Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 79 of 316
Found at i:23554607 original size:33 final size:34
Alignment explanation
Indices: 23554570--23554661 Score: 79
Period size: 33 Copynumber: 2.8 Consensus size: 34
23554560 TAGTTATGTG
23554570 TATTTACAATGTTTAGATGATGATTC-AT-TCATA
1 TATTTACAATGTTTAGATGATGATTCAATGTC-TA
* * *
23554603 TATTTTC--TGCTTTATATTGATGA--CAATGGTCTG
1 TATTTACAATG-TTTAGA-TGATGATTCAAT-GTCTA
23554636 TATTTACAATGTTTAGATGATGATTC
1 TATTTACAATGTTTAGATGATGATTC
23554662 GTCTCAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
31 3 0.07
32 7 0.16
33 25 0.56
34 7 0.16
35 3 0.07
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (34 bp):
TATTTACAATGTTTAGATGATGATTCAATGTCTA
Found at i:23555294 original size:2 final size:2
Alignment explanation
Indices: 23555287--23555382 Score: 183
Period size: 2 Copynumber: 48.0 Consensus size: 2
23555277 AGATTATAAC
*
23555287 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23555329 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23555371 CA CA CA CA CA CA
1 CA CA CA CA CA CA
23555383 GATATATATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
CA
Found at i:23559301 original size:18 final size:17
Alignment explanation
Indices: 23559278--23559337 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
23559268 ACTCCCCCTA
23559278 TTTACTTTGCCTCAAACT
1 TTTACTTT-CCTCAAACT
* *
23559296 TTTACTCT-CTAAAACTT
1 TTTACTTTCCTCAAAC-T
*
23559313 TTTATTTTCCCTCAAACT
1 TTTACTTT-CCTCAAACT
23559331 TTTACTT
1 TTTACTT
23559338 CTCACTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 14 0.42
19 6 0.18
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTACTTTCCTCAAACT
Found at i:23566570 original size:40 final size:40
Alignment explanation
Indices: 23566513--23566748 Score: 305
Period size: 40 Copynumber: 5.9 Consensus size: 40
23566503 GGAAAGCGGT
23566513 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
23566553 -CTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TC-CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
23566593 TCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * *
23566633 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * * * *
23566673 TCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGTGATGTA
* * *
23566713 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
23566749 CGTGTATTCG
Statistics
Matches: 172, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 167 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:23570123 original size:47 final size:47
Alignment explanation
Indices: 23570072--23570383 Score: 462
Period size: 47 Copynumber: 6.6 Consensus size: 47
23570062 GATAATTGTG
* * *
23570072 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23570119 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23570168 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23570217 ATGTGAAAGTGTATATATGTGATCAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23570264 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
23570311 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23570358 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
23570384 TCCCGAAGGG
Statistics
Matches: 245, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 150 0.61
49 95 0.39
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:23581220 original size:39 final size:39
Alignment explanation
Indices: 23581166--23581242 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
23581156 AATTTCACAT
*
23581166 TGGTACAGATGATAGTTTGTACTTTTGAAATAAATTATA
1 TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTATA
*
23581205 TGGTATAGATGATAGTTTGTACTTTTGAAACAAATTAT
1 TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTAT
23581243 GTATTTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (39 bp):
TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTATA
Found at i:23584180 original size:20 final size:20
Alignment explanation
Indices: 23584155--23584195 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23584145 GATGAATGTG
23584155 ATGTACACGAAAATGTTCCA
1 ATGTACACGAAAATGTTCCA
*
23584175 ATGTACATGAAAATGTTCCA
1 ATGTACACGAAAATGTTCCA
23584195 A
1 A
23584196 ACATATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTACACGAAAATGTTCCA
Found at i:23588424 original size:42 final size:42
Alignment explanation
Indices: 23588365--23588446 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
23588355 TTTACATGGA
23588365 AAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTATGC
1 AAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTATGC
23588407 AAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
1 AAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
23588447 CTCTTAGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
AAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTATGC
Found at i:23590414 original size:44 final size:42
Alignment explanation
Indices: 23590359--23590510 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 42
23590349 ATGTATTATT
**
23590359 GTGTAAGACCACGTCTGGGATGTTGGCATCG-ATTTGGTATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTT-G-ATTT-C
*
23590403 GTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
*** * * * *
23590445 GTGTAAGACCTTATATGGGACAGTGGCATTGATATTTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTTC
* *
23590488 ATATAAGACCACGTCTGGGACAT
1 GTGTAAGACCACGTCTGGGACAT
23590511 CAGAATTGTA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 26 0.29
43 30 0.34
44 29 0.33
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
Found at i:23590507 original size:43 final size:43
Alignment explanation
Indices: 23590359--23590509 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 43
23590349 ATGTATTATT
* *
23590359 GTGTAAGACCACGTCTGGGA-TGTTGGCATCGAT-TTGGTATTTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGATATTTG-A-TTAC
* * *
23590403 GTGTAAGACCACGTTTGGGACATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTAC
*** * *
23590445 GTGTAAGACCTTATATGGGACAGTGGCATTGATATTTGATTAC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTAC
* *
23590488 ATATAAGACCACGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACA
23590510 TCAGAATTGT
Statistics
Matches: 86, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
42 28 0.33
43 28 0.33
44 30 0.35
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTAC
Found at i:23594259 original size:6 final size:6
Alignment explanation
Indices: 23594239--23594282 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
23594229 GATAATACCC
*
23594239 TTTCTT TCT-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
23594283 ACATTGGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:23603897 original size:40 final size:40
Alignment explanation
Indices: 23603829--23603904 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
23603819 ACACACCATG
*
23603829 TGGGGATAAAATCGACCCACCTATCCCTACAAACCAAATA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
* * * *
23603869 TGGGGATAAAATTGACCTATCTAACCCTACATACCA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCA
23603905 TAAAGTATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
Found at i:23610295 original size:11 final size:11
Alignment explanation
Indices: 23610281--23610310 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
23610271 ATCAAAATTA
23610281 TTTCAAATCAT
1 TTTCAAATCAT
23610292 TTTCAAATCAT
1 TTTCAAATCAT
23610303 TTCTCAAA
1 TT-TCAAA
23610311 AAACCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTCAAATCAT
Found at i:23611484 original size:20 final size:20
Alignment explanation
Indices: 23611459--23611498 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23611449 CTAAAAAATG
*
23611459 GGCTCACAGGCTCATGTGGC
1 GGCTCACAGCCTCATGTGGC
23611479 GGCTCACAGCCTCATGTGGC
1 GGCTCACAGCCTCATGTGGC
23611499 CTACCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (20 bp):
GGCTCACAGCCTCATGTGGC
Found at i:23614035 original size:17 final size:16
Alignment explanation
Indices: 23614009--23614058 Score: 75
Period size: 15 Copynumber: 3.1 Consensus size: 16
23613999 CTGTAGATGC
23614009 AACCATAGTATTGAAA
1 AACCATAGTATTGAAA
*
23614025 ATACTATAGTATTG-AA
1 A-ACCATAGTATTGAAA
23614041 AACCATAGTATTGAAA
1 AACCATAGTATTGAAA
23614057 AA
1 AA
23614059 ACTTTAACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.37
16 8 0.27
17 11 0.37
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (16 bp):
AACCATAGTATTGAAA
Found at i:23614059 original size:17 final size:17
Alignment explanation
Indices: 23614009--23614060 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
23613999 CTGTAGATGC
23614009 AACCATAGTATTGAAAA
1 AACCATAGTATTGAAAA
* *
23614026 TACTATAGTATTG--AA
1 AACCATAGTATTGAAAA
23614041 AACCATAGTATTGAAAA
1 AACCATAGTATTGAAAA
23614058 AAC
1 AAC
23614061 TTTAACCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.45
17 16 0.55
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
AACCATAGTATTGAAAA
Found at i:23614398 original size:26 final size:26
Alignment explanation
Indices: 23614369--23614421 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23614359 AAGAGTAGGG
23614369 AAAGCTGAAACTTGATAGCAGAGCCA
1 AAAGCTGAAACTTGATAGCAGAGCCA
23614395 AAAGCTGAAACTTGATAGCAGAGCCA
1 AAAGCTGAAACTTGATAGCAGAGCCA
23614421 A
1 A
23614422 CAGAAATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (26 bp):
AAAGCTGAAACTTGATAGCAGAGCCA
Found at i:23622857 original size:23 final size:23
Alignment explanation
Indices: 23622822--23622896 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 23
23622812 AAAACCTAAT
23622822 AAAAATAAACTTAAAGA-AAAATA
1 AAAAATAAACTTAAA-ATAAAATA
**
23622845 AAAAATAGTCTTAAAATAAAATA
1 AAAAATAAACTTAAAATAAAATA
*
23622868 AAAGTAA-AAACATAAAATAATAAATA
1 AAA--AATAAACTTAAAAT-A-AAATA
23622894 AAA
1 AAA
23622897 GTTTTTAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 22 0.52
24 8 0.19
25 3 0.07
26 8 0.19
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAAATAAACTTAAAATAAAATA
Found at i:23627965 original size:19 final size:19
Alignment explanation
Indices: 23627941--23627978 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23627931 ACTTGTTAGA
23627941 AGAAAAT-AAATGAAAAATT
1 AGAAAATAAAAT-AAAAATT
23627960 AGAAAATAAAATAAAAATT
1 AGAAAATAAAATAAAAATT
23627979 TAAATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AGAAAATAAAATAAAAATT
Found at i:23634699 original size:3 final size:3
Alignment explanation
Indices: 23634605--23634682 Score: 120
Period size: 3 Copynumber: 26.0 Consensus size: 3
23634595 ACCTAAAACA
* *
23634605 AAG AAA AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
23634653 AAG AAG AAG AAA AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
23634683 CAGCAGCATA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23635937 original size:58 final size:58
Alignment explanation
Indices: 23635875--23636008 Score: 241
Period size: 58 Copynumber: 2.3 Consensus size: 58
23635865 TAGGTGTCGT
*
23635875 CGATTGGTCAAGTTGCACCCAAAAAATTAATTTTTTTAAAGAGGAAAGGCGGTGCCGC
1 CGATTGGTCAAGTGGCACCCAAAAAATTAATTTTTTTAAAGAGGAAAGGCGGTGCCGC
*
23635933 CGATTGGTCAGGTGGCACCCAAAAAATTAATTTTTTTAAAGAGGAAAGGCGGTGCCGC
1 CGATTGGTCAAGTGGCACCCAAAAAATTAATTTTTTTAAAGAGGAAAGGCGGTGCCGC
*
23635991 CGATTGGTCAGGTGGCAC
1 CGATTGGTCAAGTGGCAC
23636009 TAGTTATTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (58 bp):
CGATTGGTCAAGTGGCACCCAAAAAATTAATTTTTTTAAAGAGGAAAGGCGGTGCCGC
Found at i:23641845 original size:70 final size:69
Alignment explanation
Indices: 23641715--23641921 Score: 299
Period size: 70 Copynumber: 3.0 Consensus size: 69
23641705 GTTCTACGAA
* * *
23641715 TATAGCGATTGGTAGTAATTCCACATATGTTGT-GACTACCGTAGCTCTGTATGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
23641779 ATAAG
65 ATAAG
* * *
23641784 TGTGGTGATTGGTAGTAATTCTGCATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATTCT-CATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
23641849 ATAAG
65 ATAAG
* * *
23641854 TATAGTGATTAGTAGTAATTCCTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAAGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
23641919 ATA
65 ATA
23641922 TGATTTTCCC
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
68 1 0.01
69 27 0.22
70 93 0.76
71 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (69 bp):
TATAGTGATTGGTAGTAATTCTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
TAAG
Found at i:23643302 original size:10 final size:10
Alignment explanation
Indices: 23643283--23643332 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
23643273 TTAAATTCTA
23643283 AAAGATAAAT
1 AAAGATAAAT
23643293 ACAA-ATAAAT
1 A-AAGATAAAT
*
23643303 AAAGATAATT
1 AAAGATAAAT
23643313 AAAGATAAAT
1 AAAGATAAAT
*
23643323 AAAAATAAAT
1 AAAGATAAAT
23643333 CCTCAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23645157 original size:12 final size:11
Alignment explanation
Indices: 23645149--23645209 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
23645139 AAAATAAAGT
23645149 AATAAATAATAA
1 AATAAATAAT-A
23645161 AATAAAATAATA
1 AAT-AAATAATA
*
23645173 AAT-ACTAATAA
1 AATAAATAAT-A
*
23645184 AATGAAATAAAA
1 AAT-AAATAATA
23645196 TAATAAATAATA
1 -AATAAATAATA
23645208 AA
1 AA
23645210 AATTAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 15 0.38
13 14 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:23645185 original size:23 final size:20
Alignment explanation
Indices: 23645139--23645202 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
23645129 TCAATATCCA
*
23645139 AAAATAAAGTAATAAATAAT
1 AAAATAAAATAATAAATAAT
*
23645159 AAAATAAAATAATAAATACT
1 AAAATAAAATAATAAATAAT
23645179 --AATAAAATGAAATAAAATAAT
1 AAAATAAAAT--AAT-AAATAAT
23645200 AAA
1 AAA
23645203 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.22
20 21 0.58
21 6 0.17
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAATAATAAATAAT
Found at i:23645207 original size:10 final size:10
Alignment explanation
Indices: 23645148--23645212 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
23645138 AAAAATAAAG
23645148 TAATAAATAA
1 TAATAAATAA
*
23645158 TAA-AATAAAA
1 TAATAA-ATAA
*
23645168 TAATAAATAC
1 TAATAAATAA
*
23645178 TAATAAAATGA
1 TAAT-AAATAA
23645189 -AAT-AA-AA
1 TAATAAATAA
23645196 TAATAAATAA
1 TAATAAATAA
23645206 TAA-AAAT
1 TAATAAAT
23645213 TAAGAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 8 0.19
10 23 0.53
11 6 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:23645231 original size:35 final size:35
Alignment explanation
Indices: 23645164--23645240 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
23645154 ATAATAAAAT
* * *
23645164 AAAATAATAAATACTAATAAAATGAAATAAAATAA
1 AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
* *
23645199 TAAATAATAAAAATTAAGAAAA-GTAAAAAAAATAA
1 AAAATAATAAAAACTAAGAAAATG-AAAAAAAATAA
23645234 AAAATAA
1 AAAATAA
23645241 AGGTTGGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (35 bp):
AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
Found at i:23651018 original size:33 final size:33
Alignment explanation
Indices: 23650981--23651046 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
23650971 TTGAGCCTAC
23650981 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
23651014 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
23651047 GGGACTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (33 bp):
TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
Found at i:23659174 original size:30 final size:30
Alignment explanation
Indices: 23659139--23659212 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
23659129 ATGATACATC
* *
23659139 CACACGGCCATTCGAGGCGGCTGTGGGAGA
1 CACACGGCCATTCAAGGCGGCCGTGGGAGA
23659169 CACACGGCCATTCAAGGCGGCCGTGGGAGA
1 CACACGGCCATTCAAGGCGGCCGTGGGAGA
23659199 CACACGGCC-TTCAA
1 CACACGGCCATTCAA
23659213 TATGGGCGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.23, C:0.31, G:0.34, T:0.12
Consensus pattern (30 bp):
CACACGGCCATTCAAGGCGGCCGTGGGAGA
Found at i:23659831 original size:34 final size:34
Alignment explanation
Indices: 23659793--23659858 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
23659783 AAACCAGCCA
*
23659793 CCCTTT-TCTTCTCTATT-TTTCTTTCTTTTCTTTC
1 CCCTTTCTCCTCTCT-TTCTTT-TTTCTTTTCTTTC
23659827 CCCTTTCTCCTCTCTTTCTTTTTTCTTTTCTT
1 CCCTTTCTCCTCTCTTTCTTTTTTCTTTTCTT
23659859 CCTTTCTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 19 0.66
35 10 0.34
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (34 bp):
CCCTTTCTCCTCTCTTTCTTTTTTCTTTTCTTTC
Found at i:23659863 original size:31 final size:31
Alignment explanation
Indices: 23659797--23659888 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 31
23659787 CAGCCACCCT
23659797 TTTCT-TCTCTATT-TTTCTTTCTTTTCTTTCCCC
1 TTTCTCTCTCT-TTCTTT-TTTCTTTTC-TT-CCC
23659830 TTTCTCCTCTCTTTCTTTTTTCTTTTCTT-CC
1 TTTCT-CTCTCTTTCTTTTTTCTTTTCTTCCC
*
23659861 TTTCTCTCCTCTGTTC-TTTCTCTTTTCT
1 TTTCTCT-CTCT-TTCTTTTTTCTTTTCT
23659889 CCTCTCTTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.04
31 22 0.42
32 3 0.06
33 7 0.13
34 11 0.21
35 8 0.15
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTCTCTCTCTTTCTTTTTTCTTTTCTTCCC
Found at i:23659891 original size:21 final size:22
Alignment explanation
Indices: 23659860--23659900 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23659850 TCTTTTCTTC
*
23659860 CTTTCTCTCCTCTGTTCTTTCT
1 CTTTCTCTCCTCTCTTCTTTCT
23659882 CTTT-TCTCCTCTCTTCTTT
1 CTTTCTCTCCTCTCTTCTTT
23659901 TTTTTCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (22 bp):
CTTTCTCTCCTCTCTTCTTTCT
Found at i:23659902 original size:16 final size:17
Alignment explanation
Indices: 23659830--23659902 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
23659820 TTCTTTCCCC
23659830 TTTCTCCTCTCTTTCTT
1 TTTCTCCTCTCTTTCTT
* * *
23659847 TTT-TCTTTTCTTCCTT
1 TTTCTCCTCTCTTTCTT
*
23659863 TCTCTCCTCTGTTCTTTCTCT
1 TTTCTCCTC---TCTTTCT-T
23659884 TTTCTCCTCTC-TTCTT
1 TTTCTCCTCTCTTTCTT
23659900 TTT
1 TTT
23659903 TTTCCTCCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
16 16 0.37
17 10 0.23
18 2 0.05
20 6 0.14
21 9 0.21
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (17 bp):
TTTCTCCTCTCTTTCTT
Found at i:23663944 original size:30 final size:30
Alignment explanation
Indices: 23663899--23663959 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
23663889 ACACGGCTTA
*
23663899 GGCAATTCCACATGGGTAGTCCACACGCCC
1 GGCAATTCCACATGGGTAATCCACACGCCC
* *
23663929 GGCAGTTCCATATGGGTAATCCACACGCCC
1 GGCAATTCCACATGGGTAATCCACACGCCC
23663959 G
1 G
23663960 TGTGTGACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (30 bp):
GGCAATTCCACATGGGTAATCCACACGCCC
Found at i:23665676 original size:10 final size:10
Alignment explanation
Indices: 23665657--23665706 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
23665647 TTAAATTCTA
23665657 AAAGATAAAT
1 AAAGATAAAT
23665667 ACAA-ATAAAT
1 A-AAGATAAAT
*
23665677 AAAGATAATT
1 AAAGATAAAT
23665687 AAAGATAAAT
1 AAAGATAAAT
*
23665697 AAAAATAAAT
1 AAAGATAAAT
23665707 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23668670 original size:31 final size:32
Alignment explanation
Indices: 23668635--23668703 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
23668625 TTTAACATCC
* *
23668635 CAGTGACTT-AAAT-AAAAGCTTCCGAATAGTT
1 CAGTGACTTAAAATGAAAA-CTTCCAAATAATT
*
23668666 CAGTGACTTAAAATGAAAACTTTCAAATAATT
1 CAGTGACTTAAAATGAAAACTTCCAAATAATT
23668698 CAGTGA
1 CAGTGA
23668704 TCATTTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 20 0.61
33 4 0.12
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (32 bp):
CAGTGACTTAAAATGAAAACTTCCAAATAATT
Found at i:23673004 original size:23 final size:23
Alignment explanation
Indices: 23672968--23673027 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
23672958 ACATACAATC
* * *
23672968 AATATTATATTTTAAATTATTAT
1 AATATAATAATTTAAATTAATAT
*
23672991 AATATAATAATTTAACTTAATAT
1 AATATAATAATTTAAATTAATAT
23673014 -AT-TAATAA-TTAAAT
1 AATATAATAATTTAAAT
23673028 GAAATTCACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 2 0.06
23 19 0.59
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATAATAATTTAAATTAATAT
Found at i:23674762 original size:43 final size:43
Alignment explanation
Indices: 23674699--23674977 Score: 316
Period size: 43 Copynumber: 6.6 Consensus size: 43
23674689 GTGTAAAAAG
* *
23674699 CGCCGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* *
23674742 CACCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * * *
23674785 TGCCGCTAAAGAACATGACATTTAGCGACGCTTTTTACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* *
23674828 CGTCGCTAAAGAATGTGACCTTTAGCGGCGCTTTTC--AC--A
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * *
23674867 CACCGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCAT-ACAAA
* *
23674910 CGCCGCTATAGAACGTGACCTTTGGCGGCGCTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * *
23674953 CGTCGCTAAAGAACCTGACATTTAG
1 CGCCGCTAAAGAACGTGACCTTTAG
23674978 AAAAGTGCCG
Statistics
Matches: 195, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
39 31 0.16
41 3 0.02
43 160 0.82
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
Found at i:23674798 original size:86 final size:85
Alignment explanation
Indices: 23674700--23674977 Score: 348
Period size: 86 Copynumber: 3.3 Consensus size: 85
23674690 TGTAAAAAGC
* * * * *
23674700 GCCGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAACACCGCTAAAGAACGTGACCTTT
1 GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTT
23674765 AGCGGCGCTTTTCACACAAA
66 AGCGGCGCTTTTCACACAAA
* * * * * *
23674785 TGCCGCTAAAGAACATGACATTTAGCGACGCTTTTTACACAAACGTCGCTAAAGAATGTGACCTT
1 -GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTT
23674850 TAGCGGCGCTTTTCACAC--A
65 TAGCGGCGCTTTTCACACAAA
* * *
23674869 -CCGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAACGCCGCTATAGAACGTGACCTT
1 GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCAT-ACAAACGCCGCTAAAGAACGTGACCTT
* *
23674932 TGGCGGCGCTTTTCATACAAA
65 TAGCGGCGCTTTTCACACAAA
*
23674953 CGTCGCTAAAGAACCTGACATTTAG
1 -GCCGCTAAAGAACCTGACATTTAG
23674978 AAAAGTGCCG
Statistics
Matches: 165, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
82 69 0.42
84 2 0.01
86 94 0.57
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTT
AGCGGCGCTTTTCACACAAA
Found at i:23674942 original size:125 final size:127
Alignment explanation
Indices: 23674702--23674977 Score: 351
Period size: 125 Copynumber: 2.2 Consensus size: 127
23674692 TAAAAAGCGC
* * *
23674702 CGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAACACCGCTAAAGAACGTGACCTTTAG
1 CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCA-AC-AACACCGCTAAAGAACCTGACATTTAG
* * *
23674767 CGGCGCTTTTCACACAAATGCCGCTAAAGAACATGACATTTAGCGACGCTTTTTACACAAACGT
64 CGGCGCTTTTCACAAAAACGCCGCTAAAGAACATGACATTTAGCGACGCTTTTCACACAAACGT
* * *
23674831 CGCTAAAGAATGTGACCTTTAGCGGCGCTTTTC-AC-ACACCGCTAAAGAACCTGACATTTAGTG
1 CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCAACAACACCGCTAAAGAACCTGACATTTAGCG
* * * * * *
23674894 GCGCTTTTCTA-AAAAACGCCGCTATAGAACGTGACCTTTGGCGGCGCTTTTCATACAAACGT
66 GCGCTTTTC-ACAAAAACGCCGCTAAAGAACATGACATTTAGCGACGCTTTTCACACAAACGT
* *
23674956 CGCTAAAGAACCTGACATTTAG
1 CGCTAAAGAACGTGACCTTTAG
23674978 AAAAGTGCCG
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 95 0.74
126 1 0.01
127 2 0.02
129 30 0.23
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (127 bp):
CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCAACAACACCGCTAAAGAACCTGACATTTAGCG
GCGCTTTTCACAAAAACGCCGCTAAAGAACATGACATTTAGCGACGCTTTTCACACAAACGT
Found at i:23680889 original size:9 final size:9
Alignment explanation
Indices: 23680871--23681034 Score: 92
Period size: 9 Copynumber: 18.7 Consensus size: 9
23680861 GTATTACGTT
*
23680871 AGTTAAGTA
1 AGTTATGTA
*
23680880 AGTTTTGTA
1 AGTTATGTA
23680889 AGTTATGTA
1 AGTTATGTA
*
23680898 GGTTATG-A
1 AGTTATGTA
* *
23680906 TA-TGATATA
1 -AGTTATGTA
*
23680915 CATTTATGTA
1 -AGTTATGTA
*
23680925 AGGTATGTA
1 AGTTATGTA
23680934 AGTTATGATA
1 AGTTATG-TA
* * *
23680944 TGATATAT-
1 AGTTATGTA
*
23680952 ATTTATGT-
1 AGTTATGTA
23680960 A-TTATGTA
1 AGTTATGTA
23680968 AGTTATGTA
1 AGTTATGTA
23680977 AGTTATGATA
1 AGTTATG-TA
* * *
23680987 TGATATAT-
1 AGTTATGTA
*
23680995 ATTTATGT-
1 AGTTATGTA
23681003 A-TTATGTA
1 AGTTATGTA
*
23681011 AGTTTTGTA
1 AGTTATGTA
23681020 AGTTATGTA
1 AGTTATGTA
23681029 AGTTAT
1 AGTTAT
23681035 TACATAATTA
Statistics
Matches: 117, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
7 12 0.10
8 16 0.14
9 72 0.62
10 17 0.15
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
AGTTATGTA
Found at i:23680932 original size:36 final size:36
Alignment explanation
Indices: 23680885--23681003 Score: 148
Period size: 36 Copynumber: 3.1 Consensus size: 36
23680875 AAGTAAGTTT
* * *
23680885 TGTAAGTTATGTAGGTTATGATATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
23680921 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
23680957 TGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TGTA--A-G---G-TATGTAAGTTATGATATGATATATATTTA
23681000 TGTA
1 TGTA
23681004 TTATGTAAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
36 37 0.51
38 1 0.01
39 1 0.01
42 1 0.01
43 33 0.45
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATATATTTA
Found at i:23680975 original size:43 final size:43
Alignment explanation
Indices: 23680918--23681026 Score: 200
Period size: 43 Copynumber: 2.5 Consensus size: 43
23680908 TGATATACAT
*
23680918 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
23680961 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
23681004 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
23681027 TAAGTTATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:23681206 original size:15 final size:15
Alignment explanation
Indices: 23681182--23681236 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
23681172 AAAAAATTAT
23681182 TTTAATTAAATAATA
1 TTTAATTAAATAATA
* *
23681197 TTTAAATAAATTAT-
1 TTTAATTAAATAATA
*
23681211 TTTAGTTAAATAATA
1 TTTAATTAAATAATA
*
23681226 TTTAAGTAAAT
1 TTTAATTAAAT
23681237 TAATCCAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:23681209 original size:29 final size:29
Alignment explanation
Indices: 23681175--23681238 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
23681165 CACATGGAAA
23681175 AAATTATTTTAATTAAATAATATTTAAAT
1 AAATTATTTTAATTAAATAATATTTAAAT
* *
23681204 AAATTATTTTAGTTAAATAATATTTAAGT
1 AAATTATTTTAATTAAATAATATTTAAAT
23681233 AAATTA
1 AAATTA
23681239 ATCCAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATTATTTTAATTAAATAATATTTAAAT
Found at i:23681400 original size:15 final size:15
Alignment explanation
Indices: 23681376--23681427 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
23681366 AAAAAATTAT
23681376 TTTAATTAAATAATA
1 TTTAATTAAATAATA
*
23681391 TTTAAATAAACT-AT-
1 TTTAATTAAA-TAATA
23681405 TTTAATTAAATAATA
1 TTTAATTAAATAATA
23681420 TTTAATTA
1 TTTAATTA
23681428 CATTAATCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 11 0.34
15 19 0.59
16 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:23681530 original size:194 final size:194
Alignment explanation
Indices: 23681040--23681510 Score: 795
Period size: 194 Copynumber: 2.4 Consensus size: 194
23681030 GTTATTACAT
*
23681040 AATTAATCCAAATTATGTAATTTAAAAAATTTTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
*
23681105 TGTCAACTTTGTTCTATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
66 TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
* *
23681170 GGAAAAAATTATTTTAATTAAATAATATTTAAATAAATTATTTTAGTTAAATAATATTTAAGTA
131 GGAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGTA
*
23681234 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTA-AAAAAGTTGAAAATCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
* *
23681298 TGTCAACTCTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACGATGTGG-AAAATCACAT
66 TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
*
23681362 GGAAAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAATT
131 GG--AAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGT
23681427 A
194 A
* *
23681428 CATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTAGAAAACCGTATAAGATGAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTT-GAAAACCGTATAAGATGAA
23681493 ATGTCAA-TATTGTTCCAT
65 ATGTCAACT-TTGTTCCAT
23681511 TTAAAAAATA
Statistics
Matches: 260, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
192 12 0.05
193 78 0.30
194 128 0.49
195 9 0.03
196 33 0.13
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (194 bp):
AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
GGAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGTA
Found at i:23681840 original size:24 final size:24
Alignment explanation
Indices: 23681798--23681843 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23681788 TAACTTAAAT
** *
23681798 GATAAAACGGATGATAATATTTGG
1 GATAAAACGGACAAGAATATTTGG
23681822 GATAAAACGGACAAGAATATTT
1 GATAAAACGGACAAGAATATTT
23681844 CAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (24 bp):
GATAAAACGGACAAGAATATTTGG
Found at i:23682986 original size:22 final size:22
Alignment explanation
Indices: 23682960--23683002 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23682950 TTAGAATAAA
23682960 TTTACAAGTTTAAGGTTAATTT
1 TTTACAAGTTTAAGGTTAATTT
*
23682982 TTTACAAGTTTAGGGTTAATT
1 TTTACAAGTTTAAGGTTAATT
23683003 ATACTTTAAA
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:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (22 bp):
TTTACAAGTTTAAGGTTAATTT
Found at i:23684235 original size:3 final size:3
Alignment explanation
Indices: 23684229--23684254 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23684219 TTTTTCTCTT
23684229 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23684255 TACTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23684669 original size:21 final size:21
Alignment explanation
Indices: 23684599--23684669 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
23684589 TGTATTTAAC
* *
23684599 GGTTTAAGGGTTTATTGTCTAT
1 GGTTT-AGGGTTTATGGTTTAT
* * *
23684621 AGTTAAGGGTTTTATGGTTCA-
1 GGTTTAGGG-TTTATGGTTTAT
23684642 GGATTTAGGGTTTATGGTTTAT
1 GG-TTTAGGGTTTATGGTTTAT
23684664 GGTTTA
1 GGTTTA
23684670 AAGTTTAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.48
Consensus pattern (21 bp):
GGTTTAGGGTTTATGGTTTAT
Found at i:23684778 original size:59 final size:59
Alignment explanation
Indices: 23684685--23684799 Score: 148
Period size: 59 Copynumber: 1.9 Consensus size: 59
23684675 TAAAGTTTGC
* *
23684685 ATTTAAGGGTTTAAGGGTTTAGTGATTCAGGTTTA-GAGTTTTA-GGATTTAGGATTTTAT
1 ATTTAAAGGTTTAAGGGTTTAGTGATTCAAGTTTAGGA-TTTTATGG-TTTAGGATTTTAT
23684744 ATTTAAAGGTTTAAGGGTTTAGTG--TCTATAGTTTAGGATTTTATGGTTTAGGATTT
1 ATTTAAAGGTTTAAGGGTTTAGTGATTC-A-AGTTTAGGATTTTATGGTTTAGGATTT
23684800 AGGGTTTAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
57 2 0.04
58 1 0.02
59 43 0.86
60 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.47
Consensus pattern (59 bp):
ATTTAAAGGTTTAAGGGTTTAGTGATTCAAGTTTAGGATTTTATGGTTTAGGATTTTAT
Found at i:23684805 original size:14 final size:14
Alignment explanation
Indices: 23684774--23684821 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
23684764 AGTGTCTATA
*
23684774 GTTTAGGATTTTATG
1 GTTTAGGA-TTTAGG
23684789 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
23684803 GTTTAGTG-TTTAGG
1 GTTTAG-GATTTAGG
23684817 GTTTA
1 GTTTA
23684822 AGGTTTACAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:23684813 original size:21 final size:21
Alignment explanation
Indices: 23684641--23684845 Score: 70
Period size: 21 Copynumber: 9.5 Consensus size: 21
23684631 TTTATGGTTC
23684641 AGGATTTAGGGTTTA-TGGTTT
1 AGGATTTAGGGTTTAGT-GTTT
** **
23684662 ATGG-TTTAAAGTTTAAAGTTT
1 A-GGATTTAGGGTTTAGTGTTT
* *
23684683 -GCATTTAAGGGTTTAAGGGTTT
1 AGGATTT-AGGGTTT-AGTGTTT
* *
23684705 AGTGATTCA-GGTTTAGAGTTTT
1 AG-GATTTAGGGTTTAGTG-TTT
* *
23684727 AGGATTTAGGATTTTA-TATTT
1 AGGATTTAGG-GTTTAGTGTTT
23684748 AAAGG-TTTAAGGGTTTAGTGTCTAT
1 --AGGATTT-AGGGTTTAGTGT-T-T
*
23684773 A-G-TTTAGGATTTTA-TGGTTT
1 AGGATTTAGG-GTTTAGT-GTTT
23684793 AGGATTTAGGGTTTAGTGTTT
1 AGGATTTAGGGTTTAGTGTTT
* *
23684814 AGGGTTTAAGGTTTACAGT-TTT
1 AGGATTTAGGGTTT--AGTGTTT
*
23684836 AGCATTTAGG
1 AGGATTTAGG
23684846 ATTTTGTATT
Statistics
Matches: 137, Mismatches: 24, Indels: 45
0.67 0.12 0.22
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
21 56 0.41
22 52 0.38
23 18 0.13
24 4 0.03
25 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.46
Consensus pattern (21 bp):
AGGATTTAGGGTTTAGTGTTT
Found at i:23684827 original size:14 final size:13
Alignment explanation
Indices: 23684750--23684828 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 13
23684740 TTATATTTAA
23684750 AGGTTTAAGGGTTT
1 AGGTTT-AGGGTTT
* **
23684764 AGTGTCTATAGTTT
1 AG-GTTTAGGGTTT
*
23684778 AGGATTTTATGGTTT
1 AGG--TTTAGGGTTT
23684793 AGGATTTAGGGTTT
1 AGG-TTTAGGGTTT
23684807 AGTGTTTAGGGTTT
1 AG-GTTTAGGGTTT
23684821 AAGGTTTA
1 -AGGTTTA
23684829 CAGTTTTAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 1 0.02
14 35 0.66
15 17 0.32
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (13 bp):
AGGTTTAGGGTTT
Found at i:23684901 original size:152 final size:152
Alignment explanation
Indices: 23684572--23684879 Score: 347
Period size: 152 Copynumber: 2.0 Consensus size: 152
23684562 GGTTTATAGT
* * * *
23684572 TTTAGGATTTAGGA-TTTTGTATTTAACGGTTTAAGGGTTTATTGTCTATAGTTAAGGGTTTTAT
1 TTTAGGATTTAGGAGTTTAG-ATTTAAAGGTTTAAGGGTTTAGTGTCTATAGTTAAGGATTTTAT
* *
23684636 GGTTCAGGATTTAGGGTTTATGGTTTATGGTTTAAAGTTTAAAGTTTGCATTTAAGGGTTTAAGG
65 GGTTCAGGATTTAGGGTTTATGGTTTAGGGTTTAAAGTTTAAAGTTTGCATTTAAGGATTTAAGG
* * * * *
23684701 GTTTAGTGATTCAGGTTTAGAGT
130 ATTTAGTGATTAAGGCTTAAAGG
* * *
23684724 TTTAGGATTTAGGATTTTATATTTAAAGGTTTAAGGGTTTAGTGTCTATAGTTTAGGATTTTATG
1 TTTAGGATTTAGGAGTTTAGATTTAAAGGTTTAAGGGTTTAGTGTCTATAGTTAAGGATTTTATG
* * * *
23684789 GTTTAGGATTTAGGGTTTA-GTGTTTAGGGTTTAAGGTTTACAGTTTTAGCATTT-AGGATTT-T
66 GTTCAGGATTTAGGGTTTATG-GTTTAGGGTTTAAAGTTTAAAG-TTT-GCATTTAAGGATTTAA
* *
23684851 GTATTTTGT-ATTTAAGGGCTTAAAGG
128 GGATTTAGTGA-TTAA-GGCTTAAAGG
23684877 TTT
1 TTT
23684880 GTGATTCGGG
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
151 2 0.02
152 101 0.77
153 22 0.17
154 6 0.05
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (152 bp):
TTTAGGATTTAGGAGTTTAGATTTAAAGGTTTAAGGGTTTAGTGTCTATAGTTAAGGATTTTATG
GTTCAGGATTTAGGGTTTATGGTTTAGGGTTTAAAGTTTAAAGTTTGCATTTAAGGATTTAAGGA
TTTAGTGATTAAGGCTTAAAGG
Found at i:23684916 original size:22 final size:23
Alignment explanation
Indices: 23684890--23684947 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
23684880 GTGATTCGGG
23684890 TTTAGGGTTTAAGG-TTTAG-ATT
1 TTTAGGGTTTAAGGATTTAGTA-T
* *
23684912 TTTAGGATTT-AGGATTTTGTAT
1 TTTAGGGTTTAAGGATTTAGTAT
*
23684934 TTAAGGGTTTAAGG
1 TTTAGGGTTTAAGG
23684948 GACTGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (23 bp):
TTTAGGGTTTAAGGATTTAGTAT
Found at i:23685219 original size:40 final size:40
Alignment explanation
Indices: 23685164--23685588 Score: 243
Period size: 40 Copynumber: 10.8 Consensus size: 40
23685154 TTTTTGGACG
* * * *
23685164 TCAAAAAGCGCCGCTAATGGTCAACCTATAGTGTCGTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
* *
23685204 TCAAAAAGCGCCGCTAATACTCGATCAATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * ** *
23685244 TCAAAAAGCGCCACTAATGCTTGATCTATAATAG-CATTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTAT-AGGGTCGTTTT
* *
23685284 TCAAAAAGCGCCGCTAATGGTCGACCTATAGCGG-CGTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * **
23685324 TTAAAAAGTGCAACTAATGCTCGATCTATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * * ****
23685364 TCAAAAAGCGCAGCTAATGC-C-A-CTA-AAGCTC-AACA
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
* ** ** ** * * *
23685399 T-AAAATGACGGTG-TTGTGCTTAATTTTTTTGCGG-CGTTTT
1 TCAAAAAG-CGCCGCTAATGCTCGA-TCTATAG-GGTCGTTTT
* * * *
23685439 TTAAAAAGCACCGCTAATGCTCGACCTATAGTGG-CATTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* *
23685479 TCAAAAAGCGTCGCTAATGCTCAATCTATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
** * *
23685519 TTGAAAAGCG-CGCGAATGCTCTATCTATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
*
23685558 TCAAAAAGCACCGCTAATGCTCGATCTATAG
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG
23685589 CATCAATTTT
Statistics
Matches: 287, Mismatches: 80, Indels: 36
0.71 0.20 0.09
Matches are distributed among these distances:
34 9 0.03
35 6 0.02
36 2 0.01
37 3 0.01
38 2 0.01
39 37 0.13
40 214 0.75
41 14 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
Found at i:23685311 original size:120 final size:120
Alignment explanation
Indices: 23685164--23685383 Score: 343
Period size: 120 Copynumber: 1.8 Consensus size: 120
23685154 TTTTTGGACG
* * **
23685164 TCAAAAAGCGCCGCTAATGGTCAACCTATAGTGTCGTTTTTCAAAAAGCGCCGCTAATACTCGAT
1 TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGCGTTTTTCAAAAAGCGCAACTAATACTCGAT
23685229 CAATAGCGGTGTTTTTCAAAAAGCGCCA-CTAATGCTTGATCTATAATAGCATTTT
66 CAATAGCGGTGTTTTTCAAAAAGCG-CAGCTAATGCTTGATCTATAATAGCATTTT
* * * *
23685284 TCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTTAAAAAGTGCAACTAATGCTCGAT
1 TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGCGTTTTTCAAAAAGCGCAACTAATACTCGAT
*
23685349 CTATAGCGGTGTTTTTCAAAAAGCGCAGCTAATGC
66 CAATAGCGGTGTTTTTCAAAAAGCGCAGCTAATGC
23685384 CACTAAAGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 2 0.02
120 88 0.98
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (120 bp):
TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGCGTTTTTCAAAAAGCGCAACTAATACTCGAT
CAATAGCGGTGTTTTTCAAAAAGCGCAGCTAATGCTTGATCTATAATAGCATTTT
Found at i:23685566 original size:79 final size:80
Alignment explanation
Indices: 23685429--23685589 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 80
23685419 TAATTTTTTT
* * **
23685429 GCGGCGTTTTTTAAAAAGCACCGCTAATGCTCGACCTATAGTGGCATTTTTCAAAAAGCGTCGCT
1 GCGGCGTTTTTTAAAAAGCACCGCGAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCGCT
23685494 AATGCTCAATCTATA
66 AATGCTCAATCTATA
* * * * * **
23685509 GCGGTGTTTTTTGAAAAGC-GCGCGAATGCTCTATCTATAGCGGTGTTTTTCAAAAAGCACCGCT
1 GCGGCGTTTTTTAAAAAGCACCGCGAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCGCT
*
23685573 AATGCTCGATCTATA
66 AATGCTCAATCTATA
23685588 GC
1 GC
23685590 ATCAATTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 52 0.75
80 17 0.25
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (80 bp):
GCGGCGTTTTTTAAAAAGCACCGCGAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCGCT
AATGCTCAATCTATA
Found at i:23686264 original size:24 final size:24
Alignment explanation
Indices: 23686236--23686284 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23686226 AAGAAACTTG
23686236 ATATTTTACACGAATAAAAAAACT
1 ATATTTTACACGAATAAAAAAACT
23686260 ATATTTTACACGAATAAAAAAACT
1 ATATTTTACACGAATAAAAAAACT
23686284 A
1 A
23686285 GCAAAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (24 bp):
ATATTTTACACGAATAAAAAAACT
Found at i:23689610 original size:553 final size:552
Alignment explanation
Indices: 23687764--23691285 Score: 4832
Period size: 554 Copynumber: 6.4 Consensus size: 552
23687754 AAATCCTTTT
* * *
23687764 TCTTTGATTTTTAATGTTTTTTTCCTTTCATCCATTGTTTTTGTCGCCTACACCTCCCCTTTTAC
1 TCTTTGA-TTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTAC
* * * ** *
23687829 CATAT-TTTATTCTTCTTTTTGCATCAAGATTGTGCACCAAATCCTTTAATCTATTGCTGCCATT
65 CATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATT
* * *
23687893 TGTCCTCATCTAAATCAACACCAAATCTGAAATCTTAAACTCAAAGATCGATCCTAAACATTGCC
130 TGTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCC
* *
23687958 AAGAAAGTGCCATTACCGTTTCTCTCAATTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTT
195 AAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTT
* *
23688023 CATTAATCTTGCCAATTAAAAACTTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTT
260 TATTAATCTTGCCAATTAAAAACCTAAATTT-CAGATTTGGAATTTGGGAGAATTTTGATGATTT
* *
23688088 TAAATATATTTTTTCAATTTTTAAAGGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAA
324 TAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAA
*
23688153 TCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTG-TTTAATGTGTGTGTCGTCC
389 TCCCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCC
* * *
23688217 AAGCCGAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATTCTTCTCCT
454 AAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCC-
* *
23688282 TC-TTGCCCTAGTAATTCCTCTCCTCCTCTCATAT-
518 TCATTGCCCTACTCATTCCTCTCCTCCTCTCAT-TC
* * * * *
23688316 TCTTTGATTTTAATATTTTTTTCCTTTCCTCCATTGTTGTTGTCACCCACACCTCCCATTTTACC
1 TCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
*
23688381 ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTT
66 ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTT
* * *
23688446 GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTAAACACCAAGATCGATCGTAAACATTGCCA
131 GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
* * * *
23688511 AGAAAGTGGCATTATCGTTTCTCTGAACTAGCTTTGGTAAGATCTCTTCTTTCTTCAATTTTTTT
196 AGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAA--TTTTT
* * * *
23688576 TTACTAATCTTGCCAATTAAAAACCTAAATTTCAAATTTTAGAATTTGGGAGAATTTTAATGATT
259 TTATTAATCTTGCCAATTAAAAACCTAAATTTCAGA-TTTGGAATTTGGGAGAATTTTGATGATT
* * * *
23688641 TTAAATATATTTTTTTAGTTTTTTAATGGGTCTTTAAATCGTCTTTAAATCTGTCCCAAGTTCAA
323 TTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAA
* * *
23688706 ATCCCTTCTCTAGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTCTGTGTTGTC
388 ATCCCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTC
* * * *
23688771 CAAGCCTAGAAAACCTAGGTATAAGTACTATTTTTTTTACAAATAATCAGCCTTTAATCCTCCTT
453 CAAGCCTAGTAAACCTAGGTATAAGTATTA-TTTTTTCACAAATAATCAGCCTTTAATCCTCCTC
* ** * *
23688836 CTCATTGCTCTAGACATTCCTCTCCTCCTTTTATTC
517 CTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTC
* *
23688872 TCTTTGATTTTAAT-TTTTTTTTCCTTTCCTCCATTGTTGTTATCGCCTACACCTCCTCTTTTAC
1 TCTTTGATTTTAATGTTTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTAC
* * *
23688936 CATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTATAACCTATTGCTTCCAGT
65 CATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATT
* * * *
23689001 TATCCTCA-CATAAATCAGCACCAAATCTAAAATCTTGAACAT-CAACATCGATCCTGAACATTG
130 TGTCCTCATC-TAAATCAGCACCAAATCTGAAATCTTGAAC-TCCAAGATCGATCCTAAACATTG
* * * * *
23689064 CCAAGAAAGTGCCATAATCGTTTCTTTCAACTAGCTTCGGTAATAGCTCTTATTTCTTCAATTTT
193 CCAAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTT
*
23689129 TTGATTAATCTTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGAT
258 TTTATTAATCTTGCCAATTAAAAACCTAAATTTC-AGATTTGGAATTTGGGAGAATTTTGATGAT
* * * *
23689194 TTTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAAGCGTACTTAAATTAGTCCCAGGTTCA
322 TTTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCA
* *
23689259 AATCCCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCTCTTGTTTTGATGTGTGTGTCGT
387 AATCCCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGT
* ** * *
23689324 CCAAGCCTACTAAACCTAGACATAAGTATTATTTTTTCACAAATAATCAGACTTTAATCCTTCTC
452 CCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTC
* * *
23689389 CTCATTTCCCAAGTCATTCCTCTCCTCCTCTCATTC
517 CTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTC
23689425 TCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
1 TCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
* * * * * *
23689490 ATCTCTTTCTTTTTCTTTTTGTACCAAGATTGTTCACCATCTCCTTTAATCTATTTCTTTCGTTT
66 ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTT
* * * * * * *
23689555 ATCCTTATCTAAATCAACACCAAATCTAAAATATTGAACTCGAAGATCGATCCTGAACATTGCCA
131 GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
* *
23689620 AGAAAGTGACATTATCGTTTCTCTCAACTAGCTTGGGTAAGAACTCTTCTTTCTTCAATTTTTTT
196 AGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTT
* * * * *
23689685 ATTAATGTTTCTAATTAAAAACCTAAATTTAAAGATTTGGAATTTGGGAGAATTTTAATGATTTT
261 ATTAATCTTGCCAATTAAAAACCTAAATTT-CAGATTTGGAATTTGGGAGAATTTTGATGATTTT
* * * *
23689750 AAATATATATTTTTCAAATTTTTAATGGTTCTTTAAATCATATTTAAATTAGTCCCAAGTTCAAA
325 AAATATAT-TTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAA
* * * *
23689815 TCCCTTCTCCTGCAAACAATTTAATTTTTTTTTGACAAAAACCCCTTGTTTTATTGTGTGTGTCA
389 TCCCTTCTCTTGCAAATAATTT-A--TTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCG
* * * * *
23689880 TCCAATCCTAGTAAACCTAGGCATAAGTATTATTTTCTCACAAATAATCAGCCTTTAACCCACCT
451 TCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCT
* *
23689945 CCTTATTGCCCTACTCATTCATCTCCTCCTCTCATTC
516 CCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTC
* * * *
23689982 TCTTTGATTTTAATGATTTTTTCCTTTCCTCCATTGTTGTTGTTGCCTACACCTCCCATTTTACC
1 TCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
*
23690047 ATCTCTTTCTT-TT-TTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTT
66 ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTT
* * * * *
23690110 GTCCTC-TTTCAAATCAGCACCAAATCTGAAATCTTGAACTCCAAAATCGACCCTGAACATTGCT
131 GTCCTCATCT-AAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCC
* *
23690174 AAGATAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTC-ATTTTTT
195 AAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTT
* * *
23690238 TATTCATCTTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTAGGAGAACTTTGATGATTT
260 TATTAATCTTGCCAATTAAAAACCTAAATTTC-AGATTTGGAATTTGGGAGAATTTTGATGATTT
* * *
23690303 TAAATATATTTTCTC-AGTTTTTAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAA
324 TAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAA
* * *
23690367 TCTCTTCT-TCTGCAAATAATTTAATTTTTTTTGTC-AAAACCCACTTGTTTTAATGTGTGCGTC
389 TCCCTTCTCT-TGCAAATAATTT-A-TTTTTTTGACAAAAACCC-CTTGTTTTAATGTGTGTGTC
* * * *
23690430 ATCCAAGCCTAGTAAACCTAGGTATATAAGTATTATTTTATCACAAATGATCAGCCTTTAATCCA
450 GTCCAAGCCTAGTAAACCTAGG--TATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCT
* *
23690495 CCTCCTCATTTCCCTACTCATTCATCTCCTCCTCTCATTC
513 CCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTC
* *
23690535 TCTTTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCCACACCTCCCATTTTAC
1 TCTTTGATTTTAATGTTTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTAC
* *
23690600 CATCTCATTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATT
65 CATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATT
* * *
23690665 TGTCCTCATCTAAATCAGCACCAAATCTGAAATATTGACCTCCAAGGTCGATCCTAAACATTGCC
130 TGTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCC
* * * *
23690730 AAGAAAGTGTCACTATCGTTTCT-TAGAACTAGCTTTGGTAAGAGCT-TTGCTTTCTTCAATTTT
195 AAGAAAGTGCCATTATCGTTTCTCT-CAACTAGCTTGGGTAAGAGCTCTT-CTTTCTTCAA-TTT
* * * *
23690793 TTTTACTAAACCTT-CCAATTAAAAACCTAAATTTCAAATTTTGTAATTTGGGAGAATTTTGATG
257 TTTTA-TTAATCTTGCCAATTAAAAACCTAAATTTCAGA-TTTGGAATTTGGGAGAATTTTGATG
* * * * * * * * **
23690857 ATTTTAAATACATTTTTTTAGTTTTTTAATTGGTCTTCAAATCGAATGTAAATCAATCCTGAGTT
320 ATTTTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTT
* * ** *
23690922 CAAATCCCTTCTTTTGCAAACAATTTAAATTTTTGACAAAACCCCCTTGTTTTAATGTGTGTGTC
385 CAAATCCCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTC
* * ** * * *
23690987 GTCCAAGCTTAGTAAACCTAGGTGTAAGTGCTATTCTTTCACAAATAATTAGTCTTTAATCCTCC
450 GTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCC
*
23691052 TCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCAATC
515 TCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTC
* * * * *
23691090 TATTTGATTTTAAT-TTTTTTTTCTTTTCCTCCATTGTTGTTCTGGCTTACACCACCCCTTTTAC
1 TCTTTGATTTTAATGTTTTTTTTC-TTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTAC
* * * * *
23691154 CATCTTTTTCTTCTTCTTGTTGCATCACGATTGTGCACCATATCCTTTAATCTATTGCTTCCATT
65 CATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATT
* *
23691219 T-TCCCTCATCTACATCAGCACCAAATCTGAAATCTTGAACTCAAAGATCGATCCTAAACATTGC
130 TGT-CCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGC
23691283 CAA
194 CAA
23691286 TTAAAAACTT
Statistics
Matches: 2640, Mismatches: 289, Indels: 80
0.88 0.10 0.03
Matches are distributed among these distances:
550 7 0.00
551 104 0.04
552 241 0.09
553 456 0.17
554 730 0.28
555 293 0.11
556 425 0.16
557 247 0.09
558 74 0.03
559 62 0.02
560 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (552 bp):
TCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTT
GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
AGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTT
ATTAATCTTGCCAATTAAAAACCTAAATTTCAGATTTGGAATTTGGGAGAATTTTGATGATTTTA
AATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATC
CCTTCTCTTGCAAATAATTTATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAA
GCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCA
TTGCCCTACTCATTCCTCTCCTCCTCTCATTC
Found at i:23693865 original size:555 final size:553
Alignment explanation
Indices: 23691278--23694501 Score: 4309
Period size: 558 Copynumber: 5.8 Consensus size: 553
23691268 GATCCTAAAC
*
23691278 ATTGCCAATTAAAAACTTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
1 ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
* * * *
23691343 ATTTTTTCAATTTTTTAAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTGAAATTCCTT
66 ATTTTTTC-AGTTTTT-AATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTT
* * *
23691408 TTCTTGCAAATAATTTAATTTTTTGAC-AAAACCACATTGTTATAATGTGTGTGTCGTCCAAGCC
129 CTCTTGCAAATAATTTAATTTTTTGACAAAAACC-CCTTGTTTTAATGTGTGTGTCGTCCAAGCC
23691472 TAGTAAACCTAGGTATAAGTATT-ATTTCTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATT
193 TAGTAAACCTAGGTATAAGTATTAATTT-TTCACAAATAATCAGCCTTTAATCCTCCTCCTCATT
* * * * *
23691536 TCCCTATTCATTCCGCTCCTCCCCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTTGCCTCCAT
257 GCCCTATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAAT-ATTTTTTTCTTTTCCTCCAT
** * *
23691601 TGTTGTTGTCATCTACACCTCCCATTTTACCATCTCTTTATTTTTCTTTTTGTATCAAGATTGTG
321 TGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTG
* * * * * *
23691666 CACCATCTCCTTTAATCTATTGCTTCCATTTATCTTCATTTAAATCAGCACCTAATCTGAAATCC
386 CACCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCT
* * * * *
23691731 TGCACCCCAAGATCGATCCTGAACATTGCCAAGAAAGT-GTATTTGTCGTTTCTCTCAACTAGCT
451 TGAACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCA-TTATCGTTTCTCTCAACTAGCT
* *
23691795 TGGGTTAGAGCTTTTCTTTCTTC-A-TTTTTTTATTAAT
515 TGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTTATTAAT
* * *
23691832 CTTGCCAATTAAAAATCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTT-AAT-T
1 ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
* *
23691895 -TTTTTTCATTTTTTTAATGCGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTC
66 ATTTTTTCA-GTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTC
* * *
23691959 T-TTAG-AAATAATTTAATTTTTTGACAAAAGCCCATTGTTTTAATGTGTGTGTCGTCCAAGCTT
130 TCTT-GCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCT
* *
23692022 AGTAAACCTAGGTATAAGTATT-A---TT------T--TC--CC-TTAATCCACCTTCTCATTGC
194 AGTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
* * *
23692072 CCTACTT-ATTCATCTCCTCCTCTCATTCTATTTGATTTTAATGA-TTTTTTCCTTTCCTCCATT
259 CCTA-TTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAAT-ATTTTTTTCTTTTCCTCCATT
*
23692135 GTTGTTGTTGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGC
322 GTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGC
*
23692200 ACCATCCCCTTTAATCTATTGCTAT-CATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCT
387 ACCATCTCCTTTAATCTATTGCT-TCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCT
* *
23692264 TGAACTCCAAGATCAATCCTAAACATTGCCAAGAAAGTGGTATTATCGTTTCTCTCAACTAGCTT
451 TGAACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTT
*
23692329 AGGTAAGAGCTCTTCTTTCTTC-ATTTTTTTTATTAAT
516 GGGTAAGAGCTCTTCTTTCTTCAATTTTTTTTATTAAT
* * * *
23692366 CA-TGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTTGGAGAATTTTTATTATTTTAAATA
1 -ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATA
* * *
23692430 TATTTTCTCAGTTTTTTAATGGCTCTTTAAATCGTATTTAAATCAATCCCAAGTTCAAATCCCTT
65 TATTTTTTCAG-TTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTT
*
23692495 CTCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTG-TTTAATGTGTGTGTCGTCCAAGCCG
129 CTCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCT
* * *
23692559 AGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATTCTTCTCCTCATTGC
194 AGTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
* * * * * * * *
23692624 TCGAGTAATTCCACTCCTCCTCTCATTTTCTTTGATTTTAATGTTTTTTTTTCTTTCCTCCATTG
259 CCTATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATATTTTTTTCT-TTTCCTCCATTG
* *
23692689 TTGTTGTCACCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGAATCAAGATTGTGCA
323 TTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCA
* *
23692754 CCATCCCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTA
388 CCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTG
* *
23692819 AACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTGAACTAGCTTTG
453 AACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGG
* * * *
23692884 GTATGAGGATCTTCTGTCTTCAATTCTTTTTTTTACTAAT
518 GTAAGA-GCTCTTCTTTCTTCAA---TTTTTTTTATTAAT
* * *
23692924 CTTTG-CAATTAAAAACCTAAATTTCAAAATTTGGAATTTGGGAGAATTTTGATGATTTTAAATA
1 -ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATA
* * * *
23692988 TATTTTTTCAGTTTTTTAATGGGTCTTGAAATCGTATGTAAATCAATCCCCAGTTCAAATCCCTT
65 TATTTTTTCAG-TTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTT
* * * *
23693053 CTCTTGCAAATAGTTTAATTTTTTGACAAAACCCCCTTATTTTAA--TGTGTGTCATCCAAGCCT
129 CTCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCT
* * * * * * ** *
23693116 AGTAAATCAAGGTATAAATTTTATTTTTTTACAAATAATCAATCTTTAATCCTCCTCCT-AGTTA
194 AGTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCA-TTG
* * * * * * *
23693180 TCCTACTCATTCCTTTCCTCCTCTCAATCTATTTGATTTTAATGTTTTTTTTTCTTTTCCTCTAT
258 CCCTATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAA--TATTTTTTTCTTTTCCTCCAT
* * * * * *
23693245 TTTTGTTCTGGCCTACACCATTCC-TTTTACCATCTCTTTCTTCTTCTGTTTGTATCAATATTGT
321 TGTTGTTGTCGCCTACACC-TCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGT
*
23693309 GCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCTA-CACCAAATCTAAAAT
385 GCACCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATC-AGCACCAAATCTAAAAT
* * * * *
23693373 CTTGAACTCGAATATCGATCCTGAACATT-CCTAAGAAAATGGCATTATCTTTTCTCTCAACTAG
449 CTTGAACTCCAAGATCGATCCTAAACATTGCC-AAGAAAGTGGCATTATCGTTTCTCTCAACTAG
* * * *
23693437 TTTGGGTAAGAGGTCTTATTTCTTCAATTTTTTTTTACTAAT
513 CTTGGGTAAGAGCTCTTCTTTCTTCAA-TTTTTTTTATTAAT
* * * *
23693479 ATTGCCATTTAAAAACCTAAATTTCCAGATTTTGAATTTGAGAGAATTTTGATTATTTTAAATAT
1 ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
* * *
23693544 ATTTTTTCAGTTTTTAATGGGTCTTTAAATCATATTTTAATCAGTCTCAAGTTCAAATCCCTTCT
66 ATTTTTTCAGTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
* * **
23693609 CTTACAAATAATTTAATTTTTTTGACAAAAACCCCTTGTTTTAATTTGTGTGTCGTCTGAGCCTA
131 CTTGCAAATAATTTAA-TTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTA
* *
23693674 GTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAACATTTAATCCTCCTCCTCATTGCC
195 GTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCC
* * * *
23693739 CTATTCATTCCTCTCCTCCTCCCATTCTCTTTGATTTCTAATATTCTTTTCTTTTCATCTATTGT
260 CTATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTT-TAATATTTTTTTCTTTTCCTCCATTGT
* * * *
23693804 TGTTGTCGCGTACACCTCCCCTTTTACCATCTTTTTCTTCTT-TTTTTGTAGCAAGATTGTGCAC
324 TGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCAC
* * * *
23693868 CATATCATTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAACACCAAATCTGAAATCTTGA
389 CATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGA
* * * *
23693933 ACTCAAAGATCAATCCTAAACATTTCCAAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGG
454 ACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGG
23693998 TAAGAGCTCTTCTTTCTTCAA-TTTTTTTATTAAT
519 TAAGAGCTCTTCTTTCTTCAATTTTTTTTATTAAT
* * * *
23694032 CTTGCCCAGTAAAAACTTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
1 ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
* *
23694097 ATTTTTTCAATTTTTTAAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTT
66 ATTTTTTC-AGTTTTT-AATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTT
*
23694162 CTCTTGCAAATAATTTAATTTTTTGACAAAAACCCTTTGTTTTAATGTGTGTGTCGTCCAAGCCT
129 CTCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCT
*
23694227 AGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
194 AGTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
* ** * * *
23694292 CTTAGCCATTCCTCTCCTCCTCTCATTCTCTTTGATTTT-CT-TTTTTTTCCTTTCTTCCATTGT
259 CCTATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATATTTTTTTCTTTTCCTCCATTGT
* * * * * *
23694355 TGTTGTTGCATGCACCTCCCCTTTTGCCATCTCTTTCGTCTTCTTTTTGTATCAAGATTGTGCAC
324 TGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCAC
* * * *
23694420 CATCTCCGTTAATCTATTGCTTACATTTGTCCTCATCTAAATCAGCACCAAATTTGAAATCTTGA
389 CATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGA
*
23694485 ATTCCAAGATCGATCCT
454 ACTCCAAGATCGATCCT
23694502 GAATGTAACA
Statistics
Matches: 2359, Mismatches: 253, Indels: 118
0.86 0.09 0.04
Matches are distributed among these distances:
533 208 0.09
534 123 0.05
535 7 0.00
536 1 0.00
537 107 0.05
538 32 0.01
539 1 0.00
541 2 0.00
545 2 0.00
547 1 0.00
549 76 0.03
550 52 0.02
551 70 0.03
552 152 0.06
553 283 0.12
554 278 0.12
555 321 0.14
556 56 0.02
557 216 0.09
558 351 0.15
559 20 0.01
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (553 bp):
ATTGCCAATTAAAAACCTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
ATTTTTTCAGTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
CTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAG
TAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCC
TATTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATATTTTTTTCTTTTCCTCCATTGTTG
TTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCA
TCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAAC
TCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTA
AGAGCTCTTCTTTCTTCAATTTTTTTTATTAAT
Found at i:23696028 original size:43 final size:43
Alignment explanation
Indices: 23695967--23696123 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 43
23695957 GTATAATGTC
* * *
23695967 ATGTCCCAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * * *
23696010 ATGTCCCAAACATGGTCTTACACGAAATCATATAACGATG-CA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
*
23696052 ATGTCCCAGACATGGTCTTACACGTAATAACAATAT-GATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCAC-ATATCGATGCCA
*
23696095 ATGTCCCAGACATGGTCTTACACATAATC
1 ATGTCCCAGACATGGTCTTACACGTAATC
23696124 TCATCTCGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 33 0.34
43 65 0.66
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
Found at i:23698104 original size:17 final size:17
Alignment explanation
Indices: 23698082--23698120 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
23698072 AATCATATTT
23698082 AAATCAGTCCCAAGTTG
1 AAATCAGTCCCAAGTTG
23698099 AAATCAGTCCCAAGTTG
1 AAATCAGTCCCAAGTTG
23698116 AAATC
1 AAATC
23698121 CCTTCTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (17 bp):
AAATCAGTCCCAAGTTG
Found at i:23698906 original size:553 final size:552
Alignment explanation
Indices: 23697341--23699767 Score: 3436
Period size: 553 Copynumber: 4.4 Consensus size: 552
23697331 AGCTGTTACA
* *
23697341 CTGAACATTGCCATGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTTGGTAAGAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* * * * * * *
23697406 CTTAAATTTTTTTACTAA-CTTGCCAATTAAAAAACTAAGTTTCCAAATTTGGAATTTAGGAGAA
66 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGAA
* * * * * *
23697470 TTTTGAAGATTTTAAATATATTTTTTTAGTTTTTTAACGAGTCTTTAAATCGTATTTAAATCAGT
131 TTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGT
* * * * * *
23697535 CCCTAGTTCAAATCCTTTCTATTGCAAACAGTTTAATTTTTTGACAAAAACCCCTTGTTTTAATG
196 CCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAA-CCATTGTTTTAATG
* * *
23697600 TGTGTGTCATCCAAGCCTAATAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCATTT
260 TGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTT
* * * * *
23697665 AGTCCTTCTCCTCATTG-CCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTAATTTTAATGTTTT
325 AATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATG--TT
* * * * * *
23697729 CTTTTTCTTTTTCTCTATCGTCGTTGTCGCCTACACCTTCCATTTTACCATCTCTTTCTTCTTCT
388 -TTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCT
* * * **
23697794 TTTTGTATCAAGATTGTGCTCCATCTCTTTTAATCTATTGATTCCATTTATCCTCATCTAAGCCA
452 TTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCA
* *
23697859 GCACAAAATCTGAAATCTTAAACTCCAAGATCGATC
517 GCACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* *
23697895 CTGAACATTTCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAAAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* *
23697960 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAAACTAAATTTCCAGATTTGGAATTTGGGAGAA
66 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGAA
*
23698025 TTTTTATGATTTTAAATATATTTTTTCAGTTTTTTAATGGGTTTTTAAATCATATTTAAATCAGT
131 TTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGG--------TC---TTTAAATC-GT
* *
23698090 CCCAAGTTGAAATCAGTCCCAAGTTGAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAT
184 ----A-TTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAA-
* * * *
23698155 AACCCCTTGTTTTAATGTGTGTTTCATCCAAAACTAGTAAACCTAGGTATAAGTATTATTTTTTC
243 AAACCATTGTTTTAATGTGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTC
* * *
23698220 ACAAATAATCAGCCTTTAATCCTCCTCCTCTTTGCCCTACTCATTCCTCTCATCCTCTCTTTCTA
308 ACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTA
* * *
23698285 TTTGATTTTAATGTTTTTTTCGTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTATCAT
373 TTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCAT
* *
23698350 CTCTTTCTTCTTCTTTTTGCATCAAGATTGTGCACCGTCTCCTTTAATCTATTGCTTCCATTTAT
438 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTAT
* * * *
23698415 CCTCATGTAAATCAGCACCAAATCTAAAATCTTGAACTGCAAGATTGATC
503 CCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* * *
23698465 CTGAACATTACCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAGGAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* *
23698530 CTTCTATTTTTTTTATTAATCTTACCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
66 CTTC-AATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
*
23698595 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGGTCTTTAAATCATATTTAAATCAG
130 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAG
*
23698660 TCCCAAGTTGAAAT-CCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCATTGTTTTAATG
195 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCATTGTTTTAATG
*
23698724 TGTGTGTCGTCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTTCACAAATAATCAGCCTT
260 TGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTA-TTTTTTCACAAATAATCAGCCTT
* * *
23698789 TAATTCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTTAGTTTAATGTTT
324 TAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATGTTT
23698854 TTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTT
389 TTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTT
* * * *
23698919 TTGTATCAAGATTGTTCACCATCTCCTTTAATTTATTGCTTCTATTTATCCTCATCTAAATCAAC
454 TTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGC
* *
23698984 ACCAAATCTGAAATCTTGAACTCCAATATTGATC
519 ACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* *
23699018 CTGAATATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTGTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* *
23699083 CTTCAAATTTTTTTATTAATCTTGCCAATTAAATACCTAAATTTCCATATTTTGAATTTGGGAGA
66 CTTC-AATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
* * * *
23699148 ATTTTGATGATTTTAAATATATTTTTTCA-GTTTTTAATGGATCTTTAAATCGTA-TTAAATCAC
130 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAG
*
23699211 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAGCCTATTGTTTTAAT
195 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACC-ATTGTTTTAAT
* * *
23699276 GTGTGTTTCATCCAAGCCTAGTAAACCTAGGTATAAGTATTA-TTTTTCACAAATAATCAGTCTT
259 GTGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTT
* * * *
23699340 TAATCCTCCTCCTCATTTCCCTAGTCATTCCTCTCCTCCTTTTATTCTATTTGATTTTAAT-TTT
324 TAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATGTTT
* * * * * *
23699404 TTTTCCTTTCCTCCATGGTTATTGTCGCGTACACCTCCCCTTTTACCATATCCTTCTTCTTCTTT
389 TTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTT
*
23699469 TTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATTCTCATCTAAATCAGC
454 TTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGC
* *
23699534 ACCAAATTTGAAGTCTTGAACTCCAAGATCGATC
519 ACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* * * *
23699568 CTGAACATTGCCAAGAAAGTGTCATAATCGTTTCTTTCAACTAGCTTGGGTAAGGGCTCTTCATT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* * **
23699633 CTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAAATTATAGA-TTTGTAA-TTGTGGAG
66 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTG-AATTTG-GGAG
* *
23699696 AATTTTTATGATTATAAATAT-TTTTCTTCTAC-TTTTTAATGGGTCTTTAAATTGTATTTAAAT
129 AATTTTTATGATTTTAAATATATTTT-TTC-ACTTTTTTAATGGGTCTTTAAATCGTATTTAAAT
* *
23699759 TAGTGCCAA
192 CAGTCCCAA
23699768 TTTTAGCCAC
Statistics
Matches: 1692, Mismatches: 151, Indels: 63
0.89 0.08 0.03
Matches are distributed among these distances:
548 11 0.01
549 66 0.04
550 238 0.14
551 108 0.06
552 112 0.07
553 464 0.27
554 100 0.06
555 80 0.05
559 1 0.00
560 8 0.00
563 4 0.00
566 8 0.00
567 2 0.00
570 211 0.12
571 100 0.06
572 139 0.08
573 40 0.02
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (552 bp):
CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGAA
TTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGT
CCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCATTGTTTTAATGT
GTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTA
ATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATGTTTTT
TTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTT
GTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCAC
CAAATCTGAAATCTTGAACTCCAAGATCGATC
Found at i:23702627 original size:7 final size:7
Alignment explanation
Indices: 23702615--23702640 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23702605 GATATAATTA
23702615 ATATGTG
1 ATATGTG
23702622 ATATGTG
1 ATATGTG
23702629 ATATGTG
1 ATATGTG
23702636 ATATG
1 ATATG
23702641 AATATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
ATATGTG
Found at i:23703323 original size:20 final size:21
Alignment explanation
Indices: 23703285--23703324 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
23703275 AGTTGAAACG
*
23703285 AGAAAGAATTTGATGTGATAGT
1 AGAAAGAA-TTGATATGATAGT
23703307 AGAAAGAA-TGATATGATA
1 AGAAAGAATTGATATGATA
23703325 TGTTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (21 bp):
AGAAAGAATTGATATGATAGT
Found at i:23707558 original size:18 final size:19
Alignment explanation
Indices: 23707531--23707572 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
23707521 ACTTTTTTCT
* *
23707531 TTTTATTTCCCCT-AAAAG
1 TTTTACTTCCCCTCAAAAA
23707549 TTTTACTTCCCCTCAAAAA
1 TTTTACTTCCCCTCAAAAA
23707568 TTTTA
1 TTTTA
23707573 GTTCTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTACTTCCCCTCAAAAA
Found at i:23707896 original size:17 final size:17
Alignment explanation
Indices: 23707864--23707896 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23707854 TAAAAAAATC
23707864 ATATTTTTTTACATTTA
1 ATATTTTTTTACATTTA
23707881 ATATATTTTTTA-ATTT
1 ATAT-TTTTTTACATTT
23707897 CAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTTTTACATTTA
Found at i:23708881 original size:10 final size:10
Alignment explanation
Indices: 23708866--23708901 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
23708856 TAATTCTAGG
23708866 ATTTAT-TTT
1 ATTTATCTTT
23708875 CATTTATCTTT
1 -ATTTATCTTT
23708886 ATTTATCTTT
1 ATTTATCTTT
23708896 ATTTAT
1 ATTTAT
23708902 TTGTGATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:23721063 original size:23 final size:23
Alignment explanation
Indices: 23721033--23721078 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23721023 AGGACTGTAT
23721033 GATATTCTTTGATGTATTTTCTA
1 GATATTCTTTGATGTATTTTCTA
23721056 GATATTCTTTGATGTATTTTCTA
1 GATATTCTTTGATGTATTTTCTA
23721079 TGTAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.57
Consensus pattern (23 bp):
GATATTCTTTGATGTATTTTCTA
Found at i:23722529 original size:20 final size:21
Alignment explanation
Indices: 23722492--23722530 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23722482 TTCAGTTCAA
*
23722492 AGGGAGACCAAGAAAAGAAAG
1 AGGGAGAACAAGAAAAGAAAG
23722513 AGGGAGAACAA-AAAAGAA
1 AGGGAGAACAAGAAAAGAA
23722531 CAATTGCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (21 bp):
AGGGAGAACAAGAAAAGAAAG
Found at i:23734004 original size:16 final size:16
Alignment explanation
Indices: 23733979--23734009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23733969 ATGGAAATGA
23733979 AATTTCTTTTTCTTTT
1 AATTTCTTTTTCTTTT
*
23733995 AATTTTTTTTTCTTT
1 AATTTCTTTTTCTTT
23734010 CCTACCAAAT
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:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
AATTTCTTTTTCTTTT
Found at i:23738305 original size:18 final size:18
Alignment explanation
Indices: 23738282--23738319 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23738272 ATTCAGTGTA
23738282 AATAATCTAAAGAATTTG
1 AATAATCTAAAGAATTTG
23738300 AATAATCTAAAGAATTTG
1 AATAATCTAAAGAATTTG
23738318 AA
1 AA
23738320 GGAACAAAGT
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:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (18 bp):
AATAATCTAAAGAATTTG
Found at i:23739719 original size:17 final size:18
Alignment explanation
Indices: 23739697--23739731 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23739687 TTGGAGTCTT
*
23739697 TTTTTTTTAAA-ATTTTA
1 TTTTTTATAAATATTTTA
23739714 TTTTTTATAAATATTTTA
1 TTTTTTATAAATATTTTA
23739732 AGTTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATAAATATTTTA
Found at i:23747813 original size:18 final size:19
Alignment explanation
Indices: 23747779--23747818 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23747769 AACTTTATAC
*
23747779 TTTTTAAAATTAATTTTTA
1 TTTTTAAAATTAATTTTAA
*
23747798 TTTTTAAAA-TATTTTTAA
1 TTTTTAAAATTAATTTTAA
23747816 TTT
1 TTT
23747819 ATGTTTGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTAAAATTAATTTTAA
Found at i:23748800 original size:57 final size:58
Alignment explanation
Indices: 23748735--23748856 Score: 194
Period size: 57 Copynumber: 2.1 Consensus size: 58
23748725 TTCCAGGTCA
*
23748735 TTTTTCATTTTCATTTTGGAGAAAACCACATTT-ATTTCCAAATGTTTC-CATTTCTCC
1 TTTTTCATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAA-ATTTCTCATTTCTCC
*
23748792 TTTTTCATTTTCATTTTGGAGAAAACCATATTTCATTTCCAAAATTTCTCATTTCTCC
1 TTTTTCATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAAATTTCTCATTTCTCC
*
23748850 ATTTTCA
1 TTTTTCA
23748857 CCATTTTTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
57 36 0.60
58 24 0.40
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.48
Consensus pattern (58 bp):
TTTTTCATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAAATTTCTCATTTCTCC
Found at i:23773405 original size:27 final size:27
Alignment explanation
Indices: 23773365--23773475 Score: 170
Period size: 27 Copynumber: 4.1 Consensus size: 27
23773355 AGGAAGCGTC
* * *
23773365 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
23773392 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
23773419 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
23773446 CTGGTGGCTCTGTCACAT-TATCTTTT
1 CTGGTGGCTCTGCCACATATATCTGTT
23773472 CTGG
1 CTGG
23773476 CAGCCACGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
26 11 0.14
27 68 0.86
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:23775550 original size:26 final size:26
Alignment explanation
Indices: 23775521--23775679 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 26
23775511 TGGTACAAAT
23775521 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23775547 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23775573 -GATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
23775598 TGATAATGGATTAGGCAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23775624 TGATAATGGGTTAAGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23775650 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23775676 TGAT
1 TGAT
23775680 GGGCATTTCA
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
25 23 0.20
26 94 0.80
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23775582 original size:51 final size:52
Alignment explanation
Indices: 23775521--23775679 Score: 266
Period size: 51 Copynumber: 3.1 Consensus size: 52
23775511 TGGTACAAAT
23775521 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
23775573 -GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGCAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * * *
23775624 TGATAATGGGTTAAGTAAATGTTCTATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
23775676 TGAT
1 TGAT
23775680 GGGCATTTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
51 50 0.50
52 50 0.50
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:23775817 original size:42 final size:42
Alignment explanation
Indices: 23775758--23775841 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
23775748 GGGTGAAAAG
23775758 AACAAAGTTTTGTCCATCTTTGTTCATCATAGCCGAAAGTTA
1 AACAAAGTTTTGTCCATCTTTGTTCATCATAGCCGAAAGTTA
23775800 AACAAAGTTTTGTCCATCTTTGTTCATCATAGCCGAAAGTTA
1 AACAAAGTTTTGTCCATCTTTGTTCATCATAGCCGAAAGTTA
23775842 GAGAAGAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (42 bp):
AACAAAGTTTTGTCCATCTTTGTTCATCATAGCCGAAAGTTA
Found at i:23777237 original size:26 final size:26
Alignment explanation
Indices: 23777207--23777259 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23777197 TTTATAGTTT
23777207 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23777233 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23777259 T
1 T
23777260 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23780024 original size:47 final size:47
Alignment explanation
Indices: 23779967--23780270 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
23779957 ATTGATGTAC
* * *
23779967 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
23780014 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23780063 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23780110 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23780157 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23780204 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
23780251 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
23780271 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:23780148 original size:22 final size:22
Alignment explanation
Indices: 23780121--23780242 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
23780111 CATGTGTATG
23780121 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
23780143 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
23780168 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
23780190 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
23780215 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
23780237 TGTGAT
1 TGTGAT
23780243 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:23782886 original size:40 final size:40
Alignment explanation
Indices: 23782827--23783196 Score: 451
Period size: 40 Copynumber: 9.1 Consensus size: 40
23782817 AGGTCTCGAC
23782827 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23782866 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23782906 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
23782946 GATGTA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
23782985 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATTTCGATGCTATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAG----CA-TTC---G---TGCTAGT
* *
23783036 GATGTAT-CGGGACTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGG-CTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
23783076 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
23783115 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
23783155 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
23783195 GA
1 GA
23783197 CGTGTATTCG
Statistics
Matches: 295, Mismatches: 20, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
39 78 0.26
40 171 0.58
41 3 0.01
43 1 0.00
44 2 0.01
45 3 0.01
46 3 0.01
47 2 0.01
48 1 0.00
50 4 0.01
51 27 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:23782992 original size:79 final size:80
Alignment explanation
Indices: 23782827--23783196 Score: 451
Period size: 79 Copynumber: 4.5 Consensus size: 80
23782817 AGGTCTCGAC
*
23782827 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
*
23782891 AGCATTCATGCTAGT
66 AGCATTCGTGCTAGT
23782906 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA-CCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
23782970 AGCATTCGTGCTAGT
66 AGCATTCGTGCTAGT
23782985 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATTTCGATGCTATGCTAGTGATGTAT-CGGGAC
1 GATGTATCCGGGCTAAGTCCCGAAGAG----CA--T---T-C-ATGCTAGTGATGTATCCGGG-C
* *
23783049 TAAGTTCTGAAGAGCATTCGTGCTAGT
54 TAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * * **
23783076 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
*
23783140 AGCATTCGTGCTGGT
66 AGCATTCGTGCTAGT
* * * *
23783155 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
23783197 CGTGTATTCG
Statistics
Matches: 254, Mismatches: 21, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
79 112 0.44
80 66 0.26
81 1 0.00
83 2 0.01
84 1 0.00
85 1 0.00
86 2 0.01
88 1 0.00
89 1 0.00
90 27 0.11
91 40 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
AGCATTCGTGCTAGT
Found at i:23783137 original size:130 final size:130
Alignment explanation
Indices: 23782898--23783146 Score: 376
Period size: 130 Copynumber: 1.9 Consensus size: 130
23782888 AAGAGCATTC
* *
23782898 ATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCGGGCTAAGT
1 ATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATACCGGGCTAAGA
* **
23782963 CCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATTTCGATGCT
66 CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATTTCGATGCT
* * * *
23783028 ATGCTAGTGATGTAT-CGGGACTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA
1 ATGCTAGTGATGTATCCGGG-CTAAGTCCCGAAGAGCATTCATGCTAGTGATATA-CCGGGCTAA
*
23783092 -ACCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTC
64 GACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTC
23783147 GTGCTGGTGT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
129 4 0.04
130 95 0.89
131 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (130 bp):
ATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATACCGGGCTAAGA
CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATTTCGATGCT
Found at i:23783141 original size:170 final size:170
Alignment explanation
Indices: 23782859--23783188 Score: 484
Period size: 170 Copynumber: 1.9 Consensus size: 170
23782849 AGAGCATTCG
* *
23782859 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGT
1 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGA
* ** *
23782924 CCCGAAGAGCATTCATGCTAGTGATGTACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
66 CCCGAAGAGCATTCATGCTAGTGATATACCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATA
*
23782989 TATCCGGGCTAAGTCCCGAAGAGCATTCATTTCGATGCTA
131 TATCCGGGCTAAGTCCCGAAGAGCAATCATTTCGATGCTA
* * * *
23783029 TGCTAGTGATGTAT-CGGGACTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-
1 TGCTAGTGATGTATCCGGG-CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAG
* * * *
23783092 ACCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGT
65 ACCCGAAGAGCATTCATGCTAGTGATATA-CCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGA
*
23783157 TATATCCGGGCTAGGTCCCGAAGAGCAATCAT
129 TATATCCGGGCTAAGTCCCGAAGAGCAATCAT
23783189 GCTAGTGACG
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
169 30 0.21
170 112 0.79
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (170 bp):
TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGA
CCCGAAGAGCATTCATGCTAGTGATATACCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATA
TATCCGGGCTAAGTCCCGAAGAGCAATCATTTCGATGCTA
Found at i:23786585 original size:47 final size:47
Alignment explanation
Indices: 23786528--23786831 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
23786518 ATTGATGTAC
* * *
23786528 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
23786575 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23786624 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23786671 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23786718 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
23786765 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
23786812 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
23786832 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:23786709 original size:22 final size:22
Alignment explanation
Indices: 23786682--23786803 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
23786672 CATGTGTATG
23786682 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
23786704 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
23786729 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
23786751 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
23786776 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
23786798 TGTGAT
1 TGTGAT
23786804 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:23789998 original size:12 final size:12
Alignment explanation
Indices: 23789981--23790011 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23789971 ACTCGGGGAA
23789981 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
23789993 GAGGCCGTGGTT
1 GAGGCCGTGGTC
23790005 GAGGCCG
1 GAGGCCG
23790012 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:23792723 original size:15 final size:15
Alignment explanation
Indices: 23792703--23792733 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23792693 GATGTGTATT
23792703 GATGCAAGAGGGTAA
1 GATGCAAGAGGGTAA
23792718 GATGCAAGAGGGTAA
1 GATGCAAGAGGGTAA
23792733 G
1 G
23792734 GTGGTCGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.42, T:0.13
Consensus pattern (15 bp):
GATGCAAGAGGGTAA
Found at i:23794927 original size:26 final size:26
Alignment explanation
Indices: 23794898--23795006 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
23794888 TAGTACAAAT
23794898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23794924 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23794950 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23794976 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23795002 TGATA
1 TGATA
23795007 GGCATTTCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23799976 original size:3 final size:3
Alignment explanation
Indices: 23799968--23800103 Score: 102
Period size: 3 Copynumber: 45.0 Consensus size: 3
23799958 TTCCACTTTC
* * * * * *
23799968 TAT TAT TAT TAT TTT TA- TAT TAT TAT T-T ACAT TGT TGT TGT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
23800012 TAT TAT TAT TCCT GAT T-T TAT TAT TATT TAT GTAT TAT TAT TAT TCT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT
23800059 TCAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 T-AT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23800104 GCTTTCATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
2 9 0.08
3 87 0.81
4 12 0.11
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23804882 original size:48 final size:48
Alignment explanation
Indices: 23804827--23805147 Score: 284
Period size: 48 Copynumber: 6.7 Consensus size: 48
23804817 AGGGTGAATT
* * *
23804827 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* * * * * *
23804875 GCCGATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCGTCTC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGA-G
* * * * * ** *
23804923 GCCGGTGCAATGTCCCAGACATGGTCTTACGCTGGCTCTCATAAGGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
** * * * *
23804971 GCCGATGCCATGTCCCAGACATTATCTTACACTAGCGCATATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * *
23805019 GCCGATGCTATGTCCTAGACATGGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* * * * * *
23805067 GCTGATGCTATGTCTCAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
**
23805115 GTAGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
23805148 GGCACTCATG
Statistics
Matches: 211, Mismatches: 60, Indels: 4
0.77 0.22 0.01
Matches are distributed among these distances:
47 1 0.00
48 210 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
Found at i:23804999 original size:96 final size:96
Alignment explanation
Indices: 23804826--23805159 Score: 382
Period size: 96 Copynumber: 3.5 Consensus size: 96
23804816 GAGGGTGAAT
* * * * *
23804826 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
* * * * * *
23804891 AAATATGGTCTTACACTAGCTCTCGTCTCAT
66 AGACATGGTCTTACACTAGCACTCATATCAA
* * * ***
23804922 TGCCGGTGCAATGTCCCAGACATGGTCTTACGCTGGCTCTCATAAGGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
** *
23804987 AGACATTATCTTACACTAGCGCAT-ATATCAA
66 AGACATGGTCTTACACTAGCAC-TCATATCAA
* * * * * *
23805018 TGCCGATGCTATGTCCTAGACATGGTCTTACACTGGCTCTCATGTTGTGGCTGATGCTATGTCTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
*
23805083 AGACATGGTCTTACACTAGCACACATATCAA
66 AGACATGGTCTTACACTAGCACTCATATCAA
** *
23805114 TGTAGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTC
23805160 ACCCAAATGT
Statistics
Matches: 197, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
96 196 0.99
97 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACTCATATCAA
Found at i:23805087 original size:144 final size:144
Alignment explanation
Indices: 23804827--23805096 Score: 333
Period size: 144 Copynumber: 1.9 Consensus size: 144
23804817 AGGGTGAATT
* * * * *
23804827 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGATCTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCA
* * * *
23804892 AATATGGTCTTACACTAGCTCTCGTCTCATTGCCGGTGCAATGTCCCAGACATGGTCTTACGCTG
66 AACATGGTCTTACACTAGCTCTCATCTCATGGCCGATGCAATGTCCCAGACATGGTCTTACGCTG
23804957 GCTCTCATAAGGTG
131 GCTCTCATAAGGTG
* * * * * *
23804971 GCCGATGCCATGTCCCAGACATTATCTTACACTAGCGCATATATCAATGCCGATGCTATGTCCTA
1 GCCGATGCCATGTCCCAAACATGATCTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCA
* * * ** * * *
23805036 GACATGGTCTTACACTGGCTCTCATGTTGTGGCTGATGCTATGTCTCAGACATGGTCTTAC
66 AACATGGTCTTACACTAGCTCTCATCTCATGGCCGATGCAATGTCCCAGACATGGTCTTAC
23805097 ACTAGCACAC
Statistics
Matches: 103, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
144 103 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAAACATGATCTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCATCTCATGGCCGATGCAATGTCCCAGACATGGTCTTACGCTG
GCTCTCATAAGGTG
Found at i:23806178 original size:28 final size:28
Alignment explanation
Indices: 23806147--23806203 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23806137 TAGCTAGTAG
23806147 AACAAAACTTTCGCACTTTATGCGATTT
1 AACAAAACTTTCGCACTTTATGCGATTT
23806175 AACAAAACTTTCGCACTTTATGCGATTT
1 AACAAAACTTTCGCACTTTATGCGATTT
23806203 A
1 A
23806204 GTCTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (28 bp):
AACAAAACTTTCGCACTTTATGCGATTT
Found at i:23812737 original size:48 final size:48
Alignment explanation
Indices: 23812614--23812895 Score: 264
Period size: 48 Copynumber: 5.9 Consensus size: 48
23812604 GGGTGAATTA
* * * ** * *
23812614 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCAAATGTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-GATAG
* * * *
23812662 CCGAT-CCATGTCCCTGACATGGTCTTACACTAGCTCTCGTCTGATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGATAG
* * * * * * *
23812709 CTGATGGCATGTCCCAAACATGGCCTTACACTGGCTCTCATATGGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGATAG
* * * **
23812757 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATGTTCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGATAG
* * * *
23812805 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCA-ATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGATA-G
* *
23812853 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
23812896 TACCCAGATG
Statistics
Matches: 192, Mismatches: 39, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
46 2 0.01
47 35 0.18
48 155 0.81
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGATAG
Found at i:23812816 original size:96 final size:96
Alignment explanation
Indices: 23812614--23812893 Score: 321
Period size: 96 Copynumber: 2.9 Consensus size: 96
23812604 GGGTGAATTA
* * * * * *
23812614 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCAAATGTCGAGGCCGAT-CCATGTCCCTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTCCCAG
* * *
23812678 ACATGGTCTTACACTAGCTCTCGTCTGATTG
66 ACATGGTCTTACACTGGCTCTCATCTGATAG
* * * * *
23812709 CTGATGGCATGTCCCAAACATGGCCTTACACTGGCTCTCATATGGTGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTCCCAG
* * **
23812774 ATATGGTCTTACACTGGCTCTCATGTTCTAG
66 ACATGGTCTTACACTGGCTCTCATCTGATAG
* * * * *
23812805 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT-GCCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-AGTGGCCGATGCCATGTCCCA
*
23812869 GACATGGTCTTACACTGGCACTCAT
65 GACATGGTCTTACACTGGCTCTCAT
23812894 ATTACCCAGA
Statistics
Matches: 154, Mismatches: 29, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
95 44 0.29
96 109 0.71
97 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (96 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCATCTGATAG
Found at i:23812874 original size:144 final size:143
Alignment explanation
Indices: 23812614--23812895 Score: 370
Period size: 144 Copynumber: 2.0 Consensus size: 143
23812604 GGGTGAATTA
* *
23812614 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATCCATGTCCCTGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATCCATGTCCCAGA
* * * * * * *
23812679 CATGGTCTTACACTAGCTCTCGTCTGATTGCTGATGGCATGTCCCAAACATGGCCTTACACTGGC
66 CATGGTCTTACACTAGCACACGACTCAATGCCGATGCCATGTCCCAAACATGGCCTTACACTGGC
*
23812744 TCTCATATGGTGG
131 ACTCATATGGTGG
* * ** *
23812757 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATGTTCTA-GCCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAAATG-TCGAGGCCGAT-CCATGTCCCA
* *
23812821 GACATGGTCTTACACTAGCACAC-ACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
64 GACATGGTCTTACACTAGCACACGAC-TCAATGCCGATGCCATGTCCCAAACATGGCCTTACACT
23812885 GGCACTCATAT
128 GGCACTCATAT
23812896 TACCCAGATG
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
143 44 0.37
144 75 0.63
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (143 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATCCATGTCCCAGA
CATGGTCTTACACTAGCACACGACTCAATGCCGATGCCATGTCCCAAACATGGCCTTACACTGGC
ACTCATATGGTGG
Found at i:23814721 original size:21 final size:21
Alignment explanation
Indices: 23814695--23814734 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23814685 CTAAGGGCAT
* *
23814695 AGGCGTTTGGGGTGGCCACTC
1 AGGCGTGTGGAGTGGCCACTC
23814716 AGGCGTGTGGAGTGGCCAC
1 AGGCGTGTGGAGTGGCCAC
23814735 ACGGCCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (21 bp):
AGGCGTGTGGAGTGGCCACTC
Found at i:23816096 original size:11 final size:10
Alignment explanation
Indices: 23816072--23816105 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
23816062 AAGGACCATT
23816072 TTGTAAAA-G
1 TTGTAAAAGG
23816081 TTGTAAAAGTG
1 TTGTAAAAG-G
23816092 TTGTAAAAGG
1 TTGTAAAAGG
23816102 TTGT
1 TTGT
23816106 TTTGATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 5 0.22
11 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (10 bp):
TTGTAAAAGG
Found at i:23817139 original size:50 final size:50
Alignment explanation
Indices: 23817020--23817301 Score: 282
Period size: 50 Copynumber: 5.6 Consensus size: 50
23817010 GTTGTGAGAA
* * * * *
23817020 CACATGTGTAGTACTATA-TGCAGGCTACTATATGTTTAAAATGGTT-TTTGGT
1 CACATGTGTAGTACTA-AGTGCAGGCTAC--TACGTGTAACA-GATTGTTAGGT
* *
23817072 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGTTAGGT
* * * * * * *
23817122 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAACAGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTG-TTAGGT
* * * *
23817173 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGTTAGGT
* * *
23817223 CACGTGTGTAGTACTAAGTGCAGGCTACTAC-TATAAAAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGTTAGGT
***
23817272 TGTATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
23817302 TGCGTACTAG
Statistics
Matches: 192, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
49 43 0.22
50 83 0.43
51 41 0.21
52 25 0.13
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGTTAGGT
Found at i:23817200 original size:101 final size:101
Alignment explanation
Indices: 23817071--23817252 Score: 310
Period size: 101 Copynumber: 1.8 Consensus size: 101
23817061 TGGTTTTTGG
* * *
23817071 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
*
23817136 TAAGTGTAGGCTACTATGCGTAACAGATAGCTTCGA
66 TAAGTGCAGGCTACTATGCGTAACAGATAGCTTCGA
* *
23817172 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
23817237 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
23817253 CTATAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTAACAGATAGCTTCGA
Found at i:23830779 original size:39 final size:39
Alignment explanation
Indices: 23830722--23830837 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
23830712 GGTATTAGTT
23830722 CGTACGTCCTACCGGTGGTTGAGTTATTCAGCATGTGTC
1 CGTACGTCCTACCGGTGGTTGAGTTATTCAGCATGTGTC
* * *
23830761 CGTACGTCCTACCAGTGGTTGAGTTATTCAGCTTGTGGC
1 CGTACGTCCTACCGGTGGTTGAGTTATTCAGCATGTGTC
*
23830800 CGTACGTCCTACCGGTGGTTGAGTTATCCAGCATGTGT
1 CGTACGTCCTACCGGTGGTTGAGTTATTCAGCATGTGT
23830838 TACGGATACT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (39 bp):
CGTACGTCCTACCGGTGGTTGAGTTATTCAGCATGTGTC
Found at i:23833074 original size:40 final size:40
Alignment explanation
Indices: 23832896--23833064 Score: 227
Period size: 40 Copynumber: 4.2 Consensus size: 40
23832886 GCTCCTCGTT
* * *
23832896 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
23832936 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
23832976 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAA-TTAGTAACTCGCA
* * * *
23833016 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGAA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
23833055 CAAATGCCTT
1 CAAATGCCTT
23833065 TGAATCTTAG
Statistics
Matches: 118, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 29 0.25
40 87 0.74
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:23840948 original size:40 final size:39
Alignment explanation
Indices: 23840904--23841072 Score: 214
Period size: 40 Copynumber: 4.3 Consensus size: 39
23840894 GCTCCTCGTT
* *
23840904 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
23840944 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
23840984 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCA
* * * * *
23841024 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGAA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
23841063 CAAATGCCTT
1 CAAATGCCTT
23841073 TGAATCTTAG
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 28 0.25
40 84 0.74
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:23852624 original size:64 final size:64
Alignment explanation
Indices: 23852543--23852726 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
23852533 AGACATTATG
* * *
23852543 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
23852607 ATGTAGCTAGGTCGCATGCATGGTTCCATGTGAAGGACACCATGTAGGCAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGT---GTACACCATGTAGACAAGAGAGCTACGAGAT
23852672 AA
63 AA
* * *
23852674 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
23852727 CGGACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 26 0.27
66 20 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:23857149 original size:18 final size:20
Alignment explanation
Indices: 23857110--23857152 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
23857100 TTAAATTATT
*
23857110 AATATATGAGAGGGACCAAA
1 AATATATGAAAGGGACCAAA
*
23857130 AATATATGAAAGGGACAAAA
1 AATATATGAAAGGGACCAAA
23857150 AAT
1 AAT
23857153 GCAAATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.21, T:0.16
Consensus pattern (20 bp):
AATATATGAAAGGGACCAAA
Found at i:23859383 original size:31 final size:31
Alignment explanation
Indices: 23859356--23859437 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
23859346 AAAAAAATGA
* *
23859356 TATCTA-AAT-TTAAATTTTTAATTAAAAAT
1 TATCTATAATATTAAATATTAAATTAAAAAT
*
23859385 TATCTATAATATTAAATATTAAATTAAAAAC
1 TATCTATAATATTAAATATTAAATTAAAAAT
* * * *
23859416 TATATATATTTTTAAAAATTAA
1 TATCTATAATATTAAATATTAA
23859438 CATGGACAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 6 0.14
30 3 0.07
31 35 0.80
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (31 bp):
TATCTATAATATTAAATATTAAATTAAAAAT
Found at i:23859747 original size:21 final size:21
Alignment explanation
Indices: 23859722--23859762 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23859712 TTAAAATTAA
23859722 TTATTAAACTTCAAAATATTT
1 TTATTAAACTTCAAAATATTT
**
23859743 TTATTAAACTTTTAAATATT
1 TTATTAAACTTCAAAATATT
23859763 GATTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAAACTTCAAAATATTT
Found at i:23859793 original size:18 final size:21
Alignment explanation
Indices: 23859767--23859808 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 21
23859757 AATATTGATT
*
23859767 AATTAATTTTTTTA-A-GTTA
1 AATTAATTTGTTTAGATGTTA
23859786 AATT-ATTTGTTTAGATGTTA
1 AATTAATTTGTTTAGATGTTA
23859806 AAT
1 AAT
23859809 ATTGGCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
AATTAATTTGTTTAGATGTTA
Found at i:23860463 original size:20 final size:20
Alignment explanation
Indices: 23860427--23860464 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23860417 AAAAAGTCCT
*
23860427 TTGACCGTAAACTTTAACAG
1 TTGACCGTAAACGTTAACAG
23860447 TTGACCGTTAAA-GTTAAC
1 TTGACCG-TAAACGTTAAC
23860465 TGCATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
TTGACCGTAAACGTTAACAG
Found at i:23860576 original size:18 final size:18
Alignment explanation
Indices: 23860537--23860596 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
23860527 AAAACTATAA
* *
23860537 AAAAATATAAAATAGTAA
1 AAAAATATAAAATATTAT
*
23860555 AAAAATATAAAATTTTAT
1 AAAAATATAAAATATTAT
23860573 AAAAATTATAAAAATATTAT
1 AAAAA-TAT-AAAATATTAT
23860593 AAAA
1 AAAA
23860597 TTCATCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 20 0.56
19 3 0.08
20 13 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATATAAAATATTAT
Found at i:23860597 original size:10 final size:10
Alignment explanation
Indices: 23860532--23860597 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
23860522 ACAAAAAAAC
* *
23860532 TATAAAAAAA
1 TATAAAATAT
*
23860542 TATAAAATAG
1 TATAAAATAT
*
23860552 TA-AAAA-AA
1 TATAAAATAT
*
23860560 TATAAAATTT
1 TATAAAATAT
23860570 TATAAAA-AT
1 TATAAAATAT
23860579 TATAAAAATAT
1 TAT-AAAATAT
23860590 TATAAAAT
1 TATAAAAT
23860598 TCATCAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 3 0.07
9 12 0.26
10 26 0.57
11 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
TATAAAATAT
Found at i:23860864 original size:9 final size:8
Alignment explanation
Indices: 23860852--23860943 Score: 51
Period size: 9 Copynumber: 10.1 Consensus size: 8
23860842 ATAAATTATA
23860852 TATATTTT
1 TATATTTT
23860860 CTATATTTCT
1 -TATATTT-T
23860870 ATATATTTT
1 -TATATTTT
23860879 ATAATATTTT
1 -T-ATATTTT
23860889 TATGATTTT
1 TAT-ATTTT
*
23860898 TATAAAATTT
1 TAT--ATTTT
*
23860908 AATAATTTT
1 TAT-ATTTT
23860917 TATAATTTT
1 TAT-ATTTT
23860926 TATTGATTTT
1 TA-T-ATTTT
23860936 TAT-TTTT
1 TATATTTT
23860943 T
1 T
23860944 TTTATCTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 35 0.49
10 29 0.41
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATATTTT
Found at i:23860876 original size:10 final size:9
Alignment explanation
Indices: 23860839--23860901 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
23860829 TTCTTACGGC
*
23860839 TTTATAAAT
1 TTTATATAT
*
23860848 TATATATAT
1 TTTATATAT
*
23860857 TTTCTATAT
1 TTTATATAT
23860866 TTCTATATAT
1 TT-TATATAT
23860876 TTTATAATAT
1 TTTAT-ATAT
23860886 TTT-TATGAT
1 TTTATAT-AT
23860895 TTT-TATA
1 TTTATATA
23860902 AAATTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 3 0.07
9 28 0.61
10 15 0.33
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATATAT
Found at i:23860887 original size:20 final size:20
Alignment explanation
Indices: 23860850--23860907 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
23860840 TTATAAATTA
*
23860850 TATATATTTTCT-ATATTTC
1 TATATATTTTATAATATTTC
*
23860869 TATATATTTTATAATATTTT
1 TATATATTTTATAATATTTC
*
23860889 TATGAT-TTTTATAAAATTT
1 TAT-ATATTTTATAATATTT
23860908 AATAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.32
20 21 0.62
21 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TATATATTTTATAATATTTC
Done.