Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 199 of 318
Found at i:62352410 original size:12 final size:12
Alignment explanation
Indices: 62352390--62352425 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
62352380 TGGGATATGC
*
62352390 AATGTATGAATG
1 AATGCATGAATG
62352402 AATGCATGAATG
1 AATGCATGAATG
62352414 AATGCATGAATG
1 AATGCATGAATG
62352426 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:62354487 original size:39 final size:37
Alignment explanation
Indices: 62354390--62354487 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
62354380 TATGGTATTT
* * * *
62354390 AAAATATATATAT-ATATATGTATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
62354426 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
62354465 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
62354488 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:62354997 original size:28 final size:30
Alignment explanation
Indices: 62354955--62355033 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 30
62354945 GTGGCTAGGT
* *
62354955 TTTTTTATT-TTTTTTTGGTTAGGTTTTTC
1 TTTTTTCTTCTTTTTTAGGTTAGGTTTTTC
62354984 TTTTTTCTTCTTTTTTTTTAGGGTTAGGTTTTTC
1 TTTTTTCTTC---TTTTTTA-GGTTAGGTTTTTC
*
62355018 TTTTTTCTTTTTTTTT
1 TTTTTTCTTCTTTTTT
62355034 TTTTAGGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 8 0.19
31 6 0.14
33 6 0.14
34 22 0.52
ACGTcount: A:0.05, C:0.06, G:0.11, T:0.77
Consensus pattern (30 bp):
TTTTTTCTTCTTTTTTAGGTTAGGTTTTTC
Found at i:62355023 original size:35 final size:35
Alignment explanation
Indices: 62354954--62355051 Score: 150
Period size: 35 Copynumber: 2.9 Consensus size: 35
62354944 GGTGGCTAGG
*
62354954 TTTT-TTTATTTTTTTTT--GGTTAGGTTTTTCTT
1 TTTTCTTTCTTTTTTTTTAGGGTTAGGTTTTTCTT
62354986 TTTTC-TTCTTTTTTTTTAGGGTTAGGTTTTTCTT
1 TTTTCTTTCTTTTTTTTTAGGGTTAGGTTTTTCTT
*
62355020 TTTTCTTTTTTTTTTTTTAGGGTTAGGTTTTT
1 TTTTCTTTCTTTTTTTTTAGGGTTAGGTTTTT
62355052 TTGGGGGGGC
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
32 15 0.25
34 20 0.33
35 25 0.42
ACGTcount: A:0.06, C:0.05, G:0.14, T:0.74
Consensus pattern (35 bp):
TTTTCTTTCTTTTTTTTTAGGGTTAGGTTTTTCTT
Found at i:62359569 original size:2 final size:2
Alignment explanation
Indices: 62359562--62359603 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
62359552 AGTATTTCCA
62359562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62359604 CCTTTAATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62362344 original size:21 final size:22
Alignment explanation
Indices: 62362320--62362364 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
62362310 GTATCATCGT
62362320 AATAG-TTCAGATA-AGATGCAA
1 AATAGATT-AGATATAGATGCAA
*
62362341 AATAGATTAGATATAGATGTAA
1 AATAGATTAGATATAGATGCAA
62362363 AA
1 AA
62362365 CTGATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (22 bp):
AATAGATTAGATATAGATGCAA
Found at i:62365272 original size:26 final size:26
Alignment explanation
Indices: 62365241--62365296 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
62365231 TGAAATGCCC
62365241 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
62365267 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
62365293 ATCA
1 ATCA
62365297 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:62366197 original size:63 final size:63
Alignment explanation
Indices: 62366083--62366203 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
62366073 TCACACAACT
** * * * * *
62366083 TGGACACATGCATTTGTCCTTGGTCCGTGTGACACTAATTCATAAACAGTGAGTTACATGGCC
1 TGGACACATGCACGTGTCCTTGGCCCGTGTGACACTAAATAAAAAACAGTGAATTACATGGCC
* * *
62366146 TGGACACATGCCCGTGTCCTTGGCCCGTGTGACCCTAAATAAAAAATAGTGAATTACA
1 TGGACACATGCACGTGTCCTTGGCCCGTGTGACACTAAATAAAAAACAGTGAATTACA
62366204 CGACCTGACA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (63 bp):
TGGACACATGCACGTGTCCTTGGCCCGTGTGACACTAAATAAAAAACAGTGAATTACATGGCC
Found at i:62368078 original size:72 final size:72
Alignment explanation
Indices: 62367988--62368127 Score: 280
Period size: 72 Copynumber: 1.9 Consensus size: 72
62367978 ATCCACAGCC
62367988 TACCAGTTTCTCAATTATCTACTCACAGACTCCAATTCTCACGACTTTTGCTTCATGTAGAGCTC
1 TACCAGTTTCTCAATTATCTACTCACAGACTCCAATTCTCACGACTTTTGCTTCATGTAGAGCTC
62368053 CCAAGCT
66 CCAAGCT
62368060 TACCAGTTTCTCAATTATCTACTCACAGACTCCAATTCTCACGACTTTTGCTTCATGTAGAGCTC
1 TACCAGTTTCTCAATTATCTACTCACAGACTCCAATTCTCACGACTTTTGCTTCATGTAGAGCTC
62368125 CCA
66 CCA
62368128 TGGATTCTCC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.34
Consensus pattern (72 bp):
TACCAGTTTCTCAATTATCTACTCACAGACTCCAATTCTCACGACTTTTGCTTCATGTAGAGCTC
CCAAGCT
Found at i:62372259 original size:46 final size:46
Alignment explanation
Indices: 62372178--62372296 Score: 116
Period size: 46 Copynumber: 2.5 Consensus size: 46
62372168 CGTAGCTGAT
* * * *
62372178 GCATGTCCCAGATATGTCTTACACTGGCTTACGTCTCGAGGCCGAA
1 GCATGTCCCAGAAATGTCTTACACTAGCCTACGTCTCAAGGCCGAA
* * * *
62372224 GCATGTCCTAGAAATGTCTTACATTAGCACT-CGTCTCAATGCCGAT
1 GCATGTCCCAGAAATGTCTTACACTAGC-CTACGTCTCAAGGCCGAA
62372270 GCCATGTCCCA-AACATGGTCTTACACT
1 G-CATGTCCCAGAA-AT-GTCTTACACT
62372297 GGCTCTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
46 39 0.66
47 11 0.19
48 9 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCATGTCCCAGAAATGTCTTACACTAGCCTACGTCTCAAGGCCGAA
Found at i:62376319 original size:46 final size:44
Alignment explanation
Indices: 62376215--62376322 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
62376205 TGTCTTTGAC
** * * *
62376215 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
62376259 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
62376305 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
62376323 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:62382272 original size:46 final size:44
Alignment explanation
Indices: 62382168--62382275 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
62382158 TGTCTTTGAC
** * * *
62382168 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
62382212 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
62382258 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
62382276 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:62387957 original size:16 final size:17
Alignment explanation
Indices: 62387936--62387968 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62387926 ATAATTATAG
62387936 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
62387952 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
62387969 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:62388275 original size:16 final size:16
Alignment explanation
Indices: 62388256--62388288 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62388246 AGCTTTCTCG
62388256 AGCTTAGA-TTTTGTCA
1 AGCTTAGACTTTT-TCA
62388272 AGCTTAGACTTTTTCA
1 AGCTTAGACTTTTTCA
62388288 A
1 A
62388289 ATTTGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (16 bp):
AGCTTAGACTTTTTCA
Found at i:62393212 original size:26 final size:26
Alignment explanation
Indices: 62393162--62393217 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
62393152 TTTAAATTCT
**
62393162 TAAATATATATTAAAAATATCT-AAA
1 TAAATATATATTAAAAATAGATAAAA
62393187 TAAAT-TATATATAAAAATAAGATAAAA
1 TAAATATATAT-TAAAAAT-AGATAAAA
62393214 TAAA
1 TAAA
62393218 ATAACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 12 0.46
26 2 0.08
27 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAATATATATTAAAAATAGATAAAA
Found at i:62398070 original size:24 final size:25
Alignment explanation
Indices: 62398042--62398090 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
62398032 TCACGGATAA
*
62398042 CTCCGAAGAGCTAT-TATCAGGAAG
1 CTCCGAAGAACTATATATCAGGAAG
* *
62398066 CTCCGGATAACTATATATCAGGAAG
1 CTCCGAAGAACTATATATCAGGAAG
62398091 TTCAAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
CTCCGAAGAACTATATATCAGGAAG
Found at i:62398130 original size:24 final size:25
Alignment explanation
Indices: 62398098--62398151 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
62398088 AAGTTCAAGC
*
62398098 GAGCC-ATATCGGGAAGCTCATGAA
1 GAGCCAATATCGGGAAGCTCATAAA
*
62398122 GAGCCATATATCGGGACGCTCATAAA
1 GAGCCA-ATATCGGGAAGCTCATAAA
62398148 GAGC
1 GAGC
62398152 TGCGAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
26 21 0.81
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (25 bp):
GAGCCAATATCGGGAAGCTCATAAA
Found at i:62398593 original size:24 final size:25
Alignment explanation
Indices: 62398565--62398613 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
62398555 TCACGGGTAA
62398565 CTCCGAAGAGCTAT-TATCAAGAAG
1 CTCCGAAGAGCTATATATCAAGAAG
* * *
62398589 CTCCGGATAGCTATATATCAGGAAG
1 CTCCGAAGAGCTATATATCAAGAAG
62398614 TTCAAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
CTCCGAAGAGCTATATATCAAGAAG
Found at i:62398664 original size:523 final size:523
Alignment explanation
Indices: 62397674--62398723 Score: 1904
Period size: 523 Copynumber: 2.0 Consensus size: 523
62397664 ACATAATTAT
* * *
62397674 CAGGCAAGTTTTATATATATGTATTTTCCATGTCATGTTTCAATATATCAAATAAATATCATTTT
1 CAGGCAAGTTTCACATATATGTATTTTCCATGTCATGTTTCAATATATCAAATAAATATCATTTC
* *
62397739 CATGTATTTCAGGTATATACCAGTAATAGTTCATTTCGAACTCATGTTATCTCATATCAGAACTT
66 CATGTATTTCAGGTATATACCAGTAATAGTTCATTTCAAACTCATGTTATCTCATATAAGAACTT
*
62397804 TACCCGTTGAATCATTTAAAATATTGATGGATACAAAGGTAGTACACATGAAGTGTACGAATCTG
131 TACCCGTTGAATCATTTAAAATATTGATGGATACAAAGGTAATACACATGAAGTGTACGAATCTG
62397869 AAATCCGTCAATTCATATTCGGGGGTACTCATTAGAGCACATAATCAAAAAGCACTCTCTTGAGC
196 AAATCCGTCAATTCATATTCGGGGGTACTCATTAGAGCACATAATCAAAAAGCACTCTCTTGAGC
*
62397934 CACATAATAGGAAGCTCATGTGAGCCATGTAACAGGAAGCTTATCTGGGCTATAACAGGAAACTC
261 CACATAATAGGAAGCTCATGTGAGCCATGTAACAAGAAGCTTATCTGGGCTATAACAGGAAACTC
*
62397999 ATAAGAGTTTAGAACAAAAAGCTCATGTGAGCTTCACGGATAACTCCGAAGAGCTATTATCAGGA
326 ATAAGAGTTTAGAACAAAAAGCTCATGTGAGCTTCACGGATAACTCCGAAGAGCTATTATCAAGA
*
62398064 AGCTCCGGATAACTATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAGCTCATGAAGAGCCAT
391 AGCTCCGGATAACTATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAACTCATGAAGAGCCAT
* *
62398129 ATATCGGGACGCTCATAAAGAGCTGCGAAATGTCCGCAGTACATGCAGGATCAATACCGATCATA
456 ATATCAGGACGCTCATAAAGAGCTGCGAAATGTCCGCAATACATGCAGGATCAATACCGATCATA
62398194 TAA
521 TAA
62398197 CAGGCAAGTTTCACATATATGTATTTTCCATGTCATGTTTCAATATATCAAATAAATATCATTTC
1 CAGGCAAGTTTCACATATATGTATTTTCCATGTCATGTTTCAATATATCAAATAAATATCATTTC
62398262 CATGTATTTCAGGTATATACCAGTAATAGTTCATTTCAAACTCATGTTATCTCATATAAGAACTT
66 CATGTATTTCAGGTATATACCAGTAATAGTTCATTTCAAACTCATGTTATCTCATATAAGAACTT
62398327 TACCCGTTGAATCATTTAAAATATTGATGGATACAAAGGTAATACACATGAAGTGTACGAATCTG
131 TACCCGTTGAATCATTTAAAATATTGATGGATACAAAGGTAATACACATGAAGTGTACGAATCTG
* * *
62398392 AAATCCGTCAATTCATATTCGGTGGTACTCATTAGAGTACATAATCAGAAAGCACTCTCTTGAGC
196 AAATCCGTCAATTCATATTCGGGGGTACTCATTAGAGCACATAATCAAAAAGCACTCTCTTGAGC
62398457 CACATAATAGGAAGCTCATGTGAGCCATGTAACAAGAAGCTTAT-TCGGGCTATAACAGGAAACT
261 CACATAATAGGAAGCTCATGTGAGCCATGTAACAAGAAGCTTATCT-GGGCTATAACAGGAAACT
* *
62398521 CATAAGAGTTTAGAACTAAAAGCTCATGTGAGCTTCACGGGTAACTCCGAAGAGCTATTATCAAG
325 CATAAGAGTTTAGAACAAAAAGCTCATGTGAGCTTCACGGATAACTCCGAAGAGCTATTATCAAG
* *
62398586 AAGCTCCGGATAGCTATATATCAGGAAGTTCAAGCGAGCCATATTGGGAAACTCATGAAGAGCCA
390 AAGCTCCGGATAACTATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAACTCATGAAGAGCCA
* *
62398651 TATATCAGGACGCTCATAAAGAGCTGCGTAATGTCCGTAATACATGCAGGATCAATACCGATCAT
455 TATATCAGGACGCTCATAAAGAGCTGCGAAATGTCCGCAATACATGCAGGATCAATACCGATCAT
62398716 ATAA
520 ATAA
62398720 CAGG
1 CAGG
62398724 ACTGTAATAG
Statistics
Matches: 506, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
522 1 0.00
523 505 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (523 bp):
CAGGCAAGTTTCACATATATGTATTTTCCATGTCATGTTTCAATATATCAAATAAATATCATTTC
CATGTATTTCAGGTATATACCAGTAATAGTTCATTTCAAACTCATGTTATCTCATATAAGAACTT
TACCCGTTGAATCATTTAAAATATTGATGGATACAAAGGTAATACACATGAAGTGTACGAATCTG
AAATCCGTCAATTCATATTCGGGGGTACTCATTAGAGCACATAATCAAAAAGCACTCTCTTGAGC
CACATAATAGGAAGCTCATGTGAGCCATGTAACAAGAAGCTTATCTGGGCTATAACAGGAAACTC
ATAAGAGTTTAGAACAAAAAGCTCATGTGAGCTTCACGGATAACTCCGAAGAGCTATTATCAAGA
AGCTCCGGATAACTATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAACTCATGAAGAGCCAT
ATATCAGGACGCTCATAAAGAGCTGCGAAATGTCCGCAATACATGCAGGATCAATACCGATCATA
TAA
Found at i:62400349 original size:60 final size:58
Alignment explanation
Indices: 62400275--62400407 Score: 142
Period size: 60 Copynumber: 2.3 Consensus size: 58
62400265 ATTTAAGCCC
* * * * * *
62400275 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-ACACACCCAGTGCC--ATATATTTCCAGCAT
* * **
62400335 GCACACTTAGTGCCATATATTTCCAGCATACACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
62400393 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
62400408 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 28 0.45
60 33 0.53
61 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
Found at i:62400368 original size:29 final size:29
Alignment explanation
Indices: 62400325--62400407 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
62400315 GCCGTATTTT
62400325 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
62400354 TTTCCAGCATACACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
62400383 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
62400408 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:62408424 original size:59 final size:58
Alignment explanation
Indices: 62408351--62408482 Score: 149
Period size: 59 Copynumber: 2.3 Consensus size: 58
62408341 ATTTAAGCCC
* * * * * *
62408351 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-ACACACCCAGTGCCATA-TATTTCCAGCAT
* * **
62408410 GCACACTTAGTGCCATATATTTCCAGCATACACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
62408468 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
62408483 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 26 0.42
59 35 0.56
60 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
Found at i:62408443 original size:29 final size:29
Alignment explanation
Indices: 62408400--62408482 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
62408390 TGCCGTATTT
62408400 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
62408429 TTTCCAGCATACACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
62408458 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
62408483 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:62412595 original size:49 final size:49
Alignment explanation
Indices: 62412535--62412662 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 49
62412525 CATCAAAGTT
62412535 GATGCCATGTCCTAGACAAGTCTTACACTGACAT-TCATATATCGAG-GTC
1 GATGCCATGTCCTAGACAAGTCTTACACTGAC-TCTCATATATC-AGTGTC
* * * * *
62412584 GATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTC
1 GATGCCATGTCCTAGACAAGTCTTACACTGACTCTCATATATCAGTGTC
62412633 GATGCCATGTCCTAGACAAGTCTTACACTG
1 GATGCCATGTCCTAGACAAGTCTTACACTG
62412663 TCACACAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 3 0.04
49 66 0.96
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCTAGACAAGTCTTACACTGACTCTCATATATCAGTGTC
Found at i:62412795 original size:46 final size:45
Alignment explanation
Indices: 62412729--62412848 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 45
62412719 CGAGGTCGAG
* *
62412729 GCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGCCAAT
* * * *
62412775 GCATGTCCCAAACATTTCTTACATTGGCTCTCATAATGTGGCCAAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGCCAAT
62412821 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
62412849 ACACATATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 1 0.02
46 57 0.93
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCAAT
Found at i:62413534 original size:20 final size:20
Alignment explanation
Indices: 62413497--62413547 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
62413487 CTATAGCAAC
62413497 TCACAA-TTT-CAA-TTATT
1 TCACAACTTTACAACTTATT
62413514 TCAC-ACGTTTACAACTTATT
1 TCACAAC-TTTACAACTTATT
*
62413534 TTACAACTTTACAA
1 TCACAACTTTACAA
62413548 AATAGCCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 4 0.14
18 3 0.11
19 3 0.11
20 15 0.54
21 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (20 bp):
TCACAACTTTACAACTTATT
Found at i:62418332 original size:45 final size:45
Alignment explanation
Indices: 62418232--62418358 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
62418222 TTTTCTCAAA
* *
62418232 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
62418274 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
62418318 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
62418359 ATCAACTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:62418736 original size:43 final size:43
Alignment explanation
Indices: 62418688--62418820 Score: 189
Period size: 43 Copynumber: 3.1 Consensus size: 43
62418678 CCGGCATTAC
*
62418688 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
**
62418731 GCCTGCTAGGCATAAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* * * *
62418774 GCCTGCTAGGCACGAAAGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
62418815 GCCTGC
1 GCCTGC
62418821 GGGATTTATC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.19
42 2 0.02
43 64 0.79
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:62418923 original size:40 final size:38
Alignment explanation
Indices: 62418797--62418993 Score: 277
Period size: 38 Copynumber: 5.1 Consensus size: 38
62418787 GAAAGCCCGA
* * * *
62418797 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
62418835 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
** * **
62418873 ATATTTTACCAGCATGAAGCCTGCAGGTCTTTAAGCCTGG
1 ATATAATACCAGCACGAAGCCTGC-GGGATTTAA-CCTGG
*
62418913 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
*
62418951 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
62418989 ATATA
1 ATATA
62418994 CATCGAATAT
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 100 0.71
39 14 0.10
40 26 0.19
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
Found at i:62422630 original size:20 final size:19
Alignment explanation
Indices: 62422607--62422663 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
62422597 CATTACAAAT
62422607 ATATCTTATCATATACATAA
1 ATATCTTATCATATACAT-A
* * *
62422627 ATATCATATCA-AAACATT
1 ATATCTTATCATATACATA
62422645 ATATACTTATACATATACA
1 ATAT-CTTAT-CATATACA
62422664 AATGCCGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 12 0.41
21 4 0.14
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATCTTATCATATACATA
Found at i:62424473 original size:30 final size:28
Alignment explanation
Indices: 62424425--62424480 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 28
62424415 TCCTTGTGTT
62424425 CATATAAGTCCATAAATTTCATTTATTTCA
1 CATATAAGTCCATAAATTT-A-TTATTTCA
* * *
62424455 CATATTAGTCCCTCAATTTATTATTT
1 CATATAAGTCCATAAATTTATTATTT
62424481 TTGCAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 1 0.04
30 16 0.70
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
CATATAAGTCCATAAATTTATTATTTCA
Found at i:62432756 original size:20 final size:19
Alignment explanation
Indices: 62432733--62432789 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
62432723 CATTACAAGT
62432733 ATATCTTATCATATACATAA
1 ATATCTTATCATATACAT-A
* * *
62432753 ATATCATATCA-AAACATT
1 ATATCTTATCATATACATA
62432771 ATATACTTATACATATACA
1 ATAT-CTTAT-CATATACA
62432790 AATTTCGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 12 0.41
21 4 0.14
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATCTTATCATATACATA
Found at i:62441905 original size:38 final size:38
Alignment explanation
Indices: 62441681--62441918 Score: 255
Period size: 38 Copynumber: 6.2 Consensus size: 38
62441671 ATTTGATGTG
* * *
62441681 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTA
* *
62441721 TATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
62441759 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * **
62441797 TATCCAGGATAAATCCTACAGGCTTCGTGCTGGT-TATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT-TA
* *
62441835 TATCTGGGTTAAATCCCGCAAGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * * * *
62441873 TATCCGAGTTAAATCCTGTAGGCCTAGCGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
62441911 TATTCGGG
1 TATCCGGG
62441919 CCTTTGAGCC
Statistics
Matches: 166, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.01
38 151 0.91
39 5 0.03
40 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:62444681 original size:40 final size:39
Alignment explanation
Indices: 62444636--62444723 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 39
62444626 GGAAATGGTA
*
62444636 ATATGAAATGGATGTATTA-AA-TGTTTATATGGAAATAGAT
1 ATATGAAATGG-T-TATAAGAAGTGTTTATAT-GAAATAGAT
**
62444676 ATATGAAATGGTTATAAGAAGTGTTTATATGAAATATTT
1 ATATGAAATGGTTATAAGAAGTGTTTATATGAAATAGAT
62444715 ATATGAAAT
1 ATATGAAAT
62444724 ATTTATATGA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 4 0.09
39 19 0.44
40 20 0.47
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (39 bp):
ATATGAAATGGTTATAAGAAGTGTTTATATGAAATAGAT
Found at i:62444691 original size:13 final size:13
Alignment explanation
Indices: 62444627--62444734 Score: 81
Period size: 13 Copynumber: 8.2 Consensus size: 13
62444617 CGAGTAAACG
*
62444627 GAAATGGTAATAT
1 GAAATGGTTATAT
* *
62444640 GAAATGGATGTAT
1 GAAATGGTTATAT
* *
62444653 TAAATGTTTATAT
1 GAAATGGTTATAT
* *
62444666 GGAAATAGATATAT
1 -GAAATGGTTATAT
*
62444680 GAAATGGTTATAA
1 GAAATGGTTATAT
* *
62444693 GAAGTGTTTATAT
1 GAAATGGTTATAT
**
62444706 GAAATATTTATAT
1 GAAATGGTTATAT
**
62444719 GAAATATTTATAT
1 GAAATGGTTATAT
62444732 GAA
1 GAA
62444735 TATAGATATG
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
13 66 0.88
14 9 0.12
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:62450133 original size:25 final size:24
Alignment explanation
Indices: 62450105--62450183 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
62450095 TCATTAGGGA
*
62450105 TTACCAATTCTCAACTCATATGAGC
1 TTACCAATT-TCAGCTCATATGAGC
* * *
62450130 TTACCGATTTCAGCTCGTATTAGC
1 TTACCAATTTCAGCTCATATGAGC
* *
62450154 TTACCAATTTACAGCTCAGAAGAGC
1 TTACCAATTT-CAGCTCATATGAGC
62450179 TTACC
1 TTACC
62450184 GATTCATGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 21 0.48
25 23 0.52
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (24 bp):
TTACCAATTTCAGCTCATATGAGC
Found at i:62464123 original size:15 final size:15
Alignment explanation
Indices: 62464091--62464119 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62464081 ATTTTCTATG
62464091 TTTATATTGTGTGAA
1 TTTATATTGTGTGAA
62464106 TTTAT-TTGTGTGAA
1 TTTATATTGTGTGAA
62464120 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATATTGTGTGAA
Found at i:62467337 original size:28 final size:26
Alignment explanation
Indices: 62467281--62467394 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
62467271 CAGCATGGCT
* * *
62467281 ACCAGAATAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
62467307 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
62467335 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
** *
62467362 ACCAGATTAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA--TGTGGCAGAGCC
62467390 ACCAG
1 ACCAG
62467395 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.48
28 33 0.43
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:62467365 original size:55 final size:54
Alignment explanation
Indices: 62467281--62467394 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 54
62467271 CAGCATGGCT
* *
62467281 ACCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCC
* * * *
62467335 ACCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCC
62467390 ACCAG
1 ACCAG
62467395 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCC
Found at i:62467822 original size:8 final size:8
Alignment explanation
Indices: 62467809--62467840 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
62467799 CCCAAAATAC
62467809 CGGCTTTT
1 CGGCTTTT
62467817 CGGCTTTT
1 CGGCTTTT
*
62467825 CGGCATTT
1 CGGCTTTT
62467833 CGGCTTTT
1 CGGCTTTT
62467841 GCCGATCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:62475145 original size:27 final size:26
Alignment explanation
Indices: 62475081--62475193 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
62475071 AGCATGGCTG
* ** *
62475081 CCAGAACAGATAATGTGAAAGAGTCA
1 CCAGAATAGATAATGTGGCAGAGCCA
*
62475107 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ATAGATAAT-GTGGCAGAGCCA
*
62475135 TCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAATAGATA-ATGTGGCAGAGCCA
* *
62475162 CCAGATTAGATAATTTGTGGCATAGCCA
1 CCAGAATAGATAA--TGTGGCAGAGCCA
62475190 CCAG
1 CCAG
62475194 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAATAGATAATGTGGCAGAGCCA
Found at i:62475165 original size:55 final size:54
Alignment explanation
Indices: 62475082--62475189 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 54
62475072 GCATGGCTGC
*
62475082 CAGAACAGATAATGTGAAAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCAT
1 CAGAACAGATAATGTGAAAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCAT
* ** * * *
62475136 CAGAATAGATATATGTGGCAGAGCCACCAGATTAGATAATTTGTGGCATAGCCA
1 CAGAACAGATA-ATGTGAAAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
62475190 CCAGGACGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
54 16 0.36
55 29 0.64
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGAACAGATAATGTGAAAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCAT
Found at i:62475188 original size:28 final size:28
Alignment explanation
Indices: 62475100--62475193 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
62475090 ATAATGTGAA
* * *
62475100 AGAGTCACCAGATACAGATAA-TCGTGGC
1 AGAGCCACCAGAT-TAGATAATTTGTGGC
* * *
62475128 AGAGCCATCAGAATAGAT-ATATGTGGC
1 AGAGCCACCAGATTAGATAATTTGTGGC
62475155 AGAGCCACCAGATTAGATAATTTGTGGC
1 AGAGCCACCAGATTAGATAATTTGTGGC
*
62475183 ATAGCCACCAG
1 AGAGCCACCAG
62475194 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 25 0.46
28 28 0.52
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (28 bp):
AGAGCCACCAGATTAGATAATTTGTGGC
Found at i:62480710 original size:41 final size:41
Alignment explanation
Indices: 62480646--62480832 Score: 169
Period size: 41 Copynumber: 4.6 Consensus size: 41
62480636 CTTTGTGCCA
* * *
62480646 CTTCGTGCCGGTGTACTACATCAGGCTTTGTGCCTAGCAGG
1 CTTCGTGCCAGTGTATTATATCAGGCTTTGTGCCTAGCAGG
* *
62480687 CTTCGTGCTAGTGTATTATATCAGGCTTTGTGCCTAGTAGG
1 CTTCGTGCCAGTGTATTATATCAGGCTTTGTGCCTAGCAGG
* *** * * *
62480728 CTTCATTTTGAAT-TATTATATCAGGATTTGGGCCTAGCAGG
1 CTTC-GTGCCAGTGTATTATATCAGGCTTTGTGCCTAGCAGG
* * * * * * *
62480769 CTTCGCGCCGGTGTGTTATATTAGGCTTTGAGCTTAGCAGT
1 CTTCGTGCCAGTGTATTATATCAGGCTTTGTGCCTAGCAGG
* *
62480810 CTTCGTGCCAATGTATTGTATCA
1 CTTCGTGCCAGTGTATTATATCA
62480833 AGTAAGTTGC
Statistics
Matches: 112, Mismatches: 32, Indels: 4
0.76 0.22 0.03
Matches are distributed among these distances:
40 1 0.01
41 108 0.96
42 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (41 bp):
CTTCGTGCCAGTGTATTATATCAGGCTTTGTGCCTAGCAGG
Found at i:62487052 original size:20 final size:20
Alignment explanation
Indices: 62486899--62487049 Score: 185
Period size: 20 Copynumber: 7.5 Consensus size: 20
62486889 AGCCTCGGTC
*
62486899 CAAAGCCATCAGTAGTGGCA
1 CAAAGCCATCAATAGTGGCA
* *
62486919 CCAAGCCATCAATAATGGCA
1 CAAAGCCATCAATAGTGGCA
* *
62486939 CCAAGCCATCAATAGCGGCA
1 CAAAGCCATCAATAGTGGCA
*
62486959 CAAAACCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
*
62486979 CAGAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
** * *
62486999 CAAAGCCATCTGTAGCGACA
1 CAAAGCCATCAATAGTGGCA
* *
62487019 CAAAGCCATCAGTAGCGGCA
1 CAAAGCCATCAATAGTGGCA
62487039 CAAAGCCATCA
1 CAAAGCCATCA
62487050 GTACGTCCAC
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 114 1.00
ACGTcount: A:0.38, C:0.29, G:0.20, T:0.13
Consensus pattern (20 bp):
CAAAGCCATCAATAGTGGCA
Found at i:62490972 original size:20 final size:20
Alignment explanation
Indices: 62490947--62491096 Score: 167
Period size: 20 Copynumber: 7.5 Consensus size: 20
62490937 AGCCTAGGTC
*
62490947 CAAAGCCATCAGTAGTGGCA
1 CAAAGCCATCAATAGTGGCA
*
62490967 CAAAGCCATCAATAATGGCA
1 CAAAGCCATCAATAGTGGCA
*
62490987 CCAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
* * *
62491007 CAAAACCATCAATAGCGGGA
1 CAAAGCCATCAATAGTGGCA
** * *
62491027 CAAAGCCATCTGTAGCGACA
1 CAAAGCCATCAATAGTGGCA
** *
62491047 CAAAGGTATCAATAGCGGCA
1 CAAAGCCATCAATAGTGGCA
*
62491067 CAAAGCCATCAGTAGT-GCA
1 CAAAGCCATCAATAGTGGCA
62491086 CAAAGCCATCA
1 CAAAGCCATCA
62491097 GTACGTCCAC
Statistics
Matches: 108, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
19 14 0.13
20 94 0.87
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (20 bp):
CAAAGCCATCAATAGTGGCA
Found at i:62491004 original size:40 final size:40
Alignment explanation
Indices: 62490947--62491096 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
62490937 AGCCTAGGTC
**
62490947 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAATGGCA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGCGGCA
* * * *
62490987 CCAAGCCATCAATAGTGGCACAAAACCATCAATAGCGGGA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGCGGCA
* * * **
62491027 CAAAGCCATCTGTAGCGACACAAAGGTATCAATAGCGGCA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGCGGCA
62491067 CAAAGCCATCAGTAGT-GCACAAAGCCATCA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCA
62491097 GTACGTCCAC
Statistics
Matches: 90, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 11 0.12
40 79 0.88
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (40 bp):
CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGCGGCA
Found at i:62495013 original size:20 final size:20
Alignment explanation
Indices: 62494990--62495071 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
62494980 AAGCGGCAAG
62494990 AAGCCATCAGTAATGGCTCA
1 AAGCCATCAGTAATGGCTCA
62495010 AAGCC-T-AG--AT--C-CA
1 AAGCCATCAGTAATGGCTCA
* * *
62495023 AAGCCATTAGTAGTGGCACA
1 AAGCCATCAGTAATGGCTCA
* *
62495043 AAGCCATCAATAATGG-TACC
1 AAGCCATCAGTAATGGCT-CA
62495063 AAGCCATCA
1 AAGCCATCA
62495072 ATAGCGGCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
13 7 0.15
14 2 0.04
15 2 0.04
16 2 0.04
17 1 0.02
18 2 0.04
19 2 0.04
20 30 0.62
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
AAGCCATCAGTAATGGCTCA
Found at i:62495072 original size:20 final size:20
Alignment explanation
Indices: 62495021--62495191 Score: 189
Period size: 20 Copynumber: 8.6 Consensus size: 20
62495011 AGCCTAGATC
* *
62495021 CAAAGCCATTAGTAGTGGCA
1 CAAAGCCATCAATAGTGGCA
* *
62495041 CAAAGCCATCAATAATGGTA
1 CAAAGCCATCAATAGTGGCA
* *
62495061 CCAAGCCATCAATAGCGGCA
1 CAAAGCCATCAATAGTGGCA
* * *
62495081 CAAAACCATCAATAGTCGTA
1 CAAAGCCATCAATAGTGGCA
*
62495101 CAATGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
** * *
62495121 CAAAGCCATCTGTAGCGACA
1 CAAAGCCATCAATAGTGGCA
62495141 CAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
* * *
62495161 CAAAGGCATCAATAGCGACA
1 CAAAGCCATCAATAGTGGCA
62495181 CAAAGCCATCA
1 CAAAGCCATCA
62495192 GTACGTCTAC
Statistics
Matches: 121, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 121 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
CAAAGCCATCAATAGTGGCA
Found at i:62499042 original size:20 final size:20
Alignment explanation
Indices: 62498995--62499164 Score: 165
Period size: 20 Copynumber: 8.8 Consensus size: 20
62498985 CAGTATTTGT
* *
62498995 CACAAAGCCATAAGTAGCGG
1 CACAAAGCCATCAGTAGTGG
** **
62499015 CATGAAGCTGTCAGTAGTGG
1 CACAAAGCCATCAGTAGTGG
62499035 CACAAAGCC-T-AG--GT--
1 CACAAAGCCATCAGTAGTGG
62499049 C-CAAAGCCATCAGTAGTGG
1 CACAAAGCCATCAGTAGTGG
*
62499068 CACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAGTAGTGG
* *
62499088 CACAAAGCCATCTGTAGCGG
1 CACAAAGCCATCAGTAGTGG
* **
62499108 CACAAAGCCATCAATAGCAG
1 CACAAAGCCATCAGTAGTGG
*
62499128 CACAAAGCCATTAGTAGTGG
1 CACAAAGCCATCAGTAGTGG
*
62499148 CAGAAAGCCATCAGTAG
1 CACAAAGCCATCAGTAG
62499165 GTCCACAGTC
Statistics
Matches: 121, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
13 7 0.06
14 2 0.02
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 2 0.02
20 102 0.84
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (20 bp):
CACAAAGCCATCAGTAGTGG
Found at i:62504358 original size:49 final size:49
Alignment explanation
Indices: 62504289--62504490 Score: 350
Period size: 49 Copynumber: 4.1 Consensus size: 49
62504279 GTACATAATA
*
62504289 ATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
62504338 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
62504387 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
62504436 ATATATGTGATAAGGCCTAATGGCCGACGCGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
62504485 ATATAT
1 ATATAT
62504491 ATGTGGTAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 147 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:62504614 original size:37 final size:37
Alignment explanation
Indices: 62504559--62504682 Score: 223
Period size: 37 Copynumber: 3.3 Consensus size: 37
62504549 AACTTGGAAA
62504559 TATGTTCCGGGTGA-GACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-ACGACCCGATGACTACGTGTGGAGAT
62504597 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
62504634 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
62504671 TATGTCCGGGTA
1 TATGTCCGGGTA
62504683 AGACTTCGTA
Statistics
Matches: 85, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
36 1 0.01
37 80 0.94
38 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
Found at i:62510506 original size:21 final size:22
Alignment explanation
Indices: 62510473--62510518 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 22
62510463 ACACCTATTA
62510473 TTTATTTTTTCTTT-TTT-TAT
1 TTTATTTTTTCTTTATTTATAT
62510493 TTTATTTTTATCTTTATTTATAT
1 TTTATTTTT-TCTTTATTTATAT
62510516 TTT
1 TTT
62510519 GAAATTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 3 0.13
23 6 0.26
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTATTTTTTCTTTATTTATAT
Found at i:62510508 original size:12 final size:12
Alignment explanation
Indices: 62510473--62510511 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
62510463 ACACCTATTA
62510473 TTTATTTTT-TC
1 TTTATTTTTATC
62510484 -TT-TTTTTAT-
1 TTTATTTTTATC
62510493 TTTATTTTTATC
1 TTTATTTTTATC
62510505 TTTATTT
1 TTTATTT
62510512 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.21
10 5 0.21
11 7 0.29
12 7 0.29
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:62514469 original size:41 final size:40
Alignment explanation
Indices: 62514412--62514537 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 40
62514402 TCATGTATTA
* *
62514412 ATTATATTAGGTTTTGTGCCTAGCAGGCTTCGTGCCGATGT
1 ATTATATCAGGCTTTGTGCCTAGCAGGCTTCGTGCC-ATGT
*
62514453 ATTATATCAGGCTTTGTGCCTAGTAGGCTTCGTGCCA-GT
1 ATTATATCAGGCTTTGTGCCTAGCAGGCTTCGTGCCATGT
* * *
62514492 ATGTTATATCATGCTTTGAGCCTAGCAGTCTTCGTGCCAATGT
1 A--TTATATCAGGCTTTGTGCCTAGCAGGCTTCGTGCC-ATGT
62514535 ATT
1 ATT
62514538 GTATTAGGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 3 0.04
40 1 0.01
41 66 0.89
42 1 0.01
43 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (40 bp):
ATTATATCAGGCTTTGTGCCTAGCAGGCTTCGTGCCATGT
Found at i:62524246 original size:17 final size:19
Alignment explanation
Indices: 62524204--62524247 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
62524194 ATGAAATTTT
*
62524204 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
62524223 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
62524241 AA-TATTA
1 AATTATTA
62524248 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:62526094 original size:28 final size:28
Alignment explanation
Indices: 62526062--62526130 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
62526052 GCGTAGATCA
62526062 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
62526090 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
62526118 CGATA-TACCCCTA
1 CGAAATTACCCCTA
62526131 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:62528550 original size:17 final size:19
Alignment explanation
Indices: 62528508--62528551 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
62528498 ATGAAATTTT
*
62528508 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
62528527 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
62528545 AA-TATTA
1 AATTATTA
62528552 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:62530396 original size:28 final size:28
Alignment explanation
Indices: 62530364--62530432 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
62530354 GCGTAGATCA
62530364 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
62530392 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
62530420 TGATA-TACCCCTA
1 CGAAATTACCCCTA
62530433 GGGTTTTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:62539081 original size:12 final size:12
Alignment explanation
Indices: 62539066--62539098 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
62539056 GAGGAGTTGT
62539066 TGGAGTGATTTG
1 TGGAGTGATTTG
62539078 TGGAGTGATTTG
1 TGGAGTGATTTG
62539090 TGGAGTGAT
1 TGGAGTGAT
62539099 AAAGGGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (12 bp):
TGGAGTGATTTG
Found at i:62541477 original size:57 final size:58
Alignment explanation
Indices: 62541424--62541544 Score: 174
Period size: 57 Copynumber: 2.1 Consensus size: 58
62541414 CCGCACACAC
*
62541424 AGTGCCATACCCTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
*** * *
62541481 AGTGCCATATTTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
62541538 AGTGCCA
1 AGTGCCA
62541545 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 56 0.98
58 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (58 bp):
AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:62541503 original size:28 final size:28
Alignment explanation
Indices: 62541444--62541544 Score: 175
Period size: 29 Copynumber: 3.5 Consensus size: 28
62541434 CCTCGAGCTC
62541444 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATAT-TTTCCAGCAT
62541473 GCACACTTAGTGCCATATTTTCCAGCAT
1 GCACACTTAGTGCCATATTTTCCAGCAT
*
62541501 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATA-TTTTCCAGCAT
62541530 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
62541545 ATCTCGTCAC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
28 26 0.38
29 43 0.62
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCCATATTTTCCAGCAT
Found at i:62549455 original size:57 final size:58
Alignment explanation
Indices: 62549402--62549522 Score: 174
Period size: 57 Copynumber: 2.1 Consensus size: 58
62549392 CCGCACACAC
*
62549402 AGTGCCATACCCTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
*** * *
62549459 AGTGCCATATTTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
62549516 AGTGCCA
1 AGTGCCA
62549523 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 56 0.98
58 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (58 bp):
AGTGCCATACCCTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:62549481 original size:28 final size:28
Alignment explanation
Indices: 62549422--62549522 Score: 175
Period size: 29 Copynumber: 3.5 Consensus size: 28
62549412 CCTCGAGCTC
62549422 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATAT-TTTCCAGCAT
62549451 GCACACTTAGTGCCATATTTTCCAGCAT
1 GCACACTTAGTGCCATATTTTCCAGCAT
*
62549479 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATA-TTTTCCAGCAT
62549508 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
62549523 ATCTCGTCAC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
28 26 0.38
29 43 0.62
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCCATATTTTCCAGCAT
Found at i:62553363 original size:3 final size:3
Alignment explanation
Indices: 62553355--62553410 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
62553345 TTATAATACG
62553355 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
62553401 AAT AAT AAT A
1 AAT AAT AAT A
62553411 GTTATACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62553632 original size:14 final size:14
Alignment explanation
Indices: 62553613--62553639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62553603 CGGTTTGTGT
62553613 TTCTATAATCCAAA
1 TTCTATAATCCAAA
62553627 TTCTATAATCCAA
1 TTCTATAATCCAA
62553640 GGTGAGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
TTCTATAATCCAAA
Found at i:62554224 original size:19 final size:19
Alignment explanation
Indices: 62554187--62554240 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
62554177 ATTGAAGTGG
*
62554187 CAAAGATGATAAATG-AATA
1 CAAA-ATGAGAAATGAAATA
62554206 CAAAATGAGAAATGAAATA
1 CAAAATGAGAAATGAAATA
**
62554225 TGAAATGATGAAATGA
1 CAAAATGA-GAAATGA
62554241 TGAAATGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.57, C:0.04, G:0.19, T:0.20
Consensus pattern (19 bp):
CAAAATGAGAAATGAAATA
Found at i:62554237 original size:8 final size:8
Alignment explanation
Indices: 62554217--62554248 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
62554207 AAAATGAGAA
62554217 ATGAAAT-
1 ATGAAATG
62554224 ATGAAATG
1 ATGAAATG
62554232 ATGAAATG
1 ATGAAATG
62554240 ATGAAATG
1 ATGAAATG
62554248 A
1 A
62554249 GATATGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (8 bp):
ATGAAATG
Found at i:62555278 original size:43 final size:43
Alignment explanation
Indices: 62555230--62555314 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
62555220 AACACAGGCG
* * * *
62555230 TGTGTCTCAGCCGTTTGAGGCACACAGTCTGGCCACATGGGTT
1 TGTGTCTCAACCGTGTGAGGCACACAGCCTGGCCACACGGGTT
62555273 TGTGTCTCAACCGTGTGAGGCACACAGCCTGGCCACACGGGT
1 TGTGTCTCAACCGTGTGAGGCACACAGCCTGGCCACACGGGT
62555315 GTATGACCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.24
Consensus pattern (43 bp):
TGTGTCTCAACCGTGTGAGGCACACAGCCTGGCCACACGGGTT
Found at i:62555682 original size:49 final size:49
Alignment explanation
Indices: 62555610--62555703 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
62555600 TCTAGAAAGG
* *
62555610 ATAAATAGTGATAAGAGTGTAGACAGT-GTAAGACTAAGTTTAGCAATAT
1 ATAAATAGTGATAAGAGTGTAGACAGTAG-AACACCAAGTTTAGCAATAT
62555659 ATAAATAGTGATAAGAGTGTAGACAGTAGAACACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTAGAACACCAAGTTTAGCA
62555704 TTGCATAGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTAGAACACCAAGTTTAGCAATAT
Found at i:62557947 original size:48 final size:48
Alignment explanation
Indices: 62557826--62558008 Score: 180
Period size: 48 Copynumber: 3.9 Consensus size: 48
62557816 TACATAGTAA
* * *
62557826 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
* * * *
62557874 GAAGCC---G--ATAACCCA-ACTATGGTCTTACACGATATCTCATATC
1 GATGCCAATGCCATATCCCAGA-TATGGTCTTACACGAGATCACATATC
* * *
62557917 GATGCCAATGCCATATCTCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
* * * * *
62557965 GATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACA
62558009 CATAACCCTA
Statistics
Matches: 110, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.30
45 1 0.01
46 1 0.01
48 73 0.66
49 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
Found at i:62572248 original size:48 final size:48
Alignment explanation
Indices: 62572177--62572315 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
62572167 CAAGATAAAT
62572177 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62572225 ATATGTATATGTGGTAAAGCC-----G--AATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62572266 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62572314 AT
1 AT
62572316 GTGAAATATG
Statistics
Matches: 84, Mismatches: 0, Indels: 14
0.86 0.00 0.14
Matches are distributed among these distances:
41 40 0.48
43 1 0.01
46 1 0.01
48 42 0.50
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:62572254 original size:41 final size:41
Alignment explanation
Indices: 62572206--62572291 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
62572196 CCGAATGGCT
62572206 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
62572247 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
62572288 AATG
1 AATG
62572292 GCTAATGTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (41 bp):
AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:62572319 original size:18 final size:18
Alignment explanation
Indices: 62572296--62572333 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
62572286 CGAATGGCTA
62572296 ATGTGAAATATGTATGAG
1 ATGTGAAATATGTATGAG
62572314 ATGTGAAATATGTATGAG
1 ATGTGAAATATGTATGAG
62572332 AT
1 AT
62572334 ATGTATATGT
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:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (18 bp):
ATGTGAAATATGTATGAG
Found at i:62572325 original size:66 final size:66
Alignment explanation
Indices: 62572248--62572381 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
62572238 GTAAAGCCGA
62572248 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
62572313 G
66 G
62572314 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
62572379 G
66 G
62572380 AT
1 AT
62572382 ATGTATATGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (66 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
G
Found at i:62572367 original size:48 final size:48
Alignment explanation
Indices: 62572314--62572429 Score: 196
Period size: 48 Copynumber: 2.4 Consensus size: 48
62572304 TATGTATGAG
*
62572314 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAGGGCTA
*
62572362 ATGTGAAATATGTATGAGATATGTATATGTGGTGAAGCCGAAGGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAGGGCTA
* *
62572410 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
62572430 GTGTGTATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.30
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAGGGCTA
Found at i:62572409 original size:114 final size:107
Alignment explanation
Indices: 62572207--62572432 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 107
62572197 CGAATGGCTA
62572207 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGTGAAATATGTATGAGATATGT
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGTGAAATATGTATGAGATATGT
* *
62572272 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
66 ATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATGTAGGAG
62572314 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC-----G--AATGTGAAATATGTATGA
* *
62572379 GATATGTATATGTGGTGAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
59 GATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATGTAGGAG
62572428 ATGTG
1 ATGTG
62572433 TGTATATTGT
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
107 39 0.36
112 1 0.01
114 68 0.63
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (107 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGTGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATGTAGGAG
Found at i:62572620 original size:37 final size:37
Alignment explanation
Indices: 62572570--62572678 Score: 193
Period size: 37 Copynumber: 2.9 Consensus size: 37
62572560 GGAAATATAT
62572570 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
62572607 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
*
62572644 TCCGGGTAAGACCCGATA-ACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGA-AGACTACGTGTGGAGATTT
62572679 CATCTGAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
37 69 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
Found at i:62575655 original size:2 final size:2
Alignment explanation
Indices: 62575648--62575674 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62575638 GGTATTTTAT
62575648 TA TA 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 T
62575675 TTTAAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62575822 original size:118 final size:114
Alignment explanation
Indices: 62575690--62575918 Score: 324
Period size: 118 Copynumber: 2.0 Consensus size: 114
62575680 ACCAAATATG
*
62575690 TTTACTTATTATCATTTTCAAAATAATAAT-AAAATATTTGTATTTATTATGTATCG-TTATG-T
1 TTTACTTATTATCATTTT-AAAATAATAATAAAAATATTTGTATTTATTATATATCGTTTATGCT
*
62575752 AATGTTTTTGTTATATTTTTTATTGGCA-AGTTATTTTTTA-TGTTTTAATATAAAAA
65 -A---TTTT-TT-TATTTTTTATTGGCATA-TTA-TTTTTAGTATTTTAATATAAAAA
62575808 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTTGTATTTATTATATATCGTTTATGCTA
1 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTTGTATTTATTATATATCGTTTATGCTA
62575873 TTTTTTTATTTTTTATTGGCATATTATTTTTAGTATTTTAATATAA
66 TTTTTTTATTTTTTATTGGCATATTATTTTTAGTATTTTAATATAA
62575919 TTTTTTGTTT
Statistics
Matches: 104, Mismatches: 2, Indels: 14
0.87 0.02 0.12
Matches are distributed among these distances:
113 6 0.06
114 30 0.29
115 3 0.03
116 4 0.04
117 11 0.11
118 43 0.41
119 6 0.06
120 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (114 bp):
TTTACTTATTATCATTTTAAAATAATAATAAAAATATTTGTATTTATTATATATCGTTTATGCTA
TTTTTTTATTTTTTATTGGCATATTATTTTTAGTATTTTAATATAAAAA
Found at i:62579061 original size:30 final size:29
Alignment explanation
Indices: 62578967--62579068 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
62578957 TATAGTGAAT
* * *
62578967 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
62578996 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
62579024 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
62579054 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62579069 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:62586949 original size:30 final size:29
Alignment explanation
Indices: 62586855--62586956 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
62586845 TATAGTGAAT
* * *
62586855 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
62586884 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
62586912 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
62586942 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62586957 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:62589489 original size:64 final size:63
Alignment explanation
Indices: 62589411--62589607 Score: 255
Period size: 64 Copynumber: 3.2 Consensus size: 63
62589401 AACTTAGTTC
* *
62589411 TGTAATGTAAATTTTGTTATATAAATGAAATACATTACAGCCA-TAATCTAATTGGAACAAACTT
1 TGTAATATAAATTTTGTTATATAAAT-AAATACATTACA-ACATTAATCTAATTGGAACAAACTT
62589475 TGTAATATAAATTTTGTTATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACTT
1 TGTAATATAAATTTTGTTATATAAA-TAAATACATTACAACATTAATCTAATTGGAACAAACTT
*** *
62589539 TGTAA-A-AAA--AAATTATATAAACTAAATACATTACAACATTAA--AAATTGGAACAAACTT
1 TGTAATATAAATTTTGTTATATAAA-TAAATACATTACAACATTAATCTAATTGGAACAAACTT
62589597 TGTAATATAAA
1 TGTAATATAAA
62589608 ATTACATAAG
Statistics
Matches: 122, Mismatches: 7, Indels: 12
0.87 0.05 0.09
Matches are distributed among these distances:
58 20 0.16
59 1 0.01
60 32 0.26
62 3 0.02
63 3 0.02
64 62 0.51
65 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (63 bp):
TGTAATATAAATTTTGTTATATAAATAAATACATTACAACATTAATCTAATTGGAACAAACTT
Found at i:62598020 original size:46 final size:45
Alignment explanation
Indices: 62597953--62598122 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
62597943 TGTAACCCGC
* *
62597953 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGAGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGCATTT-CAT
* * * *
62597999 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA-G-C-A-TTTCAT
* * *
62598049 -C-TCA-CGAACTCGGACTCAACTCAACGTGTTCG-GACATTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAG-CATT-TCAT
* *
62598092 CCATAAGTGAACTCGGATTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
62598123 TTTGGATGCC
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 53 0.55
47 25 0.26
48 3 0.03
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGCATTTCAT
Found at i:62598068 original size:93 final size:93
Alignment explanation
Indices: 62597960--62598132 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
62597950 CGCCCATAAG
* *
62597960 CGAACTTGGACTCAACTCAACGAGCTC-GAGCGTT-TGCATCCATAAGTGAACTCGGACTCAACT
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCT-CATCCATAAGTGAACTCGGACTCAACT
*
62598023 CAATGAGCTCGGATGCCTAGTTACGTCTCA
64 CAACGAGCTCGGATGCCTAGTTACGTCTCA
* * *
62598053 CGAACTCGGACTCAACTCAACGTGTTCGGACATTCTCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCA
* *
62598118 ACGAGTTTGGATGCC
66 ACGAGCTCGGATGCC
62598133 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 67 0.96
94 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACGTCTCA
Found at i:62603732 original size:40 final size:40
Alignment explanation
Indices: 62603673--62603880 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
62603663 CATTGGAATG
* * *
62603673 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
62603713 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * *
62603753 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * * *
62603793 AAATTCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
62603833 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
62603873 ATATCCGG
1 ATATCCGG
62603881 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:62606390 original size:43 final size:43
Alignment explanation
Indices: 62606337--62606443 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
62606327 CTCCGATATG
* *
62606337 TGATTTCGTGTAAGATCATGTGTAGGACATTGGCACTGATAGT
1 TGATTACGTGTAAGACCATGTGTAGGACATTGGCACTGATAGT
* * * * *
62606380 TGATTACGTGTAAGACCACGTTTGGGACGTTGGCATTGATAGT
1 TGATTACGTGTAAGACCATGTGTAGGACATTGGCACTGATAGT
*
62606423 TGATTACATGTAAGACCATGT
1 TGATTACGTGTAAGACCATGT
62606444 CTTGGACTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTGTAGGACATTGGCACTGATAGT
Found at i:62606459 original size:43 final size:42
Alignment explanation
Indices: 62606345--62606460 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
62606335 TGTGATTTCG
* * * *
62606345 TGTAAGATCATGTGTAGGACATTGGCACTGATAGTTGATTACG
1 TGTAAGACCATGT-TTGGACATTGGCATTGATAGTTGATTACA
* *
62606388 TGTAAGACCACGTTTGGGACGTTGGCATTGATAGTTGATTACA
1 TGTAAGACCATGTTT-GGACATTGGCATTGATAGTTGATTACA
* *
62606431 TGTAAGACCATGTCTTGGACTTTAGCATTG
1 TGTAAGACCATGT-TTGGACATTGGCATTG
62606461 TACAAGCCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.95
44 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTTTGGACATTGGCATTGATAGTTGATTACA
Found at i:62620946 original size:43 final size:42
Alignment explanation
Indices: 62620898--62621064 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
62620888 ATAGGATTTC
* *
62620898 CGATATGTGTTTTCAGGTAAGACCACGTCTGGAACGTTGGCAT
1 CGATATGTG-ATTCAGGTAAGACCACGTCTGGGACGTTGGCAT
* * *
62620941 CGATATGTGATT-ATGTGTAAGACCATGTCTAGGACATTGGCAT
1 CGATATGTGATTCA-G-GTAAGACCACGTCTGGGACGTTGGCAT
* *
62620984 CG-TATTTGATTCATGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTCAGGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * * *
62621025 TGATATGTGATTGCATGAAAGACCACGCCTGGGACGTTGG
1 CGATATGTGATT-CAGGTAAGACCACGTCTGGGACGTTGG
62621065 AATTGTATAA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
41 24 0.24
42 20 0.20
43 56 0.55
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
CGATATGTGATTCAGGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:62622524 original size:71 final size:71
Alignment explanation
Indices: 62622440--62622603 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62622430 CGATTTGTCT
62622440 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62622505 CTTTCA
66 CTTTCA
62622511 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62622576 CTTTCA
66 CTTTCA
62622582 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62622604 ATACATCTCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62629625 original size:71 final size:71
Alignment explanation
Indices: 62629541--62629704 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62629531 CGATTTGTCT
62629541 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62629606 CTTTCA
66 CTTTCA
62629612 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62629677 CTTTCA
66 CTTTCA
62629683 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62629705 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62629742 original size:71 final size:70
Alignment explanation
Indices: 62629541--62629738 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62629531 CGATTTGTCT
* * * *
62629541 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62629606 CTTTCA
65 CTTTCA
* * * *
62629612 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62629677 CTTTCA
65 CTTTCA
* *
62629683 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62629739 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62640684 original size:54 final size:54
Alignment explanation
Indices: 62640594--62640708 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
62640584 GGCATGGCTG
* * * *
62640594 CCAGAATAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTAGCAGTGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTAGCAGAGCCA
* *
62640647 CCAGAACAGATATTTGTGGCAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATATTTGTAGCAGAGCCA
62640702 CCAGAAC
1 CCAGAAC
62640709 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 11 0.20
54 24 0.44
55 19 0.35
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTAGCAGAGCCA
Found at i:62640691 original size:28 final size:27
Alignment explanation
Indices: 62640601--62640707 Score: 144
Period size: 27 Copynumber: 3.9 Consensus size: 27
62640591 CTGCCAGAAT
* * *
62640601 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
* *
62640628 AGATATTGTAGCAGTGCCACCAG-AAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
62640654 AGATATTTGTGGCAGAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAAC
62640682 AGATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
62640708 CGCTTCCTCC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
26 7 0.10
27 35 0.49
28 29 0.41
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGAAAC
Found at i:62640706 original size:22 final size:24
Alignment explanation
Indices: 62640626--62640704 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 24
62640616 GTCACCAGAT
* *
62640626 ACAGATA-TTGTAGCAGTGCCACC
1 ACAGATATTTGTGGCAGAGCCACC
62640649 AGAACAGATATTTGTGGCAGAGCCACC
1 ---ACAGATATTTGTGGCAGAGCCACC
62640676 AGAAACAGATATTTGTGGCAGAGCCACC
1 ----ACAGATATTTGTGGCAGAGCCACC
62640704 A
1 A
62640705 GAACGCTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.02
26 7 0.15
27 14 0.30
28 25 0.53
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (24 bp):
ACAGATATTTGTGGCAGAGCCACC
Found at i:62640840 original size:27 final size:27
Alignment explanation
Indices: 62640810--62640872 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
62640800 AAATTAACCC
*
62640810 TAGGGGTATAATGGTAATTTTCATATT
1 TAGGGGTATAATGGTAATTTTCATACT
* *
62640837 TAGGGGTGTTATGGTAATTTTCATACT
1 TAGGGGTATAATGGTAATTTTCATACT
62640864 TAGGGGTAT
1 TAGGGGTAT
62640873 TTTAGTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (27 bp):
TAGGGGTATAATGGTAATTTTCATACT
Found at i:62641541 original size:8 final size:8
Alignment explanation
Indices: 62641515--62641544 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
62641505 CAAAATGCCA
62641515 GCTTTTCG
1 GCTTTTCG
*
62641523 GCATTTCG
1 GCTTTTCG
62641531 GCTTTTCG
1 GCTTTTCG
62641539 GCTTTT
1 GCTTTT
62641545 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:62641606 original size:393 final size:393
Alignment explanation
Indices: 62640877--62641655 Score: 1281
Period size: 393 Copynumber: 2.0 Consensus size: 393
62640867 GGGTATTTTA
* *
62640877 GTGAATTTAACCATTTCAGGGTTTACATTCATATTACTGCCATTAACACATTAAGAGAAACACTT
1 GTGAATTTAACCATTTCAGGGTTTACATTCATATTACTGCCATTAACACATTAACAAAAACACTT
* ** *
62640942 ACCGAGCATTTTTACGGAATTGGGCCCATTGGCCCACTAACCCATTTTCGGCCCATTAAGCCCAA
66 ACCGAGCATTTTTACCGAATTAAGCACATTGGCCCACTAACCCATTTTCGGCCCATTAAGCCCAA
* *
62641007 ATATACCAAAGTGCATGAAATTGCACACTCTGTAGTCATACAGCTTGTGATTACCAAAATTAACA
131 ATATACCAAAGTGCATGAAATTACACACTCTGCAGTCATACAGCTTGTGATTACCAAAATTAACA
* *
62641072 ACCAAACCATCTCACGAGCGCTCTCACGCTCGCAAGTTCACAAAATGCCAGCTTTTCGGCATTTC
196 ACCAAACCATCTCAAGAGCGCTCGCACGCTCGCAAGTTCACAAAATGCCAGCTTTTCGGCATTTC
* * *
62641137 GGCTTTTCAGCTTTTTCCGATCTAGTCTATGAGTGGGTGTTATTTACACACCTAATTTGTGACAA
261 GGCTTTTCAGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCATTTACACACCTAATTTGCGACAA
* *
62641202 CTGCAACCGAAATCTCCCACAATATCCTACAATCGGTCACTAGACATATCAGATCCAAAATTTAA
326 CTGCAACCGAAATCTCCCACAATATCCTAAAATCGGTCACTAGACATATCAGATCAAAAATTTAA
62641267 TTT
391 TTT
62641270 GTGAATTTAACCATTTCAGGGTTTACATTCATATTACTGCCATTAACACATTAACAAAAACACTT
1 GTGAATTTAACCATTTCAGGGTTTACATTCATATTACTGCCATTAACACATTAACAAAAACACTT
* * * *
62641335 ACCGAGCGTTTTTACCGTATTAAG-ACAGTTGGCCTACTAACCCGTTTTCGGCCCATTAAGCCCA
66 ACCGAGCATTTTTACCGAATTAAGCACA-TTGGCCCACTAACCCATTTTCGGCCCATTAAGCCCA
* * *
62641399 AATATATCGAAGTGCATGAAATTACACACTCTGCAGTCATACCGCTTGTGATTACCAAAATTAAC
130 AATATACCAAAGTGCATGAAATTACACACTCTGCAGTCATACAGCTTGTGATTACCAAAATTAAC
*
62641464 AACTAAACCATCTCAAGAGCGCTCGCACGCTCGCAAGTTCACAAAATGCCAGCTTTTCGGCATTT
195 AACCAAACCATCTCAAGAGCGCTCGCACGCTCGCAAGTTCACAAAATGCCAGCTTTTCGGCATTT
* * *
62641529 CGGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGATTTGCGACA
260 CGGCTTTTCAGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCATTTACACACCTAATTTGCGACA
* **
62641594 ACTGCTACCGAAATCTCCCATGATATCCTAAAATCGGTCACTAGACATATCAGATCAAAAAT
325 ACTGCAACCGAAATCTCCCACAATATCCTAAAATCGGTCACTAGACATATCAGATCAAAAAT
62641656 ACAATGGCAA
Statistics
Matches: 356, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
392 2 0.01
393 354 0.99
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (393 bp):
GTGAATTTAACCATTTCAGGGTTTACATTCATATTACTGCCATTAACACATTAACAAAAACACTT
ACCGAGCATTTTTACCGAATTAAGCACATTGGCCCACTAACCCATTTTCGGCCCATTAAGCCCAA
ATATACCAAAGTGCATGAAATTACACACTCTGCAGTCATACAGCTTGTGATTACCAAAATTAACA
ACCAAACCATCTCAAGAGCGCTCGCACGCTCGCAAGTTCACAAAATGCCAGCTTTTCGGCATTTC
GGCTTTTCAGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCATTTACACACCTAATTTGCGACAA
CTGCAACCGAAATCTCCCACAATATCCTAAAATCGGTCACTAGACATATCAGATCAAAAATTTAA
TTT
Found at i:62643203 original size:28 final size:28
Alignment explanation
Indices: 62643157--62643225 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
62643147 TTTAAAACCC
*
62643157 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
62643184 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
62643212 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
62643226 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:62643864 original size:27 final size:27
Alignment explanation
Indices: 62643834--62643892 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
62643824 TTAACACCCT
62643834 AGGGGCAAAAT-GGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTCTACCCTAC
* ** *
62643861 AGGGGTATTTCGGTAATTTTACCCTAC
1 AGGGGAAAATCGGTAATTCTACCCTAC
62643888 AGGGG
1 AGGGG
62643893 TATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (27 bp):
AGGGGAAAATCGGTAATTCTACCCTAC
Found at i:62643893 original size:27 final size:27
Alignment explanation
Indices: 62643845--62643907 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
62643835 GGGGCAAAAT
*
62643845 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
62643872 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
*
62643899 AGTAATTTT
1 GGTAATTTT
62643908 GCAAACCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:62643922 original size:27 final size:27
Alignment explanation
Indices: 62643890--62644042 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
62643880 TACCCTACAG
* *
62643890 GGGTATTTTAGTAATTTTGCAAACCAT
1 GGGTATTTTAGTAATTTTACAAACCAA
** * * *
62643917 CAGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
62643944 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
* **
62643971 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
62643998 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
*
62644025 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
62644043 GTAAATCGAG
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:62643923 original size:54 final size:51
Alignment explanation
Indices: 62643860--62644042 Score: 206
Period size: 54 Copynumber: 3.4 Consensus size: 51
62643850 TTCTACCCTA
* *
62643860 CAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTA-CC-ACA-GGGTATTTTAGTAATTTTACAAAC
*** * *
62643914 CATCAGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAA-TTT-T-ACCACAGGGTATTTTAGTAATTTTACAAAC
62643968 CAGGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAA-TTT-T--ACCACAGGGTATTTTAGTAATTTTACAAAC
62644022 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
62644043 GTAAATCGAG
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.01
53 3 0.03
54 97 0.86
55 9 0.08
56 2 0.02
57 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (51 bp):
CAGGGGTATTTTGGTAATTTTACCACAGGGTATTTTAGTAATTTTACAAAC
Found at i:62644043 original size:54 final size:54
Alignment explanation
Indices: 62643890--62644056 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
62643880 TACCCTACAG
* *** * *
62643890 GGGTATTTTAGTAATTTTGCAAACCATCAGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
62643944 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* *
62643998 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
62644052 GGGTA
1 GGGTA
62644057 AAATAGTAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:62644055 original size:27 final size:27
Alignment explanation
Indices: 62643890--62644164 Score: 165
Period size: 27 Copynumber: 10.2 Consensus size: 27
62643880 TACCCTACAG
* * *
62643890 GGGTATTTTAGTAATTTTGCAAACCAT
1 GGGTATTTTAGTAATTTTGTAAATCAA
** * *
62643917 CAGTATTTTGGTAATTTTATAAA-CAAA
1 GGGTATTTTAGTAATTTTGTAAATC-AA
** * *
62643944 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTGTAAATCAA
* *
62643971 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTGTAAATCAA
** * *
62643998 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTGTAAATCAA
* *
62644025 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCAA
*** *
62644052 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTGTAAATCAA
**** * *
62644079 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTGTAAATCAA
*** * * *
62644106 GGGTAAAATAGTAATTCTGCAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCAA
***** *
62644133 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCAA
62644160 GGGTA
1 GGGTA
62644165 AAACGATAAT
Statistics
Matches: 205, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.00
27 203 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAATCAA
Found at i:62644064 original size:54 final size:54
Alignment explanation
Indices: 62643898--62644167 Score: 220
Period size: 54 Copynumber: 5.0 Consensus size: 54
62643888 AGGGGTATTT
*** * ***
62643898 TAGTAATTTTGCAAACCATCAGTATTTTGGTAATTTTATAAA-CAAAGGGTATTT
1 TAGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGTAAATC-AAGGGTAAAA
* * ***
62643952 TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 TAGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAA
* *
62644006 TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAA
* * * * ***** * *
62644060 TAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAA
* * **** *
62644114 TAGTAATTCTGCAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTTTGCAAACCAG-GGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAA
62644168 CGATAATTAT
Statistics
Matches: 185, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 184 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (54 bp):
TAGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAA
Found at i:62644066 original size:81 final size:81
Alignment explanation
Indices: 62643898--62644164 Score: 230
Period size: 81 Copynumber: 3.3 Consensus size: 81
62643888 AGGGGTATTT
* *** * * *
62643898 TAGTAATTTTGCAAACCATCAGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTA
1 TAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTG
* ***
62643963 CAAA-CCAGGGGTATTT
66 CAAATCGA-GGGTAAAA
* * * *
62643979 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 TAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTG
*
62644044 TAAATCGAGGGTAAAA
66 CAAATCGAGGGTAAAA
* * **** * * *** *
62644060 TAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTG
1 TAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTG
62644125 CAAATCGAGGGTAAAA
66 CAAATCGAGGGTAAAA
** * *
62644141 CGGTAATTTTGTAAATCGAGGGTA
1 TAGTAATTTTGTAAACCAAGGGTA
62644165 AAACGATAAT
Statistics
Matches: 148, Mismatches: 37, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
81 146 0.99
82 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (81 bp):
TAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTG
CAAATCGAGGGTAAAA
Found at i:62644165 original size:27 final size:27
Alignment explanation
Indices: 62644035--62644292 Score: 324
Period size: 27 Copynumber: 9.6 Consensus size: 27
62644025 GGGTATTTTG
* *
62644035 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
62644062 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
62644089 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
62644116 GTAATTCTGCAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
62644143 GTAATTTTGTAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * **
62644169 GATAATTATGTAAATCGGGGGTAAAATG
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
62644197 GTAATTATGTAAATTG-GGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
62644223 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
62644250 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
62644277 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
62644293 GGAGTACTTT
Statistics
Matches: 203, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.12
27 177 0.87
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:62644309 original size:107 final size:107
Alignment explanation
Indices: 62644035--62644298 Score: 309
Period size: 107 Copynumber: 2.5 Consensus size: 107
62644025 GGGTATTTTG
* * * * ** * *
62644035 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGG-GTAAAACAGTAATTCTA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGTAAATC-GGGAGTAAAATGGTAATTATG
** * *
62644098 TAAATCAAGGGTAAAATAGTAATTCTGCAAATCGAGGGTAAAACG
64 TAAAT-TGGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACA
* *
62644143 GTAATTTTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGAGTAAAATGGTAATTATGTA
* *
62644208 AATTGGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATA
66 AATTGGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACA
* *
62644250 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGGGAGTA
1 GTAATTCTGTAAATC-GAGGGTAAAACGATAATTATGTAAATCGGGAGTA
62644299 CTTTTGTAAT
Statistics
Matches: 136, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 78 0.57
108 56 0.41
109 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (107 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGAGTAAAATGGTAATTATGTA
AATTGGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAACA
Found at i:62644336 original size:134 final size:135
Alignment explanation
Indices: 62644036--62644292 Score: 401
Period size: 134 Copynumber: 1.9 Consensus size: 135
62644026 GGTATTTTGG
* *
62644036 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
62644101 ATCAAGGGTAAAATAGTAATTCTGCAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAA
66 ATCAAGGGTAAAATAGTAATTCTGCAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
62644166 AACGA
131 AACGA
* * ** *
62644171 TAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAAT-TGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
* *
62644235 ATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
66 ATCAAGGGTAAAATAGTAATTCTGCAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
62644293 GGAGTACTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
133 1 0.01
134 74 0.67
135 36 0.32
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCAAGGGTAAAATAGTAATTCTGCAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:62648979 original size:29 final size:29
Alignment explanation
Indices: 62648929--62649000 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
62648919 CCCTCGAGCT
* * *
62648929 CGCACAC--AGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
62648956 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62648985 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62649001 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 6 0.16
29 32 0.84
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62656780 original size:28 final size:29
Alignment explanation
Indices: 62656739--62656809 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
62656729 CCCTCGAGCT
62656739 CGCACAC--AGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
62656765 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62656794 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62656810 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.15
28 10 0.25
29 24 0.60
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62660812 original size:27 final size:28
Alignment explanation
Indices: 62660756--62660825 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
62660746 AAATTTGTAC
62660756 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
62660784 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
62660811 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62660826 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:62660836 original size:27 final size:27
Alignment explanation
Indices: 62660756--62660837 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
62660746 AAATTTGTAC
* *
62660756 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
62660784 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
62660811 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
62660838 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:62667798 original size:57 final size:57
Alignment explanation
Indices: 62667683--62667806 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 57
62667673 ATAGAAATGG
* * *
62667683 TGAAAATGGAGAAATGTGAAATATTTGGAAATGATTATGGTCTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAA-GTGAAATATTTAGAAATGAATATGCTCTTCTCCAAAATAAAAA
* * * *
62667741 TGAAAATGGAGAAA-TGAAATCATTTAGAAATGAATGTGCTTTTCTCCTAAATGAAAA
1 TGAAAATGGAGAAAGTGAAAT-ATTTAGAAATGAATATGCTCTTCTCCAAAATAAAAA
62667798 TGAAAATGG
1 TGAAAATGG
62667807 CCTATAAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 6 0.10
57 38 0.66
58 14 0.24
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (57 bp):
TGAAAATGGAGAAAGTGAAATATTTAGAAATGAATATGCTCTTCTCCAAAATAAAAA
Found at i:62678442 original size:43 final size:43
Alignment explanation
Indices: 62678346--62678460 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
62678336 TGGGATGTTA
*
62678346 GCATCGAT-TTGTGATTTACGTGTAAGACCATGTCTGGAACATTG
1 GCATCGATATT-TGATTT-CGTGTAAGACCATGTCTGGAACAGTG
* *
62678390 GCATC-ATATTTGATTTCGTGTAAGACTC-TGTCTGGGATAGTG
1 GCATCGATATTTGATTTCGTGTAAGAC-CATGTCTGGAACAGTG
* *
62678432 GCATCGATATTTGATTACATGTAAGACCA
1 GCATCGATATTTGATTTCGTGTAAGACCA
62678461 CATCTGGGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
42 27 0.44
43 28 0.45
44 7 0.11
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
GCATCGATATTTGATTTCGTGTAAGACCATGTCTGGAACAGTG
Found at i:62678478 original size:43 final size:43
Alignment explanation
Indices: 62678306--62678478 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 43
62678296 ACATAGGATT
* * * * *
62678306 TCGATATGTG-TTATCGTGTAAGACAACATTTGGGATGTTAGCA
1 TCGATATTTGATTA-CGTGTAAGACCACATCTGGGACGTTGGCA
** * *
62678349 TCGAT-TTGTGATTTACGTGTAAGACCATGTCTGGAACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACATCTGGGACGTTGGCA
* ** *
62678393 TC-ATATTTGATTTCGTGTAAGACTC-TGTCTGGGATAG-TGGCA
1 TCGATATTTGATTACGTGTAAGAC-CACATCTGGGA-CGTTGGCA
* *
62678435 TCGATATTTGATTACATGTAAGACCACATCTGGGACGTGGGCA
1 TCGATATTTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
62678478 T
1 T
62678479 TATACGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 30 0.29
43 44 0.43
44 25 0.25
45 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
Found at i:62685350 original size:43 final size:43
Alignment explanation
Indices: 62685283--62685438 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
62685273 TACCGTACCA
62685283 ATGCC-ATATCCCAGATATGATCTTACATGGAA-TCTCATATCG
1 ATGCCAATATCCCAGATATGATCTTACAT-GAAGTCTCATATCG
* * * * *
62685325 ATGCCAATAACCCAGCTATGGTCTTACACGAAGTCTCATATAG
1 ATGCCAATATCCCAGATATGATCTTACATGAAGTCTCATATCG
* * * * *
62685368 ATGCCAATAGCCCTGCTATCATCTTACATGAAGTCTCATATCA
1 ATGCCAATATCCCAGATATGATCTTACATGAAGTCTCATATCG
* *
62685411 ATGCCAATATCCCATATATGGTCTTACA
1 ATGCCAATATCCCAGATATGATCTTACA
62685439 CGTAATCTTA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
42 8 0.09
43 86 0.91
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGCCAATATCCCAGATATGATCTTACATGAAGTCTCATATCG
Found at i:62694964 original size:40 final size:40
Alignment explanation
Indices: 62694888--62694992 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
62694878 ATGTCCGGGA
* *
62694888 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAATCCGGAC
** **
62694928 TAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGAC
*
62694968 TAAGTCCCGAAGGCATTTATGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAG
62694993 CTATTACAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGAC
Found at i:62698430 original size:27 final size:26
Alignment explanation
Indices: 62698382--62698441 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
62698372 GCGAGGCTGC
*
62698382 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
62698409 CAGATATTGTGGCTAGGCCACCAGAG
1 CAGATATTGTGACGAAGCCACCAGAA
62698435 CAGATAT
1 CAGATAT
62698442 ATACATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.