Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 85 of 204
Found at i:26077197 original size:11 final size:11
Alignment explanation
Indices: 26077175--26077252 Score: 86
Period size: 11 Copynumber: 6.9 Consensus size: 11
26077165 TTCCACTTTT
*
26077175 TCAATTCACTC
1 TCAATTCTCTC
26077186 TCAACTCTCTCTC
1 TCAA-T-TCTCTC
26077199 TCAATTCAT-TC
1 TCAATTC-TCTC
26077210 TCAATTCTCTC
1 TCAATTCTCTC
26077221 TCAATTCTCTC
1 TCAATTCTCTC
* *
26077232 TTAATTCTCAC
1 TCAATTCTCTC
*
26077243 TTAATTCTCT
1 TCAATTCTCT
26077253 TAGCTCAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.02
11 46 0.78
12 3 0.05
13 9 0.15
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:26077300 original size:25 final size:24
Alignment explanation
Indices: 26077265--26077320 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
26077255 GCTCAGTCTC
26077265 ATTTTTTATTAAATTCGTATTAAG
1 ATTTTTTATTAAATTCGTATTAAG
* * *
26077289 GTTTTTTAATTAAATTTGTATTACG
1 ATTTTTT-ATTAAATTCGTATTAAG
26077314 ATTTTTT
1 ATTTTTT
26077321 TCATATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.59
Consensus pattern (24 bp):
ATTTTTTATTAAATTCGTATTAAG
Found at i:26078579 original size:21 final size:23
Alignment explanation
Indices: 26078554--26078595 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26078544 AAGTATACAT
26078554 ATTTTTT-AAA-ATTTATTTTCA
1 ATTTTTTGAAATATTTATTTTCA
26078575 ATTTTTTGAAATATTTATTTT
1 ATTTTTTGAAATATTTATTTT
26078596 AACGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTTGAAATATTTATTTTCA
Found at i:26078603 original size:23 final size:22
Alignment explanation
Indices: 26078555--26078604 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
26078545 AGTATACATA
* *
26078555 TTTTTTAAAATTTATTTTCAAT
1 TTTTTGAAAATTTATTTTCAAG
26078577 TTTTTGAAATATTTATTTT-AACG
1 TTTTTGAAA-ATTTATTTTCAA-G
26078600 TTTTT
1 TTTTT
26078605 AGTATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTGAAAATTTATTTTCAAG
Found at i:26078646 original size:11 final size:11
Alignment explanation
Indices: 26078630--26078660 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26078620 TATATATATT
26078630 TAAAAATTATA
1 TAAAAATTATA
*
26078641 TAAAAATAATA
1 TAAAAATTATA
26078652 TAAAAATTA
1 TAAAAATTA
26078661 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:26078657 original size:12 final size:11
Alignment explanation
Indices: 26078630--26078664 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
26078620 TATATATATT
*
26078630 TAAAAATTATA
1 TAAAAATAATA
26078641 TAAAAATAATA
1 TAAAAATAATA
26078652 TAAAAATTAATA
1 TAAAAA-TAATA
26078664 T
1 T
26078665 GGGTGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:26084540 original size:51 final size:52
Alignment explanation
Indices: 26084461--26084572 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 52
26084451 TATAGTGATT
* *
26084461 CAGGTGTG-TTCTGGGGGGGACGTGTAGCCTACGGGCTTGGCACTTAGTGCC
1 CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
* * *
26084512 CAGGTGTGTTTCT-GGAGGGATGTTTAGCCTATGGGATTGGCACTTAGTGCC
1 CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
26084563 CAGGTGTGTT
1 CAGGTGTGTT
26084573 CTTGGATGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 51 0.93
52 4 0.07
ACGTcount: A:0.13, C:0.18, G:0.38, T:0.30
Consensus pattern (52 bp):
CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
Found at i:26090406 original size:17 final size:17
Alignment explanation
Indices: 26090351--26090406 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
26090341 TTCCTGATTG
* *
26090351 GTTTATTAATTTTAGTC
1 GTTTATTTATTTTAGTT
*
26090368 GTTTGTTTATTTTTA-TT
1 GTTTATTTA-TTTTAGTT
26090385 GTTTATTTATTTTAGTT
1 GTTTATTTATTTTAGTT
*
26090402 ATTTA
1 GTTTA
26090407 AATCTCTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 5 0.16
17 22 0.69
18 5 0.16
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.68
Consensus pattern (17 bp):
GTTTATTTATTTTAGTT
Found at i:26095310 original size:23 final size:23
Alignment explanation
Indices: 26095277--26095354 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
26095267 CTCTAAATTC
* *
26095277 CAAAAATCCTTACAAACCTTAAA
1 CAAAAACCCTTAAAAACCTTAAA
*
26095300 CAAAAACCCTTAAAAATCCCTAAA
1 CAAAAACCCTTAAAAA-CCTTAAA
*** *
26095324 CCTTAACCC-TAAAAAACTTAAA
1 CAAAAACCCTTAAAAACCTTAAA
26095346 -AAAAACCCT
1 CAAAAACCCT
26095355 AAATGAACCG
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 20 0.48
24 12 0.29
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (23 bp):
CAAAAACCCTTAAAAACCTTAAA
Found at i:26095710 original size:16 final size:16
Alignment explanation
Indices: 26095685--26095715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26095675 TACGTCTTTA
26095685 ATTTTCATAACTCAAC
1 ATTTTCATAACTCAAC
*
26095701 ATTTTTATAACTCAA
1 ATTTTCATAACTCAA
26095716 AAATGCCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTTCATAACTCAAC
Found at i:26103119 original size:20 final size:20
Alignment explanation
Indices: 26103094--26103135 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
26103084 ATGGCATGGA
26103094 CTAAGTGAGGAAGATGATGT
1 CTAAGTGAGGAAGATGATGT
26103114 CTAAGTGAGGAAGATGATGT
1 CTAAGTGAGGAAGATGATGT
26103134 CT
1 CT
26103136 TCATATTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (20 bp):
CTAAGTGAGGAAGATGATGT
Found at i:26104730 original size:25 final size:25
Alignment explanation
Indices: 26104696--26104831 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 25
26104686 TGGGCCTTGG
*
26104696 GCCTTTGTGGCAAGTTATCTGAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
* **
26104721 GCCTATGTGGCGTA-TTA-CTTGGGGAA
1 GCCTATGTGGC-AAGTTATC-T-GAAAA
* *
26104747 -CCTTTGTGGCAAGTTATCTAAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
* ***
26104771 GTCTATGTGGCATA-TTA-CTTGGGGA
1 GCCTATGTGGCA-AGTTATC-TGAAAA
* * *
26104796 GCCTTTGTGGTAAGTTATTTGAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
26104821 GCCTATGTGGC
1 GCCTATGTGGC
26104832 GTATTATTTG
Statistics
Matches: 77, Mismatches: 24, Indels: 20
0.64 0.20 0.17
Matches are distributed among these distances:
24 6 0.08
25 65 0.84
26 6 0.08
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATCTGAAAA
Found at i:26104872 original size:50 final size:50
Alignment explanation
Indices: 26104696--26104860 Score: 249
Period size: 50 Copynumber: 3.3 Consensus size: 50
26104686 TGGGCCTTGG
26104696 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
* * * *
26104746 ACCTTTGTGGCAAGTTATCTAAAAAGTCTATGTGGCATATTACTTGGGGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
* * * *
26104796 GCCTTTGTGGTAAGTTATTTGAAAAGCCTATGTGGCGTATTATTTGGCGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
*
26104846 GCCCTTGTGGCAAGT
1 GCCTTTGTGGCAAGT
26104861 CATTTAGAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (50 bp):
GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
Found at i:26108509 original size:42 final size:42
Alignment explanation
Indices: 26108461--26108558 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
26108451 GTGTTCCCAC
*
26108461 CCGTGTAACTCACTGAGTAGCCTCACATG-CTCGTGTGCTAAG
1 CCGTGTAACTCACTGAGTAGCCACACATGCCT-GTGTGCTAAG
* * * * *
26108503 CTGTGTAACTCTCTGAGTTGCCACACATGCCTGTGTGTTAGG
1 CCGTGTAACTCACTGAGTAGCCACACATGCCTGTGTGCTAAG
26108545 CCGTGTAACTCACT
1 CCGTGTAACTCACT
26108559 AACTTAAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (42 bp):
CCGTGTAACTCACTGAGTAGCCACACATGCCTGTGTGCTAAG
Found at i:26112154 original size:18 final size:18
Alignment explanation
Indices: 26112131--26112165 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26112121 TAACACCCCT
26112131 AACCCGTCTCTGATATCG
1 AACCCGTCTCTGATATCG
*
26112149 AACCCGTCTCTGTTATC
1 AACCCGTCTCTGATATC
26112166 AGACTAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (18 bp):
AACCCGTCTCTGATATCG
Found at i:26121576 original size:27 final size:27
Alignment explanation
Indices: 26121291--26121566 Score: 421
Period size: 27 Copynumber: 10.2 Consensus size: 27
26121281 AGCGGTCAAT
* *
26121291 AAATGACCGAAATATCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
26121318 AAATGATCAAAATA-CCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
26121344 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
26121371 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * *
26121398 AAATGACCGAAATATCCCTATAAGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
26121425 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
26121452 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
26121479 AAATGATCAAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
26121506 AAATGATCGAAATACCCTCCATAGGGTA
1 AAATGATCGAAATACCC-CCATAGGGTA
26121534 AAATGA-CTGAAATACCCCCATAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
26121561 AAATGA
1 AAATGA
26121567 CTGTTATACC
Statistics
Matches: 229, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
26 24 0.10
27 180 0.79
28 25 0.11
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:26121955 original size:28 final size:28
Alignment explanation
Indices: 26121914--26121995 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
26121904 CACTTTACTG
*
26121914 TTATTGTATTGGGCTAAGGCCCACACTA
1 TTATTGTATCGGGCTAAGGCCCACACTA
* * *
26121942 TTATTGTATGGGGCTAAGGCTCACACTG
1 TTATTGTATCGGGCTAAGGCCCACACTA
* * *
26121970 TTACTGTATCAGGCT-AGTCCCACACT
1 TTATTGTATCGGGCTAAGGCCCACACT
26121996 GTACTGATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (28 bp):
TTATTGTATCGGGCTAAGGCCCACACTA
Found at i:26155952 original size:19 final size:20
Alignment explanation
Indices: 26155908--26155976 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
26155898 GGGTAACTGA
* *
26155908 CACATAAAGTGCATA-CTAG
1 CACACAAAGTGCATATCTGG
**
26155927 CGTACAAAGTGCAT-TCTGG
1 CACACAAAGTGCATATCTGG
* *
26155946 CACACAAAGCGCATATTTGG
1 CACACAAAGTGCATATCTGG
26155966 CACACAAAGTG
1 CACACAAAGTG
26155977 TATTGCATGC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
CACACAAAGTGCATATCTGG
Found at i:26155968 original size:20 final size:19
Alignment explanation
Indices: 26155930--26155974 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
26155920 ATACTAGCGT
*
26155930 ACAAAGTGCATTCTGGCAC
1 ACAAAGCGCATTCTGGCAC
*
26155949 ACAAAGCGCATATTTGGCAC
1 ACAAAGCGCAT-TCTGGCAC
26155969 ACAAAG
1 ACAAAG
26155975 TGTATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (19 bp):
ACAAAGCGCATTCTGGCAC
Found at i:26158189 original size:297 final size:291
Alignment explanation
Indices: 26157811--26158382 Score: 761
Period size: 297 Copynumber: 1.9 Consensus size: 291
26157801 AATTAATTGA
* * * *
26157811 GATAATAAATTGTGCATATTAAAAAATGTATAAAGGAAATTAAAATAAATCTTTGGTTGAATTGT
1 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAATCTTTAGTTGAATGGC
* *
26157876 AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAGTCTCACCATATACATATTTTTCTTG
66 AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTTG
* *
26157941 GTTTTATGTTAAAATGAAAAGACTAAAATACCATCGAATAATAGGAATTATTTTTAATTATGAAA
131 GTTTT-TGTTAAAATGAAAAGACTAAAATACCATCGAATAAT--GAATT-GTTTTAATTACGAAA
* ** * *
26158006 GTAAATTTCCGTAATTTTCTAACTGAGTTGGTATC-CGATTAACCCTTCACACCAACTCAGTTAG
192 GGAAATTTCCGTAATTTTCTAACCAAGTTGATA-CACGATTAACCCGTCACACCAACTCAGTTAG
*
26158070 GGGTTTTATTAATAGTATAAATATATATAAGTGGTGTG
256 GGG-TTTATT-ACAGTATAAATATATATAAGTGGTGTG
* *
26158108 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGACATTAAAATAAAAT-TTTAGTTGAGTGG
1 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAAT-AAATCTTTAGTTGAATGG
* * * * ** *
26158172 CAAATTTAAGGTTTTACTATTCTAATTGGTGTGGGTTCAAATCCCATCATATACATATTTTTCTT
65 CAAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTT
* * * * *
26158237 GGTTTTTGTTAAAATGAAAAGACTAAAATACCCTTGAATAATGACTTGTTTTAGTTACGGAAGGA
130 GGTTTTTGTTAAAATGAAAAGACTAAAATACCATCGAATAATGAATTGTTTTAATTACGAAAGGA
* * * * *
26158302 CATTTCTGTAATTTTCTAACCAAGTTGATACATGATTAACCCGTGACACCAACTCAGTTTGGGGT
195 AATTTCCGTAATTTTCTAACCAAGTTGATACACGATTAACCCGTCACACCAACTCAGTTAGGGGT
26158367 TTATTACAGTATAAAT
260 TTATTACAGTATAAAT
26158383 GATAAACTTT
Statistics
Matches: 240, Mismatches: 33, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
291 10 0.04
292 7 0.03
293 66 0.28
294 4 0.02
296 34 0.14
297 115 0.48
298 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (291 bp):
GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAATCTTTAGTTGAATGGC
AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTTG
GTTTTTGTTAAAATGAAAAGACTAAAATACCATCGAATAATGAATTGTTTTAATTACGAAAGGAA
ATTTCCGTAATTTTCTAACCAAGTTGATACACGATTAACCCGTCACACCAACTCAGTTAGGGGTT
TATTACAGTATAAATATATATAAGTGGTGTG
Found at i:26161151 original size:24 final size:24
Alignment explanation
Indices: 26161094--26161154 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
26161084 AAAGAGCCTA
* * *
26161094 TAACAAGTAGCTCCGAAGAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
26161118 TAACGAGTAGCTCCAAAAAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
* *
26161142 TAATGGGTAGCTC
1 TAACGAGTAGCTC
26161155 TGAAGAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (24 bp):
TAACGAGTAGCTCCAAAAAGCAAT
Found at i:26163765 original size:26 final size:26
Alignment explanation
Indices: 26163707--26163781 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
26163697 ACCAATATTG
* * *
26163707 CAGCAAAGTTGCCAGTAATAGTGACG
1 CAGCAAAGTTGCCAGTAACAGTAACA
* *
26163733 CAACAAAGTTGCCAGTAGCAGTAACA
1 CAGCAAAGTTGCCAGTAACAGTAACA
* *
26163759 CAGCAAAGCTGCCAATAACAGTA
1 CAGCAAAGTTGCCAGTAACAGTA
26163782 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CAGCAAAGTTGCCAGTAACAGTAACA
Found at i:26163943 original size:27 final size:27
Alignment explanation
Indices: 26163924--26164313 Score: 451
Period size: 27 Copynumber: 14.4 Consensus size: 27
26163914 GGGTATAACA
26163924 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
26163951 GTCATTTTACCCTT-TAGGGGTATTTCG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* *
26163978 GTCATTTTACCCCTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
26164005 GTCATTTTACCCTTCGATGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
26164032 ATCATTTTACCCATCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
26164059 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
26164086 ATCATTTTATCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* **
26164113 GTCATTTTACCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
26164140 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * **
26164167 GTTATTTTACCCTTCAAGGATATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
26164194 ATCATTTTAGCCTTCAAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
26164221 GTCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * ** * *
26164248 ATTATTTTACTGTTTGAGCGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
26164275 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
26164302 GTCATTTTACCC
1 GTCATTTTACCC
26164314 ATGAATCGTA
Statistics
Matches: 302, Mismatches: 59, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 2 0.01
27 299 0.99
28 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:26171642 original size:26 final size:26
Alignment explanation
Indices: 26171575--26171643 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 26
26171565 TAGAAAGCAC
* *
26171575 CAAATAGCCATATAACGGGAAGTTCA
1 CAAAGAGCCATATAACGGGAAGCTCA
** *
26171601 -AGCGAG-CA-CTAACGGGAAGCTCA
1 CAAAGAGCCATATAACGGGAAGCTCA
26171624 CAAAGAGCCATATAACGGGA
1 CAAAGAGCCATATAACGGGA
26171644 CGCTTATAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
23 13 0.41
24 6 0.19
25 5 0.16
26 8 0.25
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.13
Consensus pattern (26 bp):
CAAAGAGCCATATAACGGGAAGCTCA
Found at i:26176667 original size:37 final size:38
Alignment explanation
Indices: 26176616--26176700 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 38
26176606 AATAAACTCT
* *
26176616 TAATCCTAGCCCTAGATTTAAA-CCTAAAGATATCTCA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
* *
26176653 TAATCCTAGTCCTAGATTTAAATCCTAAAGGTAACTAA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
26176691 TAATCCTAGC
1 TAATCCTAGC
26176701 TATCTATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (38 bp):
TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
Found at i:26180410 original size:19 final size:18
Alignment explanation
Indices: 26180376--26180434 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
26180366 TTTAGGAAAC
*
26180376 TTTATAAATGTTTTGAAT
1 TTTATAAATATTTTGAAT
26180394 TTTATAAATAATTTTGAAAT
1 TTTATAAAT-ATTTTG-AAT
* *
26180414 TTGA-AAATTATCTTGAAT
1 TTTATAAA-TATTTTGAAT
26180432 TTT
1 TTT
26180435 TTTTGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.41
19 13 0.38
20 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTATAAATATTTTGAAT
Found at i:26185536 original size:30 final size:30
Alignment explanation
Indices: 26185497--26185561 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
26185487 AAGTATTGGG
*
26185497 GAAGTTTAAGCAATTTTACCTTTTCCTAAT
1 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
26185527 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
1 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
26185557 GAAGC
1 GAAGC
26185562 CAAATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (30 bp):
GAAGCTTAAGCAATTTTACCTTTTCCTAAT
Found at i:26185704 original size:14 final size:15
Alignment explanation
Indices: 26185687--26185721 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
26185677 TTTTTCATTT
26185687 TTTTTATTT-TTAAG
1 TTTTTATTTATTAAG
*
26185701 TTTTTATTTATTTAG
1 TTTTTATTTATTAAG
26185716 TTTTTA
1 TTTTTA
26185722 AGTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTATTTATTAAG
Found at i:26185704 original size:23 final size:23
Alignment explanation
Indices: 26185678--26185725 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26185668 GATTTGTCCT
*
26185678 TTTTCATTTTTTTTA-TTTTTAAG
1 TTTTCA-TTTATTTAGTTTTTAAG
*
26185701 TTTTTATTTATTTAGTTTTTAAG
1 TTTTCATTTATTTAGTTTTTAAG
26185724 TT
1 TT
26185726 ATTTTTGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTCATTTATTTAGTTTTTAAG
Found at i:26185843 original size:35 final size:33
Alignment explanation
Indices: 26185794--26185873 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 33
26185784 ATTTGAAATG
*
26185794 TTTTATAATTTTTTTTAAAATTTTAAATATATATT
1 TTTTA-AATTTTTTTTAAAATTTGAAATAT-TATT
26185829 TTTTAAATTATTTTTTAAAATTTGAAATATTATT
1 TTTTAAATT-TTTTTTAAAATTTGAAATATTATT
26185863 TTTTAAATTTT
1 TTTTAAATTTT
26185874 AAATATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 2 0.05
34 17 0.40
35 24 0.56
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTTAAATTTTTTTTAAAATTTGAAATATTATT
Found at i:26185851 original size:22 final size:20
Alignment explanation
Indices: 26185828--26185886 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
26185818 AAATATATAT
26185828 TTTTTAAATTATTTTTTAAAA
1 TTTTTAAATTATTTTTT-AAA
**
26185849 TTTGAAATATTATTTTTTAAA
1 TTTTTAA-ATTATTTTTTAAA
26185870 -TTTTAAATATATTTTTT
1 TTTTTAAAT-TATTTTTT
26185887 TAATAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 8 0.25
22 10 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAATTATTTTTTAAA
Found at i:26185887 original size:21 final size:21
Alignment explanation
Indices: 26185829--26185889 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
26185819 AATATATATT
*
26185829 TTTTAAAT-TATTTTTTAAAA
1 TTTTAAATATATTTTTTTAAA
*
26185849 TTTGAAATAT-TATTTTTTAAA
1 TTTTAAATATAT-TTTTTTAAA
26185870 TTTTAAATATATTTTTTTAA
1 TTTTAAATATATTTTTTTAA
26185890 TAATATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.23
21 26 0.74
22 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTAAATATATTTTTTTAAA
Found at i:26185898 original size:22 final size:21
Alignment explanation
Indices: 26185830--26185898 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
26185820 ATATATATTT
26185830 TTTAAAT-TA-TTTTTTAAAA
1 TTTAAATATATTTTTTTAAAA
*
26185849 TTTGAAATAT-TATTTTTTAAAT
1 TTT-AAATATAT-TTTTTTAAAA
26185871 TTTAAATATATTTTTTTAATAA
1 TTTAAATATATTTTTTTAA-AA
*
26185893 TATAAA
1 TTTAAA
26185899 ACATTTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.07
20 4 0.10
21 15 0.37
22 19 0.46
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
TTTAAATATATTTTTTTAAAA
Found at i:26186011 original size:16 final size:15
Alignment explanation
Indices: 26185947--26186014 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 15
26185937 TTATTTGTTC
*
26185947 TTATAATATTTTAAA
1 TTATAATTTTTTAAA
26185962 TATATATATTAATTTTAAA
1 T-TATA-ATT--TTTTAAA
26185981 -TATAATTTTTATAAA
1 TTATAATTTTT-TAAA
26185996 TTATTAATTTTTTAAA
1 TTA-TAATTTTTTAAA
26186012 TTA
1 TTA
26186015 ATTTTAAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
14 3 0.07
15 5 0.11
16 16 0.36
17 14 0.31
19 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATTTTTTAAA
Found at i:26190252 original size:23 final size:20
Alignment explanation
Indices: 26190224--26190282 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 20
26190214 ATATATTTTA
26190224 AAATAAAGTCATAATTTTTTAAC
1 AAATAAA-TCAT--TTTTTTAAC
26190247 AAATAAATTC-TTTTTTTAAC
1 AAATAAA-TCATTTTTTTAAC
26190267 AAATAAATCATTTTTT
1 AAATAAATCATTTTTT
26190283 AAATTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.06
20 22 0.65
22 1 0.03
23 9 0.26
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATAAATCATTTTTTTAAC
Found at i:26190261 original size:20 final size:19
Alignment explanation
Indices: 26190237--26190284 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
26190227 TAAAGTCATA
26190237 ATTTTTTAACAAATAAATTC
1 ATTTTTTAACAAATAAA-TC
*
26190257 TTTTTTTAACAAATAAATC
1 ATTTTTTAACAAATAAATC
26190276 ATTTTTTAA
1 ATTTTTTAA
26190285 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTTTAACAAATAAATC
Found at i:26190532 original size:21 final size:20
Alignment explanation
Indices: 26190506--26190544 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26190496 ATTATTAAAA
26190506 AATATTTAAAATTTAAAAATT
1 AATATTT-AAATTTAAAAATT
26190527 AATATTTAAATTTAAAAA
1 AATATTTAAATTTAAAAA
26190545 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATTTAAATTTAAAAATT
Found at i:26190554 original size:21 final size:21
Alignment explanation
Indices: 26190505--26190559 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
26190495 TATTATTAAA
*
26190505 AAATATTTAAAATTTAAAAAT
1 AAATATTTAAAATTTAAAAAC
*
26190526 TAATATTT-AAATTTAAAAAC
1 AAATATTTAAAATTTAAAAAC
26190546 AAATAATTTTAAAA
1 AAAT-A-TTTAAAA
26190560 ATATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 14 0.50
21 8 0.29
22 3 0.11
23 3 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATTTAAAATTTAAAAAC
Found at i:26190591 original size:20 final size:18
Alignment explanation
Indices: 26190502--26190590 Score: 76
Period size: 18 Copynumber: 4.8 Consensus size: 18
26190492 TTATATTATT
26190502 AAAAAATATTTAAAATTTA
1 AAAAAATATTTAAAA-TTA
*
26190521 AAAATTAATATTTAAATTTA
1 AAAA--AATATTTAAAATTA
**
26190541 AAAACAA-A--TAATTTTA
1 AAAA-AATATTTAAAATTA
*
26190557 AAAATATATTTAAAATTA
1 AAAAAATATTTAAAATTA
26190575 AAAAAATATTATAAAA
1 AAAAAATATT-TAAAA
26190591 AGTTTCAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 12 0.21
18 16 0.28
19 11 0.19
20 7 0.12
21 10 0.18
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATATTTAAAATTA
Found at i:26190700 original size:23 final size:23
Alignment explanation
Indices: 26190658--26190715 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 23
26190648 AAATAAGGAC
*
26190658 AAATAAAAATACTTAAAAAGTAAAT
1 AAATAAAAATA-TTAAAAAG-AAAA
26190683 AAATAAAAAT-TTAAAAAGAAAA
1 AAATAAAAATATTAAAAAGAAAA
26190705 AAATGAAAAAT
1 AAAT-AAAAAT
26190716 GACAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 7 0.23
23 14 0.45
25 10 0.32
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (23 bp):
AAATAAAAATATTAAAAAGAAAA
Found at i:26191672 original size:14 final size:15
Alignment explanation
Indices: 26191636--26191678 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
26191626 TTATATAAAA
*
26191636 ATAATAAATTTTAAT
1 ATAATAAATTTTATT
26191651 A-AATAAATTTTATT
1 ATAATAAATTTTATT
26191665 ATAA-AAATGTTTAT
1 ATAATAAAT-TTTAT
26191679 GCATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATAATAAATTTTATT
Found at i:26193534 original size:10 final size:10
Alignment explanation
Indices: 26193519--26193547 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
26193509 GAATGAACGA
26193519 AAAGAAAAAG
1 AAAGAAAAAG
26193529 AAAGAAAAAG
1 AAAGAAAAAG
26193539 AAAGAAAAA
1 AAAGAAAAA
26193548 AAATCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:26193556 original size:20 final size:20
Alignment explanation
Indices: 26193519--26193556 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26193509 GAATGAACGA
*
26193519 AAAGAAAAAGAAAGAAAAAG
1 AAAGAAAAAGAAACAAAAAG
26193539 AAAGAAAAA-AAATCAAAA
1 AAAGAAAAAGAAA-CAAAA
26193557 TCAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGAAACAAAAAG
Found at i:26193677 original size:15 final size:14
Alignment explanation
Indices: 26193652--26193683 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
26193642 TTGTTTTTAG
26193652 TAAAAAAATAATAA
1 TAAAAAAATAATAA
26193666 TAAAAGAAATAATAA
1 TAAAA-AAATAATAA
26193681 TAA
1 TAA
26193684 TATCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:26204255 original size:53 final size:54
Alignment explanation
Indices: 26204198--26204309 Score: 138
Period size: 53 Copynumber: 2.1 Consensus size: 54
26204188 CCCTAAAACA
* * **
26204198 TTTTTCTTTTACTTTTCC-CCAAAACTTTTACTTCCTCCAAACCTTTAAAAC-TT
1 TTTTTCCTTT-CTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
* * *
26204251 TTTTTCCTTTGTTTTCCTCCAAAACTTTTATTTCCCCCAAATCTCAAAAACATT
1 TTTTTCCTTTCTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
26204305 TTTTT
1 TTTTT
26204310 TTCGAATTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 6 0.12
53 37 0.74
54 7 0.14
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (54 bp):
TTTTTCCTTTCTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
Found at i:26205509 original size:12 final size:12
Alignment explanation
Indices: 26205492--26205525 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
26205482 TCATTAATCG
*
26205492 ATAAACGAGTCA
1 ATAAACGAGCCA
26205504 ATAAACGAGCCA
1 ATAAACGAGCCA
26205516 ATAAACGAGC
1 ATAAACGAGC
26205526 TTTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.12
Consensus pattern (12 bp):
ATAAACGAGCCA
Found at i:26210308 original size:14 final size:15
Alignment explanation
Indices: 26210273--26210313 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
26210263 TATTTTAAGG
*
26210273 TTTAGGGAGTATAGA
1 TTTAGGGATTATAGA
26210288 TTTAGGGATTATAGA
1 TTTAGGGATTATAGA
26210303 -TTAGGGATTAT
1 TTTAGGGATTAT
26210314 GGTTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
TTTAGGGATTATAGA
Found at i:26210976 original size:47 final size:49
Alignment explanation
Indices: 26210925--26211023 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 49
26210915 AAATGAAATA
*
26210925 AAAACACTAAAATTTATAA-TTTTATCTA-AAAT-TTATAAATATTAGTT
1 AAAACACTAAAATTTATAAGTTTTAT-TACAAATATTATAAATATTACTT
*
26210972 AAAACACTAAAATTTATAAGTTTTATTACTATATATTATAAATATTACTT
1 AAAACACTAAAATTTATAAGTTTTATTAC-AAATATTATAAATATTACTT
26211022 AA
1 AA
26211024 CAAAACTATG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
47 21 0.46
48 6 0.13
49 3 0.07
50 16 0.35
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (49 bp):
AAAACACTAAAATTTATAAGTTTTATTACAAATATTATAAATATTACTT
Found at i:26212326 original size:11 final size:11
Alignment explanation
Indices: 26212310--26212335 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26212300 ATTTTTTTAA
26212310 TTTTAAAATAC
1 TTTTAAAATAC
26212321 TTTTAAAATAC
1 TTTTAAAATAC
26212332 TTTT
1 TTTT
26212336 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:26212347 original size:9 final size:9
Alignment explanation
Indices: 26212333--26212406 Score: 55
Period size: 8 Copynumber: 8.0 Consensus size: 9
26212323 TTAAAATACT
26212333 TTTTTTAAA
1 TTTTTTAAA
26212342 TTTTTTAAA
1 TTTTTTAAA
*
26212351 -TTTTAAAA
1 TTTTTTAAA
26212359 TTTTTTTAAAA
1 -TTTTTT-AAA
26212370 TACTTTTT-AA
1 T--TTTTTAAA
*
26212380 TTTTTTTAA
1 TTTTTTAAA
*
26212389 -TTTTAAAA
1 TTTTTTAAA
26212397 TATTTTTAAA
1 T-TTTTTAAA
26212407 ATACTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
8 18 0.35
9 11 0.21
10 15 0.29
11 3 0.06
12 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:26212383 original size:79 final size:79
Alignment explanation
Indices: 26212289--26212440 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
26212279 CGAATATAAT
*
26212289 AAATATTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAATT-T-TTTAAAT
1 AAATATTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATAC-TTTTTTAAATTATGTTTAAAT
26212352 TTTAAAATTTTTTTA
65 TTTAAAATTTTTTTA
* *
26212367 AAATACTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTATGGTTTAAA
1 AAATA-TTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAATTAT-GTTTAAA
26212432 TTTTAAAAT
64 TTTTAAAAT
26212441 AAATTTTTGG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
78 15 0.22
79 37 0.55
81 15 0.22
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (79 bp):
AAATATTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAATTATGTTTAAATT
TTAAAATTTTTTTA
Found at i:26212391 original size:38 final size:39
Alignment explanation
Indices: 26212289--26212441 Score: 195
Period size: 38 Copynumber: 3.8 Consensus size: 39
26212279 CGAATATAAT
* *
26212289 AAATA-TTTTTTATTTTTT-TAATTTTAAAATACTTTTA
1 AAATACTTTTTTAATTTTTTTAATTTTAAAATATTTTTA
* *
26212326 AAATACTTTTTTTAAATTTTTTAAATTTTAAAATTTTTTTA
1 AAATAC-TTTTTT-AATTTTTTTAATTTTAAAATATTTTTA
26212367 AAATAC-TTTTTAATTTTTTTAATTTTAAAATATTTTTA
1 AAATACTTTTTTAATTTTTTTAATTTTAAAATATTTTTA
26212405 AAATACTTTTTTAATTTATGGTTTAAATTTTAAAATA
1 AAATACTTTTTTAATTT-T--TTT-AATTTTAAAATA
26212442 AATTTTTGGT
Statistics
Matches: 101, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
37 5 0.05
38 31 0.31
39 21 0.21
40 7 0.07
41 22 0.22
42 3 0.03
43 12 0.12
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (39 bp):
AAATACTTTTTTAATTTTTTTAATTTTAAAATATTTTTA
Found at i:26212392 original size:8 final size:9
Alignment explanation
Indices: 26212332--26212392 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
26212322 TTTAAAATAC
26212332 TTTTTTTAA
1 TTTTTTTAA
*
26212341 ATTTTTTAA
1 TTTTTTTAA
* **
26212350 ATTTTAAAA
1 TTTTTTTAA
26212359 TTTTTTTAAAA
1 TTTTTTT--AA
*
26212370 TACTTTTTAA
1 T-TTTTTTAA
26212380 TTTTTTTAA
1 TTTTTTTAA
26212389 TTTT
1 TTTT
26212393 AAAATATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
9 30 0.73
10 3 0.07
11 3 0.07
12 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:26212726 original size:16 final size:16
Alignment explanation
Indices: 26212707--26212745 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
26212697 GCACTCGTGG
*
26212707 ACCGTCACAGGCCTCT
1 ACCGTCACACGCCTCT
*
26212723 ACCGTCACACTCCTCT
1 ACCGTCACACGCCTCT
26212739 ACCGTCA
1 ACCGTCA
26212746 GAGAAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.46, G:0.13, T:0.21
Consensus pattern (16 bp):
ACCGTCACACGCCTCT
Found at i:26213802 original size:204 final size:204
Alignment explanation
Indices: 26213452--26213863 Score: 815
Period size: 204 Copynumber: 2.0 Consensus size: 204
26213442 GTTACGTTCT
26213452 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
1 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
26213517 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTACTGGGTTGGAGCTAGTT
66 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTACTGGGTTGGAGCTAGTT
26213582 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
131 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
26213647 ACTTTGATG
196 ACTTTGATG
26213656 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
1 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
*
26213721 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTGCTGGGTTGGAGCTAGTT
66 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTACTGGGTTGGAGCTAGTT
26213786 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
131 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
26213851 ACTTTGATG
196 ACTTTGATG
26213860 GAAT
1 GAAT
26213864 GAACGGAATT
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 207 1.00
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.45
Consensus pattern (204 bp):
GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTACTGGGTTGGAGCTAGTT
TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
ACTTTGATG
Found at i:26213930 original size:14 final size:14
Alignment explanation
Indices: 26213911--26213940 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26213901 TAAAAGGTTT
26213911 TTTAGTTAATCATC
1 TTTAGTTAATCATC
*
26213925 TTTAGTTAGTCATC
1 TTTAGTTAATCATC
26213939 TT
1 TT
26213941 GCTGTCCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:26214187 original size:22 final size:22
Alignment explanation
Indices: 26214156--26214198 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26214146 ATTTGATCAA
26214156 TTGTTGTAGCCAATGCAAATTG
1 TTGTTGTAGCCAATGCAAATTG
*
26214178 TTGTTTTAGCCAATGCAAATT
1 TTGTTGTAGCCAATGCAAATT
26214199 TTATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (22 bp):
TTGTTGTAGCCAATGCAAATTG
Found at i:26214362 original size:2 final size:2
Alignment explanation
Indices: 26214355--26214386 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26214345 AAATGGTTGT
*
26214355 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26214387 ACCTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26214798 original size:15 final size:15
Alignment explanation
Indices: 26214772--26214812 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
26214762 TTAATATTTT
26214772 TATA-ATAT-TTTAA
1 TATATATATATTTAA
26214785 TATATATATATTTAA
1 TATATATATATTTAA
* *
26214800 AATTTATATATTT
1 TATATATATATTT
26214813 TTTCAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATATATATTTAA
Found at i:26214820 original size:19 final size:19
Alignment explanation
Indices: 26214785--26214826 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
26214775 AATATTTTAA
*
26214785 TATATATATATTTAAAATT
1 TATATATATATTTAAAACT
*
26214804 TATATAT-TTTTTCAAAACT
1 TATATATATATTT-AAAACT
26214823 TATA
1 TATA
26214827 AATCATATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATATATATTTAAAACT
Found at i:26214975 original size:12 final size:12
Alignment explanation
Indices: 26214960--26214993 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
26214950 TAACCTACAT
26214960 AACTTACATAGA
1 AACTTACATAGA
*
26214972 AACTTATATAGA
1 AACTTACATAGA
*
26214984 AACTTGCATA
1 AACTTACATA
26214994 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:26215002 original size:9 final size:9
Alignment explanation
Indices: 26214984--26215188 Score: 98
Period size: 9 Copynumber: 23.7 Consensus size: 9
26214974 CTTATATAGA
*
26214984 AACTTGCAT
1 AACTTACAT
26214993 AACTTACAT
1 AACTTACAT
*
26215002 AA-TAACAT
1 AACTTACAT
*
26215010 AAAAACTTAGAT
1 ---AACTTACAT
26215022 AA--TACAT
1 AACTTACAT
*
26215029 AACCTACAT
1 AACTTACAT
26215038 AACTTACAT
1 AACTTACAT
26215047 AACTTACAT
1 AACTTACAT
26215056 AA--TACCACT
1 AACTTA-CA-T
* * *
26215065 TACATAAAT
1 AACTTACAT
26215074 AAC-TAGCAT
1 AACTTA-CAT
26215083 AA--TACAT
1 AACTTACAT
* *
26215090 AGCCTACAT
1 AACTTACAT
*
26215099 AACTTACTT
1 AACTTACAT
26215108 AACTTACAT
1 AACTTACAT
*
26215117 AA--TACAC
1 AACTTACAT
*
26215124 CACTTACAT
1 AACTTACAT
*
26215133 AACTTAAAT
1 AACTTACAT
26215142 AACTTACAT
1 AACTTACAT
*
26215151 AA--TACTT
1 AACTTACAT
26215158 AACTTTA-AT
1 AAC-TTACAT
* *
26215167 -A-GTACAC
1 AACTTACAT
26215174 AACTTACAT
1 AACTTACAT
26215183 AACTTA
1 AACTTA
26215189 ATTACATTAT
Statistics
Matches: 148, Mismatches: 27, Indels: 42
0.68 0.12 0.19
Matches are distributed among these distances:
6 2 0.01
7 24 0.16
8 13 0.09
9 98 0.66
10 3 0.02
11 4 0.03
12 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:26215018 original size:20 final size:19
Alignment explanation
Indices: 26214993--26215030 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26214983 AAACTTGCAT
26214993 AACTTACATAATAACATAAA
1 AACTTACATAAT-ACATAAA
*
26215013 AACTTAGATAATACATAA
1 AACTTACATAATACATAA
26215031 CCTACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (19 bp):
AACTTACATAATACATAAA
Found at i:26215048 original size:25 final size:25
Alignment explanation
Indices: 26215013--26215188 Score: 90
Period size: 25 Copynumber: 7.2 Consensus size: 25
26215003 ATAACATAAA
* *
26215013 AACTTAGATAATACATAACCTACAT
1 AACTTACATAATACATAACTTACAT
26215038 AACTTACATAACTTACATAA--TAC--
1 AACTTACATAA--TACATAACTTACAT
*
26215061 CACTTACAT-A-A-ATAAC-TAGCAT
1 AACTTACATAATACATAACTTA-CAT
* *
26215083 AA--TACATAGCCTACATAACTTACTT
1 AACTTACATA--ATACATAACTTACAT
**
26215108 AACTTACATAATACACCACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
26215133 AACTTAAATAACTTACATAA--TACTT
1 AACTTACATAA--TACATAACTTACAT
* *
26215158 AACTTTA-ATAGTACACAACTTACAT
1 AAC-TTACATAATACATAACTTACAT
26215183 AACTTA
1 AACTTA
26215189 ATTACATTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 39
0.68 0.09 0.23
Matches are distributed among these distances:
18 4 0.03
19 3 0.03
20 6 0.05
22 2 0.02
23 14 0.12
24 4 0.03
25 60 0.52
26 5 0.04
27 18 0.16
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:26215058 original size:34 final size:34
Alignment explanation
Indices: 26215013--26215160 Score: 141
Period size: 34 Copynumber: 4.6 Consensus size: 34
26215003 ATAACATAAA
*
26215013 AACTTAGATAATACATAACCTACATAACTTACAT
1 AACTTACATAATACATAACCTACATAACTTACAT
* *
26215047 AACTTACATAATAC--CACTTACAT-A---A-AT
1 AACTTACATAATACATAACCTACATAACTTACAT
* *
26215074 AAC-TAGCATAATACATAGCCTACATAACTTACTT
1 AACTTA-CATAATACATAACCTACATAACTTACAT
** * *
26215108 AACTTACATAATACACCACTTACATAACTTAAAT
1 AACTTACATAATACATAACCTACATAACTTACAT
*
26215142 AACTTACATAATACTTAAC
1 AACTTACATAATACATAAC
26215161 TTTAATAGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.02
27 13 0.15
28 1 0.01
29 6 0.07
30 1 0.01
31 1 0.01
32 7 0.08
33 1 0.01
34 55 0.62
35 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (34 bp):
AACTTACATAATACATAACCTACATAACTTACAT
Found at i:26215090 original size:61 final size:61
Alignment explanation
Indices: 26215006--26215134 Score: 199
Period size: 61 Copynumber: 2.1 Consensus size: 61
26214996 TTACATAATA
26215006 ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAAT-ACCACTT
1 ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAATAACCACTT
* *
26215066 ACATAAATAAC-TAGCATAATACATAGCCTACATAACTTACTTAACTTACATAATACACCACTT
1 ACATAAA-AACTTAG-ATAATACATAACCTACATAACTTACATAACTTACATAATA-ACCACTT
26215129 ACATAA
1 ACATAA
26215135 CTTAAATAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
60 10 0.16
61 40 0.63
63 13 0.21
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.28
Consensus pattern (61 bp):
ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAATAACCACTT
Found at i:26215150 original size:61 final size:60
Alignment explanation
Indices: 26215023--26215152 Score: 165
Period size: 61 Copynumber: 2.1 Consensus size: 60
26215013 AACTTAGATA
* *
26215023 ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAACTAGCAT
1 ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAAATAACAT
* * *
26215083 AATACATAGCCTACATAACTTACTTAACTTACATAATACACCACTTACATAACTTAAATAAC-T
1 -ATACATAACCTACATAACTTACATAACTTACATAAT--ACCACTTACATAA-ATAAATAACAT
26215146 -TACATAA
1 ATACATAA
26215153 TACTTAACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
61 40 0.67
63 14 0.23
64 6 0.10
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (60 bp):
ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAAATAACAT
Found at i:26217416 original size:42 final size:43
Alignment explanation
Indices: 26217313--26217453 Score: 230
Period size: 43 Copynumber: 3.3 Consensus size: 43
26217303 TGTTTTTAAA
*
26217313 AAAAGCGCCGCTAAAGGTCATGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * * *
26217356 AAAAGCGTCGCAAAAGGTCTTGATCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
26217399 -AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
26217441 AAAAGCGCCGCTA
1 AAAAGCGCCGCTA
26217454 GGAGCCTGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 38 0.43
43 50 0.57
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
Found at i:26218644 original size:29 final size:30
Alignment explanation
Indices: 26218587--26218644 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
26218577 GCTGGACCAT
* * *
26218587 TCCATACGGCTTGCACACACGATCGTGTGA
1 TCCACACGGCTTGCACACACGACCATGTGA
*
26218617 TCCACACGGGTTGC-CACACGACCATGTG
1 TCCACACGGCTTGCACACACGACCATGTG
26218645 GCAGACCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (30 bp):
TCCACACGGCTTGCACACACGACCATGTGA
Found at i:26219766 original size:25 final size:25
Alignment explanation
Indices: 26219720--26219767 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
26219710 ATTTAACCAT
* * *
26219720 TTTTTATTTTATTTTAATATTCTTG
1 TTTTAATTTAATTTTAACATTCTTG
*
26219745 TTTTAATTTAATTTTTACATTCT
1 TTTTAATTTAATTTTAACATTCT
26219768 AATTTTTTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTAATTTAATTTTAACATTCTTG
Found at i:26226849 original size:8 final size:8
Alignment explanation
Indices: 26226826--26226866 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
26226816 AAATAGTGAT
*
26226826 AAAAAAGA
1 AAAAAATA
*
26226834 AAATAATA
1 AAAAAATA
26226842 AAAAAATA
1 AAAAAATA
26226850 AAAAAAGTA
1 AAAAAA-TA
26226859 AAAAAATA
1 AAAAAATA
26226867 GTAGGTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:26227087 original size:2 final size:2
Alignment explanation
Indices: 26227080--26227106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26227070 ACACCCACAA
26227080 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
26227107 CATACGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26231335 original size:42 final size:42
Alignment explanation
Indices: 26231273--26231391 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
26231263 AGGAGCATAA
* * * * * * *
26231273 TCACTTAAGCTCGCATGGGGAGCTTCACTGGTGCATAGCTTG
1 TCACTTAAACTCTCGTGGGGAGCTTCACTGATACACAACTTG
* * * **
26231315 TCATTTAAATTCTTGTGGGGAGCTTCGTTGATACACAACTTG
1 TCACTTAAACTCTCGTGGGGAGCTTCACTGATACACAACTTG
*
26231357 TCACTTAAGCTCTCGTGGGGAGCTTCACTGATACA
1 TCACTTAAACTCTCGTGGGGAGCTTCACTGATACA
26231392 TGATCTATCA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (42 bp):
TCACTTAAACTCTCGTGGGGAGCTTCACTGATACACAACTTG
Found at i:26236760 original size:12 final size:12
Alignment explanation
Indices: 26236741--26236770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26236731 CCTCACACAC
26236741 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
26236753 CTGTGTGCTAGG
1 CCGTGTGCTAGG
26236765 CCGTGT
1 CCGTGT
26236771 AAAAGCCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:26238075 original size:24 final size:24
Alignment explanation
Indices: 26237999--26238077 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 24
26237989 TAGTCTCACA
26237999 AGCTAGAAATCGGTAAGCTCATATG
1 AGCT-GAAATCGGTAAGCTCATATG
* * *
26238024 AGTTGAGAATCAGTAAGCTC-TCACG
1 AGCTGA-AATCGGTAAGCTCAT-ATG
26238049 AGCTGAAATCGGTAAGCTCATATG
1 AGCTGAAATCGGTAAGCTCATATG
26238073 AGCTG
1 AGCTG
26238078 TGGTGTGTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 22 0.49
25 23 0.51
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (24 bp):
AGCTGAAATCGGTAAGCTCATATG
Found at i:26243642 original size:27 final size:27
Alignment explanation
Indices: 26243582--26243679 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
26243572 ATACATAAAA
*
26243582 AAATGAAAGCCTTTGTGGC-GTATTTATG
1 AAATGGAAGCCTTTGTGGCAG--TTTATG
*
26243610 AAATGGAAGCCTTTGTGGCAGTTTATT
1 AAATGGAAGCCTTTGTGGCAGTTTATG
***
26243637 AAATGGAAGCCTTTGTGGCAACCTATG
1 AAATGGAAGCCTTTGTGGCAGTTTATG
26243664 AAATGGAAGCCTTTGT
1 AAATGGAAGCCTTTGT
26243680 AAAGGAACAC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 44 0.70
28 18 0.29
29 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAGTTTATG
Found at i:26258872 original size:21 final size:21
Alignment explanation
Indices: 26258846--26258902 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
26258836 TGAAGAGTGT
* * *
26258846 TGTGGATGCGTCTGATTTTGG
1 TGTGGATGCATCTGACTTTGC
*
26258867 TGTGGATGCATCTGGCTTTGC
1 TGTGGATGCATCTGACTTTGC
26258888 TGTGGATGCATCTGA
1 TGTGGATGCATCTGA
26258903 GTGTGTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.35, T:0.39
Consensus pattern (21 bp):
TGTGGATGCATCTGACTTTGC
Found at i:26266698 original size:19 final size:20
Alignment explanation
Indices: 26266671--26266709 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26266661 TAAAATTTCT
* *
26266671 ATATGTTTA-AAATTATTAA
1 ATATCTTTATAAATAATTAA
26266690 ATATCTTTATAAATAATTAA
1 ATATCTTTATAAATAATTAA
26266710 TTGAAGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATCTTTATAAATAATTAA
Found at i:26267102 original size:24 final size:23
Alignment explanation
Indices: 26267074--26267119 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26267064 TAGAACATAT
*
26267074 AATAAGATTGTTAAAAATATTTAA
1 AATAAGATTG-AAAAAATATTTAA
*
26267098 AATAATATTGAAAAAATATTTA
1 AATAAGATTGAAAAAATATTTA
26267120 GTTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
AATAAGATTGAAAAAATATTTAA
Found at i:26267106 original size:12 final size:11
Alignment explanation
Indices: 26267086--26267119 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26267076 TAAGATTGTT
26267086 AAAAATATTTA
1 AAAAATATTTA
*
26267097 AAATAATATTGA
1 AAA-AATATTTA
26267109 AAAAATATTTA
1 AAAAATATTTA
26267120 GTTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:26267170 original size:28 final size:28
Alignment explanation
Indices: 26267139--26267224 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 28
26267129 AAAATTTATC
*
26267139 AAAAATTATCAATTTTAAAAATATATTT
1 AAAAAATATCAATTTTAAAAATATATTT
26267167 AAAAAAATAT-AA-TTTAAAACATAT-TTT
1 -AAAAAATATCAATTTTAAAA-ATATATTT
**
26267194 AAAACCTATCAATTTTAAAGAATATAATTT
1 AAAAAATATCAATTTTAAA-AATAT-ATTT
26267224 A
1 A
26267225 TTAAGGAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
26 7 0.15
27 12 0.25
28 16 0.33
29 9 0.19
30 4 0.08
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAAAATATCAATTTTAAAAATATATTT
Found at i:26267173 original size:15 final size:15
Alignment explanation
Indices: 26267155--26267185 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26267145 TATCAATTTT
26267155 AAAAATAT-ATTTAA
1 AAAAATATAATTTAA
26267169 AAAAATATAATTTAA
1 AAAAATATAATTTAA
26267184 AA
1 AA
26267186 CATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATATAATTTAA
Found at i:26267174 original size:14 final size:14
Alignment explanation
Indices: 26267155--26267197 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
26267145 TATCAATTTT
26267155 AAAAATATATTTAA
1 AAAAATATATTTAA
26267169 AAAAATATAATTT-A
1 AAAAATAT-ATTTAA
*
26267183 AAACATAT-TTTAA
1 AAAAATATATTTAA
26267196 AA
1 AA
26267198 CCTATCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.12
13 3 0.12
14 16 0.62
15 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATATATTTAA
Found at i:26267640 original size:22 final size:22
Alignment explanation
Indices: 26267615--26267657 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26267605 AAAAAAATAA
* *
26267615 CAAAATAAAAAACCTGAAAATG
1 CAAAAAAAAAAAACTGAAAATG
*
26267637 CAAAAAAAAAAAAGTGAAAAT
1 CAAAAAAAAAAAACTGAAAAT
26267658 CTTTTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (22 bp):
CAAAAAAAAAAAACTGAAAATG
Found at i:26267956 original size:10 final size:11
Alignment explanation
Indices: 26267937--26267961 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26267927 TTCTGGGTTG
26267937 TTTTATTTTTT
1 TTTTATTTTTT
26267948 TTTTATTTTTT
1 TTTTATTTTTT
26267959 TTT
1 TTT
26267962 CTTTGGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:26270684 original size:74 final size:74
Alignment explanation
Indices: 26270563--26270711 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
26270553 ATTTAATTTT
* *
26270563 ATAAATTAAGAGCATTCTTAACCACACAAATTTTGGTTGACTTTTACCAACCTTGTTTTTAAATT
1 ATAAATTAAGAGCAATCTTAACCACACAAATTTTGGTTGACTTTTACCAACCTTATTTTTAAATT
26270628 GAATAAAAA
66 GAATAAAAA
* * *
26270637 ATAAATTAGGAGCAATCTTGACCACACAAATTTTGGTTGACTTTTACCAACTTTATTTTTAAATT
1 ATAAATTAAGAGCAATCTTAACCACACAAATTTTGGTTGACTTTTACCAACCTTATTTTTAAATT
26270702 GAATAAAAA
66 GAATAAAAA
26270711 A
1 A
26270712 GAAAAAGAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (74 bp):
ATAAATTAAGAGCAATCTTAACCACACAAATTTTGGTTGACTTTTACCAACCTTATTTTTAAATT
GAATAAAAA
Found at i:26286547 original size:69 final size:69
Alignment explanation
Indices: 26286453--26286604 Score: 200
Period size: 69 Copynumber: 2.2 Consensus size: 69
26286443 CGACCTATTA
* * * * *
26286453 TCTTACACCTCGTAATCCCTATGTTTAATGTCTTGGTGGACTATATTGGTTGCCATAG-CTGAGC
1 TCTTACACCTTGTAATCCCTATGTTTAATGTCCTGGCGGACTATATTGGTTGACATAGTC-AAGC
*
26286517 TATGG
65 TACGG
*
26286522 TCTTACACCTTGTAATGCCC-ATGTTTAATGTCCTGGCGGACTCTATTGGTTGACATAGTCAAGC
1 TCTTACACCTTGTAAT-CCCTATGTTTAATGTCCTGGCGGACTATATTGGTTGACATAGTCAAGC
26286586 TACGG
65 TACGG
*
26286591 TCTTACACCCTGTA
1 TCTTACACCTTGTA
26286605 CCTTTATTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
69 69 0.95
70 4 0.05
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (69 bp):
TCTTACACCTTGTAATCCCTATGTTTAATGTCCTGGCGGACTATATTGGTTGACATAGTCAAGCT
ACGG
Found at i:26289229 original size:25 final size:25
Alignment explanation
Indices: 26289201--26289279 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
26289191 TGGAAAGCCT
* *
26289201 ATAATTCACCACAATGGCATTACAG
1 ATAATTCACCACAAAGGCTTTACAG
* * ***
26289226 ATAACTCGCCACAAAGGCTTTTTTG
1 ATAATTCACCACAAAGGCTTTACAG
26289251 ATAATTCACCACAAAGGCTTTACAG
1 ATAATTCACCACAAAGGCTTTACAG
26289276 ATAA
1 ATAA
26289280 CTTGCCACAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (25 bp):
ATAATTCACCACAAAGGCTTTACAG
Found at i:26289287 original size:25 final size:25
Alignment explanation
Indices: 26289209--26289291 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
26289199 CTATAATTCA
* * *
26289209 CCACAATGGCATTACAGATAACTCG
1 CCACAAAGGCTTTACAGATAACTTG
*** *
26289234 CCACAAAGGCTTTTTTGATAA-TTCA
1 CCACAAAGGCTTTACAGATAACTT-G
26289259 CCACAAAGGCTTTACAGATAACTTG
1 CCACAAAGGCTTTACAGATAACTTG
26289284 CCACAAAG
1 CCACAAAG
26289292 CCTTGGATTG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.93
26 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (25 bp):
CCACAAAGGCTTTACAGATAACTTG
Found at i:26290187 original size:33 final size:33
Alignment explanation
Indices: 26290145--26290210 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
26290135 AATCATTCTC
26290145 AGCTCTATCTTAACGAAGAAGAAAAGAACATTT
1 AGCTCTATCTTAACGAAGAAGAAAAGAACATTT
*
26290178 AGCTCTATCTTAACGAATAAGAAAAGAACATTT
1 AGCTCTATCTTAACGAAGAAGAAAAGAACATTT
26290211 CAATGGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (33 bp):
AGCTCTATCTTAACGAAGAAGAAAAGAACATTT
Found at i:26297276 original size:18 final size:18
Alignment explanation
Indices: 26297239--26297276 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
26297229 TAAATGATGA
26297239 ATTTAAAATATTAGTTGTT
1 ATTTAAAATATTA-TTGTT
26297258 ATTTAAAAATATT-TTGTT
1 ATTT-AAAATATTATTGTT
26297276 A
1 A
26297277 AGCGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATTATTGTT
Found at i:26297911 original size:20 final size:20
Alignment explanation
Indices: 26297894--26298122 Score: 100
Period size: 20 Copynumber: 11.4 Consensus size: 20
26297884 GAAGTGCCAT
26297894 TGTTTGCACATCAGTGCCCC
1 TGTTTGCACATCAGTGCCCC
* * * *
26297914 TGTTTGTACTTCAATACCCC
1 TGTTTGCACATCAGTGCCCC
* *
26297934 TATTTGCACATCAGTGCCCT
1 TGTTTGCACATCAGTGCCCC
* * * * *
26297954 TGATTGTACTTC-GATACCAC
1 TGTTTGCACATCAG-TGCCCC
26297974 TGTTTGCACATCAGTGCCCC
1 TGTTTGCACATCAGTGCCCC
** ** * ** * *
26297994 TAATTATACTTTGGTACACC
1 TGTTTGCACATCAGTGCCCC
* * *
26298014 TATTTGCACATAAATGCCCC
1 TGTTTGCACATCAGTGCCCC
** * * * *
26298034 TAATTGTACTTCGGTACCCC
1 TGTTTGCACATCAGTGCCCC
26298054 TGTTTGCACATCAGTGCCCC
1 TGTTTGCACATCAGTGCCCC
* * * *
26298074 TGTTTGAACTTCGGTTCCCC
1 TGTTTGCACATCAGTGCCCC
*** *
26298094 TAAATGCACATCTGTGCCCC
1 TGTTTGCACATCAGTGCCCC
*
26298114 TATTTGCAC
1 TGTTTGCAC
26298123 TTTGGTGCCC
Statistics
Matches: 141, Mismatches: 66, Indels: 4
0.67 0.31 0.02
Matches are distributed among these distances:
19 1 0.01
20 139 0.99
21 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (20 bp):
TGTTTGCACATCAGTGCCCC
Found at i:26297951 original size:40 final size:40
Alignment explanation
Indices: 26297896--26298134 Score: 244
Period size: 40 Copynumber: 6.0 Consensus size: 40
26297886 AGTGCCATTG
** **
26297896 TTTGCACATCAGTGCCCCTGTTTGTACTTCAATACCCCTA
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
* * * * *
26297936 TTTGCACATCAGTGCCCTTGATTGTACTTCGATACCACTG
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
* * *
26297976 TTTGCACATCAGTGCCCCTAATTATACTTTGGTACACCTA
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
* * *
26298016 TTTGCACATAAATGCCCCTAATTGTACTTCGGTACCCCTG
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
** * *
26298056 TTTGCACATCAGTGCCCCTGTTTGAACTTCGGTTCCCCTA
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
** * * * * *
26298096 AATGCACATCTGTGCCCCTATTTGCACTTTGGTGCCCCT
1 TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCT
26298135 GATCGCACAT
Statistics
Matches: 166, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 166 1.00
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (40 bp):
TTTGCACATCAGTGCCCCTAATTGTACTTCGGTACCCCTA
Found at i:26298112 original size:80 final size:80
Alignment explanation
Indices: 26297894--26298144 Score: 279
Period size: 80 Copynumber: 3.1 Consensus size: 80
26297884 GAAGTGCCAT
* ** * *
26297894 TGTTTGCACATCAGTGCCCCTGTTTGTACTTCAATACCCCTATTTGCACATCAGTGCCCTTGATT
1 TGTTTGCACATCAGTGCCCCTGTTTGAACTTCGGTACCCCTATTTGCACATCAGTGCCCCTAATT
* *
26297959 GTACTTCGATACCAC
66 GTACTTCGGTACCCC
** * * * *
26297974 TGTTTGCACATCAGTGCCCCTAATT-ATACTTTGGTACACCTATTTGCACATAAATGCCCCTAAT
1 TGTTTGCACATCAGTGCCCCTGTTTGA-ACTTCGGTACCCCTATTTGCACATCAGTGCCCCTAAT
26298038 TGTACTTCGGTACCCC
65 TGTACTTCGGTACCCC
* ** * *
26298054 TGTTTGCACATCAGTGCCCCTGTTTGAACTTCGGTTCCCCTAAATGCACATCTGTGCCCCTATTT
1 TGTTTGCACATCAGTGCCCCTGTTTGAACTTCGGTACCCCTATTTGCACATCAGTGCCCCTAATT
* * *
26298119 GCACTTTGGTGCCCC
66 GTACTTCGGTACCCC
* *
26298134 TGATCGCACAT
1 TGTTTGCACAT
26298145 TCGTGCTCTT
Statistics
Matches: 140, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
80 139 0.99
81 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (80 bp):
TGTTTGCACATCAGTGCCCCTGTTTGAACTTCGGTACCCCTATTTGCACATCAGTGCCCCTAATT
GTACTTCGGTACCCC
Found at i:26298125 original size:120 final size:120
Alignment explanation
Indices: 26297896--26298128 Score: 286
Period size: 120 Copynumber: 1.9 Consensus size: 120
26297886 AGTGCCATTG
* * ** * *
26297896 TTTGCACATCAGTGCCCCTGTTTGTACTTCAATACCCCTATTTGCACATCAGTGCCCTTGATTGT
1 TTTGCACATAAATGCCCCTAATTGTACTTCAATACCCCTATTTGCACATCAGTGCCCCTGATTGA
*** *
26297961 ACTTCGATACCACTGTTTGCACATCAGTGCCCCTAATTATACTTTGGTACACCTA
66 ACTTCGATACCACTAAATGCACATCAGTGCCCCTAATTACACTTTGGTACACCTA
** * *
26298016 TTTGCACATAAATGCCCCTAATTGTACTTCGGTACCCCTGTTTGCACATCAGTGCCCCTGTTTGA
1 TTTGCACATAAATGCCCCTAATTGTACTTCAATACCCCTATTTGCACATCAGTGCCCCTGATTGA
* * * * * *
26298081 ACTTCGGTTCCCCTAAATGCACATCTGTGCCCCTATTTGCACTTTGGT
66 ACTTCGATACCACTAAATGCACATCAGTGCCCCTAATTACACTTTGGT
26298129 GCCCCTGATC
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
120 93 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (120 bp):
TTTGCACATAAATGCCCCTAATTGTACTTCAATACCCCTATTTGCACATCAGTGCCCCTGATTGA
ACTTCGATACCACTAAATGCACATCAGTGCCCCTAATTACACTTTGGTACACCTA
Found at i:26298130 original size:20 final size:20
Alignment explanation
Indices: 26297987--26298192 Score: 90
Period size: 20 Copynumber: 10.3 Consensus size: 20
26297977 TTGCACATCA
**
26297987 GTGCCCCTAATTATACTTTG
1 GTGCCCCTAATTGCACTTTG
* * * * **
26298007 GTACACCTATTTGCACATAA
1 GTGCCCCTAATTGCACTTTG
* * *
26298027 ATGCCCCTAATTGTACTTCG
1 GTGCCCCTAATTGCACTTTG
* ** * **
26298047 GTACCCCTGTTTGCACATCA
1 GTGCCCCTAATTGCACTTTG
** * *
26298067 GTGCCCCTGTTTGAACTTCG
1 GTGCCCCTAATTGCACTTTG
* * *
26298087 GTTCCCCTAAATGCACATCT-
1 GTGCCCCTAATTGCAC-TTTG
*
26298107 GTGCCCCTATTTGCACTTTG
1 GTGCCCCTAATTGCACTTTG
* * * *
26298127 GTGCCCCTGATCGCACATTC
1 GTGCCCCTAATTGCACTTTG
* * *
26298147 GTGCTCTTGATTGCACTTTG
1 GTGCCCCTAATTGCACTTTG
* *
26298167 GTGCTCCTAATTGCATTTTG
1 GTGCCCCTAATTGCACTTTG
26298187 GTGCCC
1 GTGCCC
26298193 TGTTATGCAT
Statistics
Matches: 132, Mismatches: 52, Indels: 4
0.70 0.28 0.02
Matches are distributed among these distances:
19 2 0.02
20 129 0.98
21 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (20 bp):
GTGCCCCTAATTGCACTTTG
Found at i:26303799 original size:6 final size:6
Alignment explanation
Indices: 26303778--26303823 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
26303768 TTAATAAAAC
*
26303778 AAAATA AACGAATA AAAATA AAAATA AAAATA AAAA-C AAAATA AAA
1 AAAATA AA--AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
26303824 TTTAAAACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.11
6 25 0.71
8 6 0.17
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:26303832 original size:17 final size:17
Alignment explanation
Indices: 26303773--26303823 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 17
26303763 TAAGATTAAT
26303773 AAAACAAAATAAACGAATA
1 AAAACAAAATAAA--AATA
*
26303792 AAAATAAAAATAAAAATA
1 AAAA-CAAAATAAAAATA
26303810 AAAACAAAATAAAA
1 AAAACAAAATAAAA
26303824 TTTAAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.31
18 8 0.28
19 4 0.14
20 8 0.28
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (17 bp):
AAAACAAAATAAAAATA
Found at i:26310191 original size:16 final size:15
Alignment explanation
Indices: 26310167--26310196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26310157 TTTATTATTA
26310167 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
26310182 TTTTTCTTCTTTTTT
1 TTTTT-TTCTTTTTT
26310197 TTCTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:26316208 original size:31 final size:31
Alignment explanation
Indices: 26316166--26316227 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
26316156 TATATAGCCA
*
26316166 AAGTTTGCACGGTATCTTAGTCCATATTAGC
1 AAGTTTCCACGGTATCTTAGTCCATATTAGC
*
26316197 AAGTTTCCACGGTCTCTTAGTCCATATTAGC
1 AAGTTTCCACGGTATCTTAGTCCATATTAGC
26316228 CAATCACTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (31 bp):
AAGTTTCCACGGTATCTTAGTCCATATTAGC
Found at i:26318564 original size:38 final size:39
Alignment explanation
Indices: 26318516--26318625 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 39
26318506 TCGGATAGTT
* *
26318516 CGAAGCAAAGTTGACACCCAGTGTCTCATC-AGCCTAGT-
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTA-TC
* * * * *
26318554 CGTAGTAAAGTT-ATACCCAATATCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTATC
*
26318592 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAAAGT--TGACACCCAGTGTCTCATCGA
26318626 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
37 15 0.27
38 23 0.42
40 1 0.02
41 16 0.29
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTATC
Found at i:26318763 original size:18 final size:17
Alignment explanation
Indices: 26318717--26318770 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
26318707 TTTCCAATTC
26318717 TCAATTCAAATTCACTT
1 TCAATTCAAATTCACTT
* *
26318734 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
26318752 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
26318770 T
1 T
26318771 TTCATTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:26320677 original size:30 final size:30
Alignment explanation
Indices: 26320610--26320688 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 30
26320600 GCTTATATAC
*
26320610 TAAATATAATAAAATAATAATAATATCTCAT
1 TAAATATAATAAAATAATAAT-ATATCTAAT
* *
26320641 TAAAATATTATTAAAATAATACT-TATCTAAT
1 T-AAATA-TAATAAAATAATAATATATCTAAT
*
26320672 TAAATAATCATAAAATA
1 TAAAT-ATAATAAAATA
26320689 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
30 12 0.30
31 10 0.25
32 5 0.12
33 13 0.32
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (30 bp):
TAAATATAATAAAATAATAATATATCTAAT
Found at i:26321703 original size:17 final size:17
Alignment explanation
Indices: 26321673--26321710 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26321663 ACATGAAATT
26321673 TAATCATTTTATTGAAA
1 TAATCATTTTATTGAAA
*
26321690 TAAT-ATTTTAATTGAGA
1 TAATCATTTT-ATTGAAA
26321707 TAAT
1 TAAT
26321711 TTTCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (17 bp):
TAATCATTTTATTGAAA
Found at i:26322043 original size:31 final size:29
Alignment explanation
Indices: 26322007--26322078 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
26321997 GATTAAATCA
*
26322007 AAATTAAAGTTTTA-TGTATACATTTGAACC
1 AAATTAAAGTTTCACTGTATA-A-TTGAACC
* *
26322037 ACAATTAGAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAC-TGTATAATTGAACC
26322068 AAATTAAAGTT
1 AAATTAAAGTT
26322079 CTTCTATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.29
31 18 0.51
32 1 0.03
33 6 0.17
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (29 bp):
AAATTAAAGTTTCACTGTATAATTGAACC
Found at i:26322281 original size:16 final size:17
Alignment explanation
Indices: 26322244--26322287 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
26322234 TCTAGAAACT
26322244 TGGTTGTTATAGCGAAA
1 TGGTTGTTATAGCGAAA
**
26322261 T-GTTGTTATAGC-ATG
1 TGGTTGTTATAGCGAAA
26322276 TGGTTGTTATAG
1 TGGTTGTTATAG
26322288 AGAGGGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 21 0.88
17 1 0.04
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.43
Consensus pattern (17 bp):
TGGTTGTTATAGCGAAA
Found at i:26324375 original size:113 final size:113
Alignment explanation
Indices: 26324177--26324406 Score: 442
Period size: 113 Copynumber: 2.0 Consensus size: 113
26324167 CATTTGTTTA
*
26324177 GTAAAAGAAGATCAGCGGAAGGGGACTATACCAGAGCTATATCTGCGAGTGAGCTACTTGTCTAT
1 GTAAAAGAAGATCAGCGGAAGGGGACTATACCAGAGCTATATCGGCGAGTGAGCTACTTGTCTAT
26324242 TTTTGTATCATGCATGGCTATTTGGCGAATGACATATACAAACGTATT
66 TTTTGTATCATGCATGGCTATTTGGCGAATGACATATACAAACGTATT
26324290 GTAAAAGAAGATCAGCGGAAGGGGACTATACCAGAGCTATATCGGCGAGTGAGCTACTTGTCTAT
1 GTAAAAGAAGATCAGCGGAAGGGGACTATACCAGAGCTATATCGGCGAGTGAGCTACTTGTCTAT
*
26324355 TTTTGTATCATGCATGGCTATTTGGCGAATGACATATACAAACGTCTT
66 TTTTGTATCATGCATGGCTATTTGGCGAATGACATATACAAACGTATT
26324403 GTAA
1 GTAA
26324407 TTAACTTTTG
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (113 bp):
GTAAAAGAAGATCAGCGGAAGGGGACTATACCAGAGCTATATCGGCGAGTGAGCTACTTGTCTAT
TTTTGTATCATGCATGGCTATTTGGCGAATGACATATACAAACGTATT
Found at i:26325488 original size:20 final size:20
Alignment explanation
Indices: 26325463--26325506 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
26325453 AAATATCATT
26325463 AAACCGTTTACTGATAACGG
1 AAACCGTTTACTGATAACGG
*
26325483 AAACCGTTTACTGGTAACGG
1 AAACCGTTTACTGATAACGG
26325503 AAAC
1 AAAC
26325507 AATGATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
AAACCGTTTACTGATAACGG
Found at i:26326545 original size:3 final size:3
Alignment explanation
Indices: 26326537--26326575 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
26326527 GGAAAGAAAG
*
26326537 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA -AA GAGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA
26326576 AATAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:26332552 original size:3 final size:3
Alignment explanation
Indices: 26332544--26332579 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
26332534 ATTAAGGGGA
26332544 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26332580 TTGAGTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26351739 original size:24 final size:24
Alignment explanation
Indices: 26351640--26351754 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
26351630 GCTCTTCTTG
* * *
26351640 AGCTTCTCGTTAATGGCTCTCCGG
1 AGCTTCCCGTTAATGGCTCTTCGA
*
26351664 AGCTTCCCGAT-ATGGCTCGCTT-G-
1 AGCTTCCCGTTAATGGCT--CTTCGA
* * *
26351687 AGCTTCCTGATATATGGCTATTC-A
1 AGCTTCCCGTTA-ATGGCTCTTCGA
26351711 GAGCTTCCCGTTAATGGCTCTTCGA
1 -AGCTTCCCGTTAATGGCTCTTCGA
* *
26351736 AGCTACCCGTTATTGGCTC
1 AGCTTCCCGTTAATGGCTC
26351755 GCATGAGCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
23 18 0.25
24 36 0.49
25 19 0.26
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGTTAATGGCTCTTCGA
Found at i:26351787 original size:72 final size:73
Alignment explanation
Indices: 26351638--26351789 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 73
26351628 AGGCTCTTCT
* * * *
26351638 TGAGCTTCTCGTTAATGGCTCTCCGGAGCTTCCCGATATGGCTCGCTTGAGCTTCCTGATATATG
1 TGAGCTTCCCGTTAATGGCTCTCCGAAGCTACCCGATATGGCTCGCATGAGCTTCCTGATATATG
*
26351703 GCTATTCA
66 ACTATTCA
* * *
26351711 -GAGCTTCCCGTTAATGGCTCTTCGAAGCTACCCGTTATTGGCTCGCATGAGCTTCTTGA-ATAT
1 TGAGCTTCCCGTTAATGGCTCTCCGAAGCTACCCGATA-TGGCTCGCATGAGCTTCCTGATATAT
*
26351774 GACTCTT-A
65 GACTATTCA
26351782 TGAGCTTC
1 TGAGCTTC
26351790 ATATTTTAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
71 1 0.01
72 48 0.71
73 19 0.28
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (73 bp):
TGAGCTTCCCGTTAATGGCTCTCCGAAGCTACCCGATATGGCTCGCATGAGCTTCCTGATATATG
ACTATTCA
Found at i:26353825 original size:2 final size:2
Alignment explanation
Indices: 26353767--26353813 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
26353757 TTTTACACAT
26353767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26353809 TA TA T
1 TA TA T
26353814 TCATTAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26353838 original size:10 final size:10
Alignment explanation
Indices: 26353825--26353879 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
26353815 CATTAATATA
26353825 TTTTTATAAT
1 TTTTTATAAT
*
26353835 TTTTTAAAAAT
1 TTTTT-ATAAT
*
26353846 TTTATATAAT
1 TTTTTATAAT
26353856 TTTTT-T-AT
1 TTTTTATAAT
26353864 ATTTTTA-AAT
1 -TTTTTATAAT
26353874 TTTTTA
1 TTTTTA
26353880 AGTGATTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
8 2 0.05
9 12 0.32
10 15 0.41
11 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:26355457 original size:4 final size:4
Alignment explanation
Indices: 26355448--26355537 Score: 180
Period size: 4 Copynumber: 22.5 Consensus size: 4
26355438 TATATTTCAA
26355448 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26355496 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
26355538 CACTTATATT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 86 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:26361727 original size:26 final size:27
Alignment explanation
Indices: 26361691--26361753 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
26361681 TATTAGGAAG
* *
26361691 GAAAAGCCTTTGTGGCGTAATATGAAA
1 GAAAAGCCTTTATGGCGCAATATGAAA
26361718 GAAAA-CCTTTATGGCGCAATATGAAA
1 GAAAAGCCTTTATGGCGCAATATGAAA
* *
26361744 TAAATGCCTT
1 GAAAAGCCTT
26361754 CAGGCCGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (27 bp):
GAAAAGCCTTTATGGCGCAATATGAAA
Found at i:26377485 original size:21 final size:19
Alignment explanation
Indices: 26377447--26377489 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
26377437 GCACCTAGGA
26377447 TGATTGTTTTGACATGTTT
1 TGATTGTTTTGACATGTTT
26377466 TGATTGTATTTGATCATGTTT
1 TGATTGT-TTTGA-CATGTTT
26377487 TGA
1 TGA
26377490 ACTGGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (19 bp):
TGATTGTTTTGACATGTTT
Found at i:26381558 original size:16 final size:17
Alignment explanation
Indices: 26381528--26381560 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26381518 TTGTTTATTA
*
26381528 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
26381545 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
26381561 AATTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:26381715 original size:11 final size:11
Alignment explanation
Indices: 26381699--26381733 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
26381689 ATAATATTAA
26381699 TAATAATAATT
1 TAATAATAATT
26381710 TAATAATAATT
1 TAATAATAATT
26381721 TAATAATATATT
1 TAATAATA-ATT
26381733 T
1 T
26381734 TTACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAATAATAATT
Found at i:26381728 original size:14 final size:15
Alignment explanation
Indices: 26381686--26381719 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
26381676 ATTTCACAAT
26381686 ATAATAATATTAATA
1 ATAATAATATTAATA
26381701 ATAATAAT-TTAATA
1 ATAATAATATTAATA
26381715 ATAAT
1 ATAAT
26381720 TTAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATATTAATA
Done.