
7 3 0.03
8 1 0.01
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1201924 original size:22 final size:20
Alignment explanation
Indices: 1201899--1201966 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 20
1201889 CAAACAAAAG
1201899 AAAAAAAAGAAAGAGAAAGAAA
1 AAAAAAAAGAAA-A-AAAGAAA
*
1201921 AAAACAAAGAAAAAACAGAAA
1 AAAAAAAAGAAAAAA-AGAAA
* *
1201942 AAAACAAAACAAAAAAACAAA
1 AAAA-AAAAGAAAAAAAGAAA
1201963 AAAA
1 AAAA
1201967 CAACAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 18 0.45
22 20 0.50
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAGAAA
Found at i:1201937 original size:75 final size:70
Alignment explanation
Indices: 1201842--1201976 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 70
1201832 TCAACAAAAA
* *
1201842 AAAAAAACAAAGGATAAAACAGGAAAAAAAAACAAAACAAAACAAAACAAACAAAAGAAAAAAAA
1 AAAAAAACAAAGGAAAAAACA-G--AAAAAAACAAAAC-AAA-AAAACAAA-AAAACAAAAAAAA
1201907 GAAAGAGAAAG
60 GAAAGAGAAAG
*
1201918 AAAAAAACAAA-GAAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAACAACAAAAAG
1 AAAAAAACAAAGGAAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAACAAAAAAAAG
1201977 GGTCCGGATG
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
69 12 0.21
70 8 0.14
71 3 0.05
72 13 0.23
74 1 0.02
75 8 0.14
76 11 0.20
ACGTcount: A:0.80, C:0.10, G:0.09, T:0.01
Consensus pattern (70 bp):
AAAAAAACAAAGGAAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAACAAAAAAAAGAAAGA
GAAAG
Found at i:1201975 original size:1 final size:1
Alignment explanation
Indices: 1201865--1201966 Score: 51
Period size: 1 Copynumber: 102.0 Consensus size: 1
1201855 ATAAAACAGG
* * * * * * * * * * * *
1201865 AAAAAAAAACAAAACAAAACAAAACAAACAAAAGAAAAAAAAGAAAGAGAAAGAAAAAAACAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
1201930 AAAAAACAGAAAAAAACAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1201967 CAACAAAAAG
Statistics
Matches: 67, Mismatches: 34, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:1203583 original size:34 final size:34
Alignment explanation
Indices: 1203476--1203635 Score: 214
Period size: 34 Copynumber: 4.7 Consensus size: 34
1203466 CTTCTAAAGT
* *
1203476 CCACAACTCTGTGGCACCTTTTTTTCTTTTTAACGC
1 CCACAACTCTGTGGCA-CTCTTTTTCCTTTTAA-GC
* *
1203512 CCACAACTCTGTGGCACTC-TTTTCCTTCTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* *
1203545 CCACAACTCCGTGGCACTCTTCTTCCTTTTAAGC
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* *
1203579 CCACAACTCTGCGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
*
1203613 CCACAACTCTGTGGCACCCTTTT
1 CCACAACTCTGTGGCACTCTTTT
1203636 AAGCCCACAA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
33 19 0.17
34 72 0.66
35 2 0.02
36 16 0.15
ACGTcount: A:0.17, C:0.34, G:0.12, T:0.36
Consensus pattern (34 bp):
CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
Found at i:1203616 original size:68 final size:68
Alignment explanation
Indices: 1203465--1203629 Score: 242
Period size: 68 Copynumber: 2.4 Consensus size: 68
1203455 CCAGTGGCAA
* * * *
1203465 CCTTCTAAAGTCCACAACTCTGTGGCACCTTTTTTTCTTTTTAACGCCCACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCTGTGGCA-CTCTTCTTCCTTTTAACGCCCACAACTCTGCGGCACT
1203530 CTTTT
64 CTTTT
*
1203535 CCTTCTAAGTCCACAACTCCGTGGCACTCTTCTTCCTTTTAA-GCCCACAACTCTGCGGCACTCT
1 CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGCGGCACTC-
1203599 TTTT
65 TTTT
*
1203603 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
1203630 CCTTTTAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
67 20 0.23
68 42 0.48
69 19 0.22
70 6 0.07
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.35
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCTGTGGCACTCTTCTTCCTTTTAACGCCCACAACTCTGCGGCACTCT
TTT
Found at i:1203634 original size:27 final size:27
Alignment explanation
Indices: 1203603--1203689 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
1203593 CACTCTTTTT
* *
1203603 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAAGTCTGTGGCAC
1203630 CCTTTTAAGCCCACAAGT-TGGTGGCACC
1 CCTTTTAAGCCCACAAGTCT-GTGGCA-C
* *
1203658 CCTTTTAAAGCCCACAAGTCAGTGGCAA
1 CCTTTT-AAGCCCACAAGTCTGTGGCAC
1203686 CCTT
1 CCTT
1203690 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 11 0.21
29 18 0.35
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGCCCACAAGTCTGTGGCAC
Found at i:1203673 original size:29 final size:28
Alignment explanation
Indices: 1203623--1203730 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 28
1203613 CCACAACTCT
*
1203623 GTGGCACCCTTT-TAAGCCCACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
* **
1203650 GTGGCACCCCTTTTAAAGCCCACAAGTCA
1 GTGGCA-CCCTTTAAAAGCCCACAAGTTG
* * *
1203679 GTGGCAACCTTCAAAAGCACACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
*
1203707 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-AAAAGCCCACA
1203731 CAAGTTGATG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.12
28 28 0.44
29 28 0.44
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (28 bp):
GTGGCACCCTTTAAAAGCCCACAAGTTG
Found at i:1203963 original size:49 final size:48
Alignment explanation
Indices: 1203747--1204085 Score: 294
Period size: 49 Copynumber: 6.9 Consensus size: 48
1203737 GATGGCGTCT
* * * *
1203747 TCTTCTAAGTCCAGTATCGCTGGCCTTGAACCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTA
** * * * *
1203797 TCTTTAAAACTCAATATCACTGGCCTTGAATCAGCATATTGACACCTTA
1 TCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTA
* * *
1203846 -----AAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT----A
* *
1203893 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-A
* **
1203942 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATTTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTA
* * *
1203991 CCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCTTA
* * * *
1204039 TCCGTCTTGAGTCCAATGTAGCTGGCCTTGAATCAACACATTAGCAC
1 T-C-T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1204086 AAGTCCAATA
Statistics
Matches: 240, Mismatches: 33, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
43 31 0.13
44 4 0.02
47 1 0.00
48 2 0.01
49 89 0.37
50 40 0.17
51 34 0.14
52 39 0.16
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (48 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTA
Found at i:1204035 original size:150 final size:144
Alignment explanation
Indices: 1203763--1204085 Score: 355
Period size: 150 Copynumber: 2.2 Consensus size: 144
1203753 AAGTCCAGTA
* * * *
1203763 TCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACTCAATATCACTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
* * *
1203828 CAGCATATTGACACCTTAAAGACCAATGTCGCTGGCCTTGAATTAGGACATTGGCACCTTAACCA
66 CAGCACATTGACACCTTAAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
1203893 TCTTTAAGACCAATG
131 TC-TTAAGACCAATG
** *
1203908 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTC-CAATGT-AGCTGGCCTTGAA
1 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAAACTCAATATCA-CTGGCCTTGAA
* * * *
1203971 TCAGCACATTGGCATTTTTACCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCAC
65 TCAGCACATT-G-A----CACCTTAAAGACCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCAC
** * * *
1204035 CTTTTCCGTCTTGAGTCCAATG
123 CTTAACCATCTTAAGACCAATG
* *
1204057 TAGCTGGCCTTGAATCAACACATTAGCAC
1 TCGCTGGCCTTGAATCAACACATTGGCAC
1204086 AAGTCCAATA
Statistics
Matches: 149, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
143 1 0.01
144 25 0.17
145 39 0.26
146 1 0.01
149 37 0.25
150 45 0.30
151 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (144 bp):
TCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAAACTCAATATCACTGGCCTTGAAT
CAGCACATTGACACCTTAAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCA
TCTTAAGACCAATG
Found at i:1204932 original size:19 final size:19
Alignment explanation
Indices: 1204908--1204971 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1204898 TTTCAACGAT
1204908 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
*
1204927 TTGTATCCATAC---A--A
1 TTGTATCGATACATAAGTA
*
1204941 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1204959 TTGTATCGATACA
1 TTGTATCGATACA
1204972 ATGTACAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
19 23 0.64
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1204950 original size:32 final size:32
Alignment explanation
Indices: 1204909--1204976 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1204899 TTCAACGATT
1204909 TGTATCGATACATAAGTATTGTATCCATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
* *
1204941 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCCATACAA
1204973 TGTA
1 TGTA
1204977 CAGTTACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCCATACAA
Found at i:1205156 original size:53 final size:53
Alignment explanation
Indices: 1205057--1205187 Score: 237
Period size: 53 Copynumber: 2.5 Consensus size: 53
1205047 TACTAATCTT
*
1205057 TGTATCGATACATGCAGGCAAA-TTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
*
1205109 TGTATCGATACTTGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
1205162 TGTATCGATACATGCAGGCAAATTTT
1 TGTATCGATACATGCAGGCAAATTTT
1205188 CATATTTCGG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 21 0.28
53 54 0.72
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTTGCCCAAATGTATCGATACACTATGAAA
Found at i:1208622 original size:21 final size:20
Alignment explanation
Indices: 1208597--1208667 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
1208587 CCATCTCCTT
1208597 TTTTTTTGCTTTTGCTTTTGC
1 TTTTTTTGC-TTTGCTTTTGC
* *
1208618 TTTTTTTTCTTTGCTTCTGC
1 TTTTTTTGCTTTGCTTTTGC
1208638 TATGTTTCTT-CTTTG-TTTTGC
1 T-T-TTT-TTGCTTTGCTTTTGC
1208659 TTTGTTTTG
1 TTT-TTTTG
1208668 GTTGTGTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 15 0.36
22 8 0.19
23 2 0.05
ACGTcount: A:0.01, C:0.14, G:0.14, T:0.70
Consensus pattern (20 bp):
TTTTTTTGCTTTGCTTTTGC
Found at i:1208748 original size:27 final size:26
Alignment explanation
Indices: 1208696--1208756 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
1208686 TCTACTTCTA
* *
1208696 TTTTTGCTATTCTTTTCTTTTGTTGT
1 TTTTTTCTATTCTTTTCTTCTGTTGT
*
1208722 GTTTTTTCTCTTCTTTATCTTCT-TTGT
1 -TTTTTTCTATTCTTT-TCTTCTGTTGT
1208749 TTCTTTTC
1 TT-TTTTC
1208757 CACTTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 22 0.76
28 5 0.17
ACGTcount: A:0.03, C:0.16, G:0.08, T:0.72
Consensus pattern (26 bp):
TTTTTTCTATTCTTTTCTTCTGTTGT
Found at i:1213037 original size:14 final size:14
Alignment explanation
Indices: 1213018--1213046 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1213008 GAAATGTGTG
1213018 ACCACGTTTATGGC
1 ACCACGTTTATGGC
1213032 ACCACGTTTATGGC
1 ACCACGTTTATGGC
1213046 A
1 A
1213047 TAATGAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (14 bp):
ACCACGTTTATGGC
Found at i:1215414 original size:13 final size:13
Alignment explanation
Indices: 1215396--1215420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1215386 TTAGAAGCAA
1215396 TGTATCGATACAT
1 TGTATCGATACAT
1215409 TGTATCGATACA
1 TGTATCGATACA
1215421 ATGTGCCATG
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:1215495 original size:20 final size:20
Alignment explanation
Indices: 1215470--1215521 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1215460 CTACCAATTT
* **
1215470 CATGTATCGATACCATTGTG
1 CATGTATCGATACCAGTGAA
*
1215490 CATGTATTGATA-CAGTGAA
1 CATGTATCGATACCAGTGAA
1215509 CATGTATCGATAC
1 CATGTATCGATAC
1215522 AATGTATCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACCAGTGAA
Found at i:1216713 original size:33 final size:32
Alignment explanation
Indices: 1216671--1216737 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
1216661 GTTACAAGCT
* *
1216671 AATGTATCGATACATTTTAGGATGTATTGATAC
1 AATGTATCGATACATATT-GGATGTATCGATAC
*
1216704 AATGTATCGATACATATTGGGTGTATCGATAC
1 AATGTATCGATACATATTGGATGTATCGATAC
1216736 AA
1 AA
1216738 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATATTGGATGTATCGATAC
Found at i:1218844 original size:20 final size:21
Alignment explanation
Indices: 1218821--1218860 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1218811 GTGGGCTGCC
* *
1218821 CGGTTGCGACTTGG-GGGTGT
1 CGGTCGCGACCTGGTGGGTGT
1218841 CGGTCGCGACCTGGTGGGTG
1 CGGTCGCGACCTGGTGGGTG
1218861 CTGCTTAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.20, G:0.50, T:0.25
Consensus pattern (21 bp):
CGGTCGCGACCTGGTGGGTGT
Found at i:1225500 original size:13 final size:13
Alignment explanation
Indices: 1225482--1225507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1225472 ACATTTTGGG
1225482 ATGTATCGATACA
1 ATGTATCGATACA
1225495 ATGTATCGATACA
1 ATGTATCGATACA
1225508 TATTGGGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1225524 original size:32 final size:33
Alignment explanation
Indices: 1225460--1225527 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1225450 CGTTACAAGC
*
1225460 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
1225493 CAATGTATCGATACATATTGGG-TGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCGATA
1225525 CAA
1 CAA
1225528 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATATTGGGATGTATCGATA
Found at i:1227262 original size:17 final size:17
Alignment explanation
Indices: 1227240--1227298 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
1227230 ACCTTCACTT
1227240 TTTCTTTTATTTTCCCC
1 TTTCTTTTATTTTCCCC
*
1227257 TTTCTTTTTTACCATTTT-CTC
1 TTTC--TTTT---ATTTTCCCC
1227278 TTTCTTTTATTTTCCCC
1 TTTCTTTTATTTTCCCC
1227295 TTTC
1 TTTC
1227299 ACCTAATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 5 0.15
17 10 0.29
19 8 0.24
21 6 0.18
22 5 0.15
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCTTTTATTTTCCCC
Found at i:1231865 original size:20 final size:20
Alignment explanation
Indices: 1231837--1231890 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1231827 TTTTAACTAG
* *
1231837 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCAAAA
* *
1231857 ATTTATCGATACATTGAAAA
1 ATGTATCGATACATTCAAAA
1231877 ATGTATCGATACAT
1 ATGTATCGATACAT
1231891 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTCAAAA
Found at i:1232609 original size:9 final size:9
Alignment explanation
Indices: 1232595--1232625 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
1232585 GTGAATGAAA
1232595 ATGCTAAAG
1 ATGCTAAAG
1232604 ATGCTAAAG
1 ATGCTAAAG
1232613 ATGCTAAAG
1 ATGCTAAAG
1232622 ATGC
1 ATGC
1232626 AAAAATGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (9 bp):
ATGCTAAAG
Found at i:1235104 original size:63 final size:63
Alignment explanation
Indices: 1235005--1235132 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
1234995 GATACATGTA
1235005 GGCAAAAATATGATTTTTTTATACTTTTTGCCTCCCGAATAGGTCACCTTAGTTAGGAATAGT
1 GGCAAAAATATGATTTTTTTATACTTTTTGCCTCCCGAATAGGTCACCTTAGTTAGGAATAGT
* *
1235068 GGCAAAAATGTGATTTTTTTATACTTTTTGCCTCCCGGATAGGTCACCTTAGTTAGGAATAGT
1 GGCAAAAATATGATTTTTTTATACTTTTTGCCTCCCGAATAGGTCACCTTAGTTAGGAATAGT
1235131 GG
1 GG
1235133 GAAATGGGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (63 bp):
GGCAAAAATATGATTTTTTTATACTTTTTGCCTCCCGAATAGGTCACCTTAGTTAGGAATAGT
Found at i:1236225 original size:41 final size:40
Alignment explanation
Indices: 1236171--1236409 Score: 212
Period size: 41 Copynumber: 5.9 Consensus size: 40
1236161 AAGTTTTCCT
* *
1236171 ATTAGCAACGTTTATATTAAAAACAACACTAAATATTTTCA
1 ATTAGCGACGTTTATATTAAAAACGACACTAAAT-TTTTCA
* ** * * *
1236212 ATTAACGGTGTTTAGT-GTAAAAACGTCGCTAAATTTTTCA
1 ATTAGCGACGTTTA-TATTAAAAACGACACTAAATTTTTCA
* * * * * *
1236252 TATTGGCGGCGTTTATATTAAAAATGACATTAAATTTTCCT
1 -ATTAGCGACGTTTATATTAAAAACGACACTAAATTTTTCA
* * *
1236293 ATTAGCGACGTTTATGTTAAAAACGCCACTAAATTTTTCCT
1 ATTAGCGACGTTTATATTAAAAACGACACTAAATTTTT-CA
* * *
1236334 ATTAGCGACATTTATATTAAAAATGCCACTAAATTTTTTCA
1 ATTAGCGACGTTTATATTAAAAACGACACTAAA-TTTTTCA
* *
1236375 ATTGGCAACGTTTATATTAAAAAC-ATCACTAAATT
1 ATTAGCGACGTTTATATTAAAAACGA-CACTAAATT
1236410 ATTTATATTT
Statistics
Matches: 158, Mismatches: 34, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
40 40 0.25
41 112 0.71
42 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (40 bp):
ATTAGCGACGTTTATATTAAAAACGACACTAAATTTTTCA
Found at i:1236387 original size:122 final size:123
Alignment explanation
Indices: 1236159--1236397 Score: 288
Period size: 122 Copynumber: 2.0 Consensus size: 123
1236149 TAAACGTCGC
***
1236159 TAAAGTTTTCCTATTAGCAACGTTTATATTAAAAACAACACTAAATATTTTCAATTAACGGTGTT
1 TAAAGTTTTCCTATTAGCAACGTTTATATTAAAAACAACACTAAATATTTTCAATTAACGACATT
* * **
1236224 TAGTGTAAAAACGTCGCTAAATTTTTCATATTGGCGGCGTTTATATTAAAAATGACAT
66 TAGTGTAAAAACGCCACTAAATTTTTCATATTGGCAACGTTTATATTAAAAATGACAT
* * ** * *
1236282 TAAA-TTTTCCTATTAGCGACGTTTATGTTAAAAACGCCACTAAAT-TTTTCCTATTAGCGACAT
1 TAAAGTTTTCCTATTAGCAACGTTTATATTAAAAACAACACTAAATATTTT-CAATTAACGACAT
* *
1236345 TTA-TATTAAAAATGCCACTAAATTTTTTCA-ATTGGCAACGTTTATATTAAAAA
65 TTAGT-GTAAAAACGCCACTAAA-TTTTTCATATTGGCAACGTTTATATTAAAAA
1236398 CATCACTAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
121 5 0.05
122 82 0.84
123 11 0.11
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (123 bp):
TAAAGTTTTCCTATTAGCAACGTTTATATTAAAAACAACACTAAATATTTTCAATTAACGACATT
TAGTGTAAAAACGCCACTAAATTTTTCATATTGGCAACGTTTATATTAAAAATGACAT
Found at i:1237759 original size:58 final size:57
Alignment explanation
Indices: 1237669--1237784 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 57
1237659 AGGATTAATT
* * * * *
1237669 AAATGATAACGATCGTGTTATGGAGAACAATTTTCTAGCGACTCTACTTCAGCTTTGC
1 AAATGATAACGATCATATTATAGAGAACAATTTTC-AACGACTCTACTTCAGCATTGC
* *
1237727 AAATGATAATGATCATATTATAGAGAACAATTTTCAACGACTTTACTTCAGCATTGC
1 AAATGATAACGATCATATTATAGAGAACAATTTTCAACGACTCTACTTCAGCATTGC
1237784 A
1 A
1237785 GTAGTAGCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 20 0.39
58 31 0.61
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (57 bp):
AAATGATAACGATCATATTATAGAGAACAATTTTCAACGACTCTACTTCAGCATTGC
Found at i:1242573 original size:20 final size:19
Alignment explanation
Indices: 1242531--1242584 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1242521 GTTTGGGACA
1242531 ATGTATCAATACAATTCTTC
1 ATGTATCAATACAATTC-TC
1242551 ATGTATCAATACAATGTGC-C
1 ATGTATCAATACAAT-T-CTC
*
1242571 ATGTATCGATACAA
1 ATGTATCAATACAA
1242585 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
ATGTATCAATACAATTCTC
Found at i:1242638 original size:20 final size:20
Alignment explanation
Indices: 1242613--1242717 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
1242603 CTACTAGTTT
**
1242613 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
1242633 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
1242652 CATGTATTGATAC------A
1 CATGTATCGATACAATTGAA
1242666 -ATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
* *
1242684 CATGTATCGATACATTTGGA
1 CATGTATCGATACAATTGAA
* *
1242704 TATGCATCGATACA
1 CATGTATCGATACA
1242718 TACAAGGGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
13 11 0.16
14 1 0.01
18 1 0.01
19 27 0.39
20 30 0.43
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1242657 original size:19 final size:19
Alignment explanation
Indices: 1242613--1242697 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
1242603 CTACTAGTTT
**
1242613 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1242633 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1242652 CATGTATTGATAC-----A
1 CATGTATCGATACAATGAA
1242666 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1242684 CATGTATCGATACA
1 CATGTATCGATACA
1242698 TTTGGATATG
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
18 1 0.02
19 27 0.49
20 15 0.27
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1242675 original size:32 final size:32
Alignment explanation
Indices: 1242634--1242697 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1242624 ACAATTGTGC
*
1242634 ATGTATCGATACAATGAACATGTATTGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
1242666 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
1242698 TTTGGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:1245656 original size:91 final size:90
Alignment explanation
Indices: 1245541--1245753 Score: 356
Period size: 91 Copynumber: 2.3 Consensus size: 90
1245531 ATACTTTAAA
1245541 GTATCGATACATAAGTA-TTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACC
1 GTATCGATACAT-A-TACTTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACC
1245605 CTTGTATATATCAATACACTTTCAGAT
64 CTTGTATATATCAATACACTTTCAGAT
*
1245632 GTATCGATACACTATACTTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCT
1 GTATCGATACA-TATACTTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCC
*
1245697 TTGTATATATCGATACACTTTCAGAT
65 TTGTATATATCAATACACTTTCAGAT
*
1245723 GTATCGATACATTATGCTTTGTATCGATACA
1 GTATCGATACA-TATACTTTGTATCGATACA
1245754 ATGTATCAAT
Statistics
Matches: 116, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
90 2 0.02
91 113 0.97
92 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (90 bp):
GTATCGATACATATACTTTGTATCGATACATTATGGTTGACTTAAGCTACAAAGGTCAAAACCCT
TGTATATATCAATACACTTTCAGAT
Found at i:1254561 original size:19 final size:20
Alignment explanation
Indices: 1254535--1254589 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1254525 GTATCGATAT
*
1254535 AATGTATCGATACATGTTC-
1 AATGTATCGATACATGTACA
*
1254554 ATTGTATCGATACATGTACA
1 AATGTATCGATACATGTACA
1254574 AATGTATCGATACATG
1 AATGTATCGATACATG
1254590 AAACTAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATGTACA
Found at i:1256726 original size:16 final size:16
Alignment explanation
Indices: 1256705--1256735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1256695 CAACATTTCC
*
1256705 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
1256721 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
1256736 GAAAGTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:1260931 original size:13 final size:13
Alignment explanation
Indices: 1260913--1260937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1260903 TATTGCAGCA
1260913 GTATCGATACATT
1 GTATCGATACATT
1260926 GTATCGATACAT
1 GTATCGATACAT
1260938 GACCAAATGT
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):
GTATCGATACATT
Found at i:1261056 original size:13 final size:13
Alignment explanation
Indices: 1261038--1261063 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1261028 ACACACAAGA
1261038 TGTATCGATACAT
1 TGTATCGATACAT
1261051 TGTATCGATACAT
1 TGTATCGATACAT
1261064 CCCAAAATGT
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:1261079 original size:33 final size:32
Alignment explanation
Indices: 1261018--1261085 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1261008 CCTTAACTGT
*
1261018 TTGTATCGATACACACAAGATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1261050 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1261083 TTG
1 TTG
1261086 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1262774 original size:19 final size:19
Alignment explanation
Indices: 1262730--1262785 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1262720 CTGTCAGTTT
**
1262730 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1262750 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1262769 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1262786 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1262788 original size:13 final size:13
Alignment explanation
Indices: 1262770--1262801 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1262760 TACAATGAAC
1262770 ATGTATCGATACA
1 ATGTATCGATACA
1262783 ATGTATCGATACA
1 ATGTATCGATACA
*
1262796 AAGTAT
1 ATGTAT
1262802 AATGTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1263409 original size:2 final size:2
Alignment explanation
Indices: 1263397--1263427 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1263387 TTGAGCTCTT
*
1263397 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1263428 GAAGAGGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1268185 original size:3 final size:3
Alignment explanation
Indices: 1268171--1268207 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1268161 TTAAGTATTG
* *
1268171 TAT TAT TCT TAT TAT TAT TTT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1268208 TTGCAATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:1268790 original size:19 final size:20
Alignment explanation
Indices: 1268766--1268805 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
1268756 TGGATAAAAG
1268766 GAAATGAGTA-GAAGTAGTA
1 GAAATGAGTAGGAAGTAGTA
1268785 GAAATGAGTAGGAAGTAGTA
1 GAAATGAGTAGGAAGTAGTA
1268805 G
1 G
1268806 TTGAAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (20 bp):
GAAATGAGTAGGAAGTAGTA
Found at i:1270576 original size:6 final size:6
Alignment explanation
Indices: 1270565--1270598 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1270555 CACTTTCTTC
* *
1270565 TCCTCT TCCTCT TCCTCT TCCTCC TCCTCC TCCT
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCT
1270599 TCGCTTCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (6 bp):
TCCTCT
Found at i:1271621 original size:2 final size:2
Alignment explanation
Indices: 1271614--1271638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1271604 GAAACAAGAA
1271614 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1271639 ACAGTGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1275414 original size:32 final size:31
Alignment explanation
Indices: 1275374--1275434 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
1275364 ATAGAGACTA
** *
1275374 TTTTAAATATGAGATGTTTTGAATAAAAGTT
1 TTTTAAATAAAAGATGTTCTGAATAAAAGTT
*
1275405 TTTTCAAATAAAAGTTGTTCTGAATAAAAG
1 TTTT-AAATAAAAGATGTTCTGAATAAAAG
1275435 CAGTTCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (31 bp):
TTTTAAATAAAAGATGTTCTGAATAAAAGTT
Found at i:1275430 original size:16 final size:16
Alignment explanation
Indices: 1275388--1275434 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
1275378 AAATATGAGA
1275388 TGTTTTGAATAAAAGT
1 TGTTTTGAATAAAAGT
*
1275404 T-TTTTCAAATAAAAGT
1 TGTTTT-GAATAAAAGT
*
1275420 TGTTCTGAATAAAAG
1 TGTTTTGAATAAAAG
1275435 CAGTTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (16 bp):
TGTTTTGAATAAAAGT
Found at i:1276560 original size:13 final size:13
Alignment explanation
Indices: 1276542--1276579 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1276532 TACTATGAAC
1276542 ATGTATCGATACA
1 ATGTATCGATACA
1276555 ATGTATCGATACA
1 ATGTATCGATACA
1276568 ATGTATCGATAC
1 ATGTATCGATAC
1276580 TAAGCAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1276612 original size:20 final size:21
Alignment explanation
Indices: 1276589--1276627 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1276579 CTAAGCAATA
1276589 TGTATCGATACA-TCTAGGTG
1 TGTATCGATACATTCTAGGTG
1276609 TGTATCGATACATTCTAGG
1 TGTATCGATACATTCTAGG
1276628 GTTTTGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGGTG
Found at i:1280324 original size:28 final size:27
Alignment explanation
Indices: 1280264--1280337 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
1280254 TTTTGGAGAT
*
1280264 AATAACGGGGTTGGAGTATCCCTCCAAA
1 AATAACGGGGTTGGAGTAGCCCT-CAAA
*
1280292 GATAACGGGGTTGGAGTAGCCCT-AATGA
1 AATAACGGGGTTGGAGTAGCCCTCAA--A
* *
1280320 AATAATGAGGTTGGAGTA
1 AATAACGGGGTTGGAGTA
1280338 TCCTCGATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 37 0.95
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (27 bp):
AATAACGGGGTTGGAGTAGCCCTCAAA
Found at i:1280474 original size:79 final size:79
Alignment explanation
Indices: 1280381--1280555 Score: 253
Period size: 79 Copynumber: 2.2 Consensus size: 79
1280371 TAAAATCGGA
* *
1280381 GTTGGAGTATCCCCGATTATGAGAAATCAACATTTT-GGAAATAAAGCCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAGAAATCAACATTTTAAG-AATAAAACCGGGGTTGGAGTATCCC
* *
1280445 TTCGGAAATAACGGG
65 CTCAGAAATAACGGG
* * *
1280460 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAACTGGGGTTTGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAGAAATCAACATTTTAAGAATAAAACCGGGGTTGGAGTATCCCC
*
1280525 TCAGAAATACCGGG
66 TCAGAAATAACGGG
*
1280539 GTTGAAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
1280556 GATTAACGGG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 85 0.99
80 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAGAAATCAACATTTTAAGAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGG
Found at i:1280634 original size:49 final size:50
Alignment explanation
Indices: 1280564--1280741 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 50
1280554 ATGATTAACG
* * * * *
1280564 GGGTTGGAGTATCTCTGATTGTG-AAATTAATATTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTAGAAATAAAATCA
* * *
1280613 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCA
1 GGGTTGGAGTATCCCCGATTGTG-AAAATTAGTGTTTTAGAAATAAAATCA
* *
1280664 GAGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCA
1 GGGTTGGAGTATCCCCGATTGT-GAAAATTAGTGTTTTAGAAATAAAATCA
* *
1280715 GGGTTGGAGTACCCCCGATTATGAAAA
1 GGGTTGGAGTATCCCCGATTGTGAAAA
1280742 ATTGAGAAAC
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 21 0.19
50 5 0.05
51 83 0.75
52 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTAGAAATAAAATCA
Found at i:1283508 original size:42 final size:42
Alignment explanation
Indices: 1283462--1283551 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
1283452 CCCATTTTTC
* **
1283462 GAGGAC-AAAGGAAAAAGGGAAATGAA-GTACGTCCTGCTCTTT
1 GAGGACGAAA-GAAAAAGGAAAAT-AAGGTACACCCTGCTCTTT
* *
1283504 GAGGACGAAAGAAAGAGGAAAATAAGGTGCACCCTGCTCTTT
1 GAGGACGAAAGAAAAAGGAAAATAAGGTACACCCTGCTCTTT
1283546 GAGGAC
1 GAGGAC
1283552 TAAAAAGTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 36 0.88
43 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.17
Consensus pattern (42 bp):
GAGGACGAAAGAAAAAGGAAAATAAGGTACACCCTGCTCTTT
Found at i:1283643 original size:61 final size:60
Alignment explanation
Indices: 1283536--1284208 Score: 773
Period size: 61 Copynumber: 11.3 Consensus size: 60
1283526 TAAGGTGCAC
** * ** *
1283536 CCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAACGGAAAGGCGT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAAGGCAT
* * * * * *
1283597 CCTTCTTTTTGGGGACTGGAAGGTGCCACCAACTTGTGCGGGCTTTGCAAAGGCAAGGCGT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCAT
* *
1283658 CCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAGAAA-GCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCAT
* ** * *
1283719 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAGGCGT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCAT
*
1283779 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAGAAA-GCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCAT
* ** * *
1283840 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAGGCGT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCAT
*
1283900 CCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCAT
* **
1283961 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCAT
* * * *
1284016 CCTACTCTTTGAGGATTGAGAA-GTGCCACCAACTTATGTGGGCTTT---A--AAAGGCGT
1 CCTGCTCTTTGAGGACTG-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCAT
* * * ** *
1284071 CCTGCTATTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAATAAAAAGCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCAT
*
1284132 CCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGGCAT
*
1284192 CCTGCTCTTTAAGGACT
1 CCTGCTCTTTGAGGACT
1284209 AAAAAGTGGA
Statistics
Matches: 524, Mismatches: 69, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
54 6 0.01
55 86 0.16
56 2 0.00
59 10 0.02
60 148 0.28
61 260 0.50
62 12 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCAT
Found at i:1283813 original size:121 final size:120
Alignment explanation
Indices: 1283536--1284213 Score: 850
Period size: 121 Copynumber: 5.7 Consensus size: 120
1283526 TAAGGTGCAC
** * ** *
1283536 CCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTG-AAACG-GAAAGGCGTCC
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAA-GCATCC
* * * * ** *
1283599 TTCTTTTTGGGGACTGGAAGGTGCCACCAACTTGTGCGGGCTTTGCAAAGGCAAGGCGT
64 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGG-AAGGCGT
* *
1283658 CCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAGAAAGCATCCTG
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
1283723 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAGGCGT
66 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AGGCGT
*
1283779 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAGAAAGCATCCTG
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
1283844 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAGGCGT
66 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AGGCGT
*
1283900 CCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
*
1283965 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG--A--AAGGCAT
66 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGCGT
* * * *
1284016 CCTACTCTTTGAGGATTGAGAA-GTGCCACCAACTTATGTGGGCTTT--AAA-AG---GCGTCCT
1 CCTGCTCTTTGAGGACTG-GAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCT
* ** * ** * *
1284074 GCTATTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAATAAAAAGCAT
65 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-GGAAGGCGT
*
1284132 CCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCATCC
1 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG-AAA-GCATCC
*
1284194 TGCTCTTTAAGGACT-AAAAA
64 TGCTCTTTGAGGACTGAAAAA
1284214 GTGGAAGGAA
Statistics
Matches: 501, Mismatches: 37, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
110 46 0.09
113 3 0.01
114 6 0.01
115 23 0.05
116 68 0.14
117 4 0.01
119 1 0.00
120 4 0.01
121 255 0.51
122 85 0.17
123 6 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGCGT
Found at i:1283845 original size:182 final size:180
Alignment explanation
Indices: 1283536--1284208 Score: 768
Period size: 182 Copynumber: 3.8 Consensus size: 180
1283526 TAAGGTGCAC
** * * *
1283536 CCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAACGGAAAGGCGTCCT
1 CCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCATCCT
* * * * * * *
1283600 TCTTTTTGGGGACTGGAAGGTGCCACCAACTTGTGCGGGCTTTGCAAAGGCAAGGCGTCCTGCTC
65 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAAGCATCCTGCTC
* *
1283665 TTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAGAAAGCAT
130 TTTAAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTG-A-AGAGAAGGCGT
* * *
1283719 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAGAGGCGTCCTG
1 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCATCCTG
*
1283783 CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGA-GAGAAAGCATCCTGCTC
66 CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGA-AAAGCATCCTGCTC
* * *
1283847 TTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGAGAGGCGT
130 TTTAAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTGAAGA-GA-AGGCGT
* * ** *
1283900 CCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAAGCATCCT
1 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGA-AAAGCATCCT
* ** *
1283964 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-G----GCATCCTACTC
65 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAAGCATCCTGCTC
* * *
1284023 TTTGAGGATTGAGAAGTGCCACCAACTTATGTGGGCTTT--A-A-AAGGCGT
130 TTTAAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTGAAGAGAAGGCGT
* ** * **
1284071 CCTGCTATTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTG
1 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCATCCTG
*
1284136 CTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTC
66 CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAA-GCATCCTGCTC
1284199 TTTAAGGACT
130 TTTAAGGACT
1284209 AAAAAGTGGA
Statistics
Matches: 431, Mismatches: 44, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
170 28 0.06
171 78 0.18
172 2 0.00
174 2 0.00
176 63 0.15
179 1 0.00
180 3 0.01
181 54 0.13
182 154 0.36
183 41 0.10
184 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (180 bp):
CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCATCCTG
CTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAAGCATCCTGCTCT
TTAAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTGAAGAGAAGGCGT
Found at i:1284043 original size:55 final size:54
Alignment explanation
Indices: 1283953--1284182 Score: 273
Period size: 55 Copynumber: 4.1 Consensus size: 54
1283943 TTTGCAAAGA
*
1283953 GAAA-GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1284007 GAAAGGCATCCTACTCTTTGAGGATTGAGAAGTGCCACCAACTTATGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGA-AAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1284062 AAAAGGCGTCCTGCTATTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT
* *
1284117 GAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
1 G------AAAGGCATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT
*
1284177 AAAAGG
1 GAAAGG
1284183 AAAAGGCATC
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
54 11 0.07
55 89 0.60
60 23 0.16
61 25 0.17
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (54 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1285215 original size:17 final size:16
Alignment explanation
Indices: 1285195--1285247 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
1285185 TTTTTCTTTG
1285195 TTTTTTTTGTTTGTTTT
1 TTTTTTTTGTTT-TTTT
*
1285212 TTTTTGTTGTTTTTTT
1 TTTTTTTTGTTTTTTT
* *
1285228 TTGCTTTTGGTTTTTTT
1 TT-TTTTTTGTTTTTTT
1285245 TTT
1 TTT
1285248 AGAAAAGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 6 0.20
17 24 0.80
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTT
Found at i:1285217 original size:23 final size:23
Alignment explanation
Indices: 1285185--1285235 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1285175 TCTTTTTTCC
1285185 TTTTTCTTTGTT-TTTTTTGTTTG
1 TTTTTCTTTGTTGTTTTTT-TTTG
*
1285208 TTTTTTTTTGTTGTTTTTTTTTG
1 TTTTTCTTTGTTGTTTTTTTTTG
*
1285231 CTTTT
1 TTTTT
1285236 GGTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTGTTGTTTTTTTTTG
Found at i:1285230 original size:13 final size:14
Alignment explanation
Indices: 1285185--1285246 Score: 74
Period size: 13 Copynumber: 4.4 Consensus size: 14
1285175 TCTTTTTTCC
*
1285185 TTTTTCTTTG-TTT
1 TTTTTGTTTGTTTT
1285198 TTTTTGTTTGTTTT
1 TTTTTGTTTGTTTT
1285212 TTTTTG-TTGTTTT
1 TTTTTGTTTGTTTT
1285225 TTTTTGCTTTTGGTTTT
1 TTTTTG--TTT-GTTTT
1285242 TTTTT
1 TTTTT
1285247 TAGAAAAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
13 22 0.51
14 9 0.21
16 2 0.05
17 10 0.23
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (14 bp):
TTTTTGTTTGTTTT
Found at i:1297161 original size:28 final size:27
Alignment explanation
Indices: 1297081--1297161 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
1297071 TTTTAGAGAT
*
1297081 AATAATGGGGTTGGAGTATCCCTCGA-A
1 AATAATGAGGTTGGAGTAT-CCTCGATA
* * * * *
1297108 GACAACGAGATTGGAGTATCCCCGATGA
1 AATAATGAGGTTGGAGTATCCTCGAT-A
1297136 AATAATGAGGTTGGAGTATCCTCGAT
1 AATAATGAGGTTGGAGTATCCTCGAT
1297162 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
26 5 0.12
27 14 0.34
28 22 0.54
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (27 bp):
AATAATGAGGTTGGAGTATCCTCGATA
Found at i:1297240 original size:52 final size:52
Alignment explanation
Indices: 1297144--1297318 Score: 203
Period size: 52 Copynumber: 3.4 Consensus size: 52
1297134 GAAATAATGA
* ** * *
1297144 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTAGAAATAAAACCGG
* *
1297196 AGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAG-AAATAAAACCGG
** **
1297248 GGTTGGAGTATCCCCGATT-GTGGAAAATTAATGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAGAAATAAAACCGG
*
1297299 GGTTAGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
1297319 TGAGAAATCA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
51 45 0.43
52 49 0.47
53 11 0.10
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:1297293 original size:51 final size:51
Alignment explanation
Indices: 1297144--1297363 Score: 219
Period size: 51 Copynumber: 4.3 Consensus size: 51
1297134 GAAATAATGA
* * * ** * *
1297144 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTGA-AAATAAAACCGG
* * * **
1297196 AGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAATGTTTTGAAAATAAAACCGG
*
1297248 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTGA-AAATAAAACCGG
* * ** * *
1297299 GGTTAGAGTATCCCCGATTAT-GAGAAATCAACATTTTGAAAATAAAGCCAG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAATGTTTTGAAAATAAAACCGG
1297350 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
1297364 TTCGAAAATA
Statistics
Matches: 142, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
50 3 0.02
51 78 0.55
52 45 0.32
53 16 0.11
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTGAAAATAAAACCGG
Done.