Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 183 of 214
Found at i:53745892 original size:17 final size:18
Alignment explanation
Indices: 53745856--53745894 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
53745846 TAGCAAAAGT
**
53745856 AAGACTAAAAACTTGTAC
1 AAGACTAAAAACTTCCAC
53745874 AAGAC-AAAAACTTCCAC
1 AAGACTAAAAACTTCCAC
53745891 AAGA
1 AAGA
53745895 GAAGACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (18 bp):
AAGACTAAAAACTTCCAC
Found at i:53748195 original size:33 final size:32
Alignment explanation
Indices: 53748120--53748199 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
53748110 GGCAATGTTT
* *
53748120 AAATGTAAGACCATAGCTGGGCTATGGCATTC
1 AAATGTAAGACCATAACTGGGCTATGGCATAC
**
53748152 TGATGATAAGACCATAACTGGG-TCATGGCACTAC
1 AAATG-TAAGACCATAACTGGGCT-ATGGCA-TAC
53748186 AAATGTAAGACCAT
1 AAATGTAAGACCAT
53748200 GGCAATGCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 4 0.10
33 30 0.77
34 5 0.13
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (32 bp):
AAATGTAAGACCATAACTGGGCTATGGCATAC
Found at i:53749791 original size:27 final size:25
Alignment explanation
Indices: 53749741--53749807 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
53749731 AAAATCTACG
*
53749741 ATATTAATATTGAAAATATATTAAA
1 ATATTAATATTAAAAATATATTAAA
* *
53749766 ATATTAATAAATTAAAAATATGTTAAG
1 ATATTAAT--ATTAAAAATATATTAAA
*
53749793 TTATTTAATATTAAA
1 ATA-TTAATATTAAA
53749808 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 8 0.23
26 6 0.17
27 16 0.46
28 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
ATATTAATATTAAAAATATATTAAA
Found at i:53749975 original size:26 final size:26
Alignment explanation
Indices: 53749946--53750003 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
53749936 TTGATTGCAG
* * *
53749946 TAATTGGTTTGATCAA-TTAATTCTAT
1 TAATTGATTTGACCAACTGAATT-TAT
53749972 TAATTGATTTGACCAACTGAATTTAT
1 TAATTGATTTGACCAACTGAATTTAT
53749998 TAATTG
1 TAATTG
53750004 TTTATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (26 bp):
TAATTGATTTGACCAACTGAATTTAT
Found at i:53752522 original size:6 final size:6
Alignment explanation
Indices: 53752511--53752540 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
53752501 AAAAATTGTG
53752511 ATAATT ATAATT ATAATT ATAATTT ATAAT
1 ATAATT ATAATT ATAATT ATAA-TT ATAAT
53752541 GATTAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:53752896 original size:8 final size:8
Alignment explanation
Indices: 53752885--53752909 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
53752875 ACAATGACGA
53752885 TATGATTT
1 TATGATTT
53752893 TATGATTT
1 TATGATTT
53752901 TATGATTT
1 TATGATTT
53752909 T
1 T
53752910 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TATGATTT
Found at i:53758791 original size:20 final size:21
Alignment explanation
Indices: 53758753--53758791 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
53758743 TGATAATAGT
* *
53758753 TAAAATTAATTATTGTTTAAA
1 TAAAATTAATTAGTATTTAAA
53758774 TAAAATT-ATTAGTATTTA
1 TAAAATTAATTAGTATTTA
53758792 TATTTAAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TAAAATTAATTAGTATTTAAA
Found at i:53763327 original size:16 final size:16
Alignment explanation
Indices: 53763288--53763336 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
53763278 TATATTCGGT
* *
53763288 GATTTTGTTATTTTAC
1 GATTTTATTATTTTAA
53763304 GAATTTTATTATTTTAA
1 G-ATTTTATTATTTTAA
*
53763321 GATTTTATCATTTTAA
1 GATTTTATTATTTTAA
53763337 AATATTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (16 bp):
GATTTTATTATTTTAA
Found at i:53765579 original size:12 final size:12
Alignment explanation
Indices: 53765562--53765587 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53765552 ATCACTAATT
53765562 TGACCGTAGCCA
1 TGACCGTAGCCA
53765574 TGACCGTAGCCA
1 TGACCGTAGCCA
53765586 TG
1 TG
53765588 GCCGATGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (12 bp):
TGACCGTAGCCA
Found at i:53772484 original size:15 final size:14
Alignment explanation
Indices: 53772464--53772520 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
53772454 TTATGGAAAG
53772464 TCAAATATCTGGGTA
1 TCAAATAT-TGGGTA
**
53772479 TCAAATATTGGAAA
1 TCAAATATTGGGTA
*
53772493 GTCAAAGATATGGGTA
1 -TCAAATAT-TGGGTA
53772509 TCGAAATATTGG
1 TC-AAATATTGG
53772521 CATAAGAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 4 0.12
15 20 0.61
16 9 0.27
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAAATATTGGGTA
Found at i:53772491 original size:30 final size:31
Alignment explanation
Indices: 53772457--53772520 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
53772447 ATCCATATTA
* *
53772457 TGGAAAGTCAAATATCTGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
53772487 TGGAAAGTCAAAGATATGGGTATCGAAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
53772518 TGG
1 TGG
53772521 CATAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:53774527 original size:4 final size:4
Alignment explanation
Indices: 53774518--53774545 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
53774508 ACGTAATATC
53774518 GTTA GTTA GTTA GTTA GTTA GTTA GTTA
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA
53774546 AAATAGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTTA
Found at i:53775736 original size:85 final size:85
Alignment explanation
Indices: 53775593--53775848 Score: 341
Period size: 85 Copynumber: 3.0 Consensus size: 85
53775583 ACCACAGCTG
* * * *
53775593 ATTTATAGTTACTGCCACGTGTTGTGGGTGCACAATATATTTGCAAATTAAACAAACTGCCACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
53775658 GGTTCATGATCGAACCACAT
66 GGTTCATAATCGAACCACAT
* * **
53775678 ATTTATAGTTACTTCCACTTGCTGTGAGTATACAACATATTTGCAGATTAAACAAACTGCCACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
53775743 GGTTCATTATCGAACCACACT
66 GGTTCATAATCGAACCACA-T
** ** * **
53775764 ATTTGCAGTTACTGCTGCTTGTTGTGAGTGCACAACATATTTGCAGACTAAACAAACTAACACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
53775829 GGTTCATAATCGAATCACAT
66 GGTTCATAATCGAACCACAT
53775849 TGTTTGCAGA
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 76 0.51
86 72 0.49
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (85 bp):
ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
GGTTCATAATCGAACCACAT
Found at i:53775816 original size:86 final size:85
Alignment explanation
Indices: 53775599--53775857 Score: 329
Period size: 86 Copynumber: 3.0 Consensus size: 85
53775589 GCTGATTTAT
* * * *
53775599 AGTTACTGCCACGTGTTGTGGGTGCACAATATATTTGCAAATTAAACAAACTGCCACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
* **
53775664 TGATCGAACCACATATTTAT
66 TAATCGAACCACATATTTGC
* * **
53775684 AGTTACTTCCACTTGCTGTGAGTATACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
*
53775749 TTATCGAACCACACTATTTGC
66 TAATCGAACCACA-TATTTGC
** * **
53775770 AGTTACTGCTGCTTGTTGTGAGTGCACAACATATTTGCAGACTAAACAAACTAACACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
* *
53775835 TAATCGAATCACATTGTTTGC
66 TAATCGAACCACA-TATTTGC
53775856 AG
1 AG
53775858 ATTAAACTAT
Statistics
Matches: 149, Mismatches: 24, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
85 69 0.46
86 80 0.54
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (85 bp):
AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
TAATCGAACCACATATTTGC
Found at i:53776387 original size:29 final size:27
Alignment explanation
Indices: 53776346--53776676 Score: 213
Period size: 28 Copynumber: 11.7 Consensus size: 27
53776336 TTCAAAATTG
*
53776346 TAAAATTTGAAAATCAGGGGAAAAACTA
1 TAAAATTTAAAAAT-AGGGGAAAAACTA
*
53776374 TAAAATCTTAAAAATA-GGGAAAAA-TG
1 TAAAAT-TTAAAAATAGGGGAAAAACTA
* *
53776400 TAAAATCTAAAAAATA-AGGACAAAACTA
1 TAAAAT-TTAAAAATAGGGGA-AAAACTA
* * *
53776428 TAAAATTTAAAAAATATGGGCAAAGCTA
1 TAAAATTT-AAAAATAGGGGAAAAACTA
* * *
53776456 TAAAATCTAGAAAATAGAGG-CAAACTA
1 TAAAATTTA-AAAATAGGGGAAAAACTA
* * * *
53776483 TAATATCTGAAAAATAGGGGACAAAATTG
1 TAAAAT-TTAAAAATAGGGGA-AAAACTA
* * ** * *
53776512 TAAAATATGAAAAACAAAGGCAAAACTG
1 TAAAAT-TTAAAAATAGGGGAAAAACTA
* * * *
53776540 TAAGATTTGGGAAAATAGGGGACAAAATTG
1 TAAAATTT--AAAAATAGGGGA-AAAACTA
*
53776570 TAAAATTTGAAGAAATAGGGGCAAAAATTA
1 TAAAATTT-AA-AAATAGGGG-AAAAACTA
53776600 -AAAATTTGAAAAATAGGGGATAAAACTA
1 TAAAATTT-AAAAATAGGGGA-AAAACTA
*
53776628 TAAAATTTGAAAAATAGGGGCAAAACTA
1 TAAAATTT-AAAAATAGGGGAAAAACTA
*
53776656 TAAAATTTGGAAAATAGGGGA
1 TAAAATTT-AAAAATAGGGGA
53776677 CACACGGTCG
Statistics
Matches: 244, Mismatches: 43, Indels: 32
0.76 0.13 0.10
Matches are distributed among these distances:
26 19 0.08
27 35 0.14
28 95 0.39
29 66 0.27
30 28 0.11
31 1 0.00
ACGTcount: A:0.54, C:0.06, G:0.18, T:0.21
Consensus pattern (27 bp):
TAAAATTTAAAAATAGGGGAAAAACTA
Found at i:53776563 original size:58 final size:56
Alignment explanation
Indices: 53776338--53776678 Score: 284
Period size: 58 Copynumber: 6.0 Consensus size: 56
53776328 AATTTTGGTT
* *
53776338 CAAAATTGTAAAATTTG-AAAATCAGGGGAAAAACTATAAAATCTT-AAAAATA-GGGA
1 CAAAATTGTAAAATTTGAAAAAT-AGGGGCAAAACT-TAAAAT-TTGGAAAATAGGGGA
* * * * ** *
53776394 -AAAA-TGTAAAATCTAAAAAATAAGGACAAAACTATAAAATTTAAAAAATATGGG-
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
** * * * * * *
53776448 CAAAGCTATAAAATCT-AGAAAATAGAGGC-AAACTATAATATCTGAAAAATAGGGGA
1 CAAAATTGTAAAATTTGA-AAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
* * ** *
53776504 CAAAATTGTAAAATATGAAAAACAAAGGCAAAACTGTAAGATTTGGGAAAATAGGGGA
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTT-GGAAAATAGGGGA
* *
53776562 CAAAATTGTAAAATTTGAAGAAATAGGGGCAAAAATTAAAAATTTGAAAAATAGGGGA
1 CAAAATTGTAAAATTTGAA-AAATAGGGGCAAAACTT-AAAATTTGGAAAATAGGGGA
* * *
53776620 TAAAACTATAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTGGAAAATAGGGGA
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
53776677 CA
1 CA
53776679 CACGGTCGTG
Statistics
Matches: 235, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
53 2 0.01
54 32 0.14
55 38 0.16
56 38 0.16
57 47 0.20
58 60 0.26
59 18 0.08
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (56 bp):
CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACTTAAAATTTGGAAAATAGGGGA
Found at i:53777379 original size:24 final size:24
Alignment explanation
Indices: 53777351--53777408 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
53777341 AAAACCCTTC
*
53777351 TAAAAGAAACTGAAGAGAAATTCT
1 TAAAAGAAACTCAAGAGAAATTCT
*
53777375 TAAAAAAAACTCAAGAGAAATTCT
1 TAAAAGAAACTCAAGAGAAATTCT
53777399 TAAAAAGAAA
1 T-AAAAGAAA
53777409 AACCCAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (24 bp):
TAAAAGAAACTCAAGAGAAATTCT
Found at i:53781249 original size:13 final size:14
Alignment explanation
Indices: 53781231--53781279 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
53781221 AAGTCAGATA
*
53781231 AAATAATTAAACT-
1 AAATAATTAAAATC
*
53781244 AAATAACTAAAATC
1 AAATAATTAAAATC
53781258 AAATAA-T-AAATC
1 AAATAATTAAAATC
53781270 AAAT-ATTAAA
1 AAATAATTAAA
53781280 GAAGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 10 0.32
13 14 0.45
14 6 0.19
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATTAAAATC
Found at i:53782737 original size:24 final size:24
Alignment explanation
Indices: 53782697--53782743 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
53782687 AAAGGGAAAT
*
53782697 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
53782721 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
53782744 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:53787396 original size:24 final size:25
Alignment explanation
Indices: 53787369--53787415 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
53787359 AGAGGAAAGT
53787369 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
53787393 TTAAATTACTTAAAACGAAAAAA
1 TTAAAGAACATAAAACGAAAAAA
53787416 TATGGGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:53787984 original size:19 final size:18
Alignment explanation
Indices: 53787957--53787995 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53787947 ATCTGTATAC
*
53787957 AATTTTTTAATATATTTT
1 AATTTTTTAATATAATTT
*
53787975 AATTTATTTATTATAATTT
1 AATTT-TTTAATATAATTT
53787994 AA
1 AA
53787996 AATAGACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTTAATATAATTT
Found at i:53789002 original size:23 final size:22
Alignment explanation
Indices: 53788971--53789031 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
53788961 CCCGGCCCGG
* *
53788971 TTTTAATTAAAATTAAAATTATA
1 TTTTTATTAAAATTAAAACTA-A
53788994 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
53789016 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
53789032 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:53789025 original size:22 final size:23
Alignment explanation
Indices: 53788976--53789031 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
53788966 CCCGGTTTTA
* *
53788976 ATTAAAATTAAAATTATATTTTT
1 ATTAAAATTAAAACTATATTGTT
53788999 ATTAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
53789021 ATTAAAATTAA
1 ATTAAAATTAA
53789032 TTGTTATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:53789026 original size:16 final size:16
Alignment explanation
Indices: 53789005--53789061 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
53788995 TTTTATTAAA
*
53789005 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
53789021 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
53789037 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
53789053 ATTAAAATT
1 ATTAAAATT
53789062 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:53789227 original size:33 final size:34
Alignment explanation
Indices: 53789185--53789258 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
53789175 TCAAATTATT
*
53789185 AATTATTAATTGTTACTAATATT-TTGTTAGTAA
1 AATTATTAATTGTTAATAATATTATTGTTAGTAA
**
53789218 AATTATTAATTGTTAATTGTATTAATTGTTAGTAA
1 AATTATTAATTGTTAATAATATT-ATTGTTAGTAA
53789253 AATTAT
1 AATTAT
53789259 CAAATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.51
Consensus pattern (34 bp):
AATTATTAATTGTTAATAATATTATTGTTAGTAA
Found at i:53789650 original size:9 final size:9
Alignment explanation
Indices: 53789633--53789668 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
53789623 ACTGAAGAAA
*
53789633 CATCATCCT
1 CATCGTCCT
53789642 CATCGTCCT
1 CATCGTCCT
*
53789651 CATCGTCGT
1 CATCGTCCT
53789660 CATCGTCCT
1 CATCGTCCT
53789669 TTTTGCAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.14, C:0.42, G:0.11, T:0.33
Consensus pattern (9 bp):
CATCGTCCT
Found at i:53792236 original size:110 final size:102
Alignment explanation
Indices: 53792108--53792361 Score: 427
Period size: 110 Copynumber: 2.4 Consensus size: 102
53792098 TTTAAATGAT
53792108 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
53792173 ATTAACAAAAAAAAAACACTACTCATCCACTTAGACTTAGAAGCA
66 ATTAAC-AAAAAAAAA-ACTACTCATCCACTTAGA--T----GCA
*
53792218 TACTTTTATAATATATAGAATTTTAAGTTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
53792283 ATTAACAAAAAAAAAACTACTCATCCACTTAGATGCA
66 ATTAACAAAAAAAAAACTACTCATCCACTTAGATGCA
53792320 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
53792362 TTTGTTATAA
Statistics
Matches: 142, Mismatches: 2, Indels: 8
0.93 0.01 0.05
Matches are distributed among these distances:
102 44 0.31
106 1 0.01
108 18 0.13
109 9 0.06
110 70 0.49
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (102 bp):
TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
ATTAACAAAAAAAAAACTACTCATCCACTTAGATGCA
Found at i:53792959 original size:53 final size:53
Alignment explanation
Indices: 53792879--53792986 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
53792869 CCAATCCAAA
53792879 ATCATAAATAGAAGCATCTCTATTTCTCAATCCCATTATTTTCCTACTAGTAG
1 ATCATAAATAGAAGCATCTCTATTTCTCAATCCCATTATTTTCCTACTAGTAG
53792932 ATCATAAATAGAAGCATCTCTATTTCTCAATCCCATTATTTTCCTACTAGTAG
1 ATCATAAATAGAAGCATCTCTATTTCTCAATCCCATTATTTTCCTACTAGTAG
53792985 AT
1 AT
53792987 AAGCAATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (53 bp):
ATCATAAATAGAAGCATCTCTATTTCTCAATCCCATTATTTTCCTACTAGTAG
Found at i:53794640 original size:7 final size:7
Alignment explanation
Indices: 53794628--53794665 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
53794618 TAAATGAAAC
53794628 AAAACTT
1 AAAACTT
53794635 AAAACTT
1 AAAACTT
53794642 AAAACTT
1 AAAACTT
53794649 AAAA--T
1 AAAACTT
53794654 AAAAC-T
1 AAAACTT
53794660 AAAACT
1 AAAACT
53794666 ATTATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 6 0.21
7 18 0.62
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAACTT
Found at i:53794684 original size:22 final size:22
Alignment explanation
Indices: 53794653--53794696 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
53794643 AAACTTAAAA
*
53794653 TAAAACTAAAACTAT-TATATTT
1 TAAAAATAAAA-TATATATATTT
53794675 TAAAAATAAAATATATATATTT
1 TAAAAATAAAATATATATATTT
53794697 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAAATAAAATATATATATTT
Found at i:53794854 original size:5 final size:5
Alignment explanation
Indices: 53794844--53794869 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
53794834 GGTGGGCCTT
53794844 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
53794870 ACCCGACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:53796575 original size:42 final size:40
Alignment explanation
Indices: 53796504--53796646 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 40
53796494 TTAGCTCACA
* * *
53796504 CGAGCTTCTATTCAACTCATATGAGTTTTCGCTTAGCTCTAT
1 CGAGCTTCTGTTCAACCCTTATG-GTTTTCG-TTAGCTCTAT
*
53796546 CGAGCTTCTGTTTAACCCTTATGGTTTTTCGTTCAGCTCT-T
1 CGAGCTTCTGTTCAACCCTTATGG-TTTTCGTT-AGCTCTAT
* * *
53796587 ACGAGCTCCCGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAT
1 -CGAGCTTCTGTTCAACCCTTATGGTTTTC-G-TTAGCTCT-AT
53796631 -GAGCTTCTGTTCAACC
1 CGAGCTTCTGTTCAACC
53796647 TTCGGGCTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
41 8 0.10
42 73 0.87
43 2 0.02
44 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (40 bp):
CGAGCTTCTGTTCAACCCTTATGGTTTTCGTTAGCTCTAT
Found at i:53797557 original size:41 final size:38
Alignment explanation
Indices: 53797506--53797697 Score: 122
Period size: 41 Copynumber: 4.7 Consensus size: 38
53797496 TATAGTTTAG
* * *
53797506 ATTAGAATTTTGTATGAATATTTTAAATTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGT-AA--TGTTGTATGAAT
*
53797547 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * *
53797585 ATTGTAATTATTTTAT-AATTAAATTTGTATTTATAGTT-T-TGGATT
1 ATTATAATT-TTGTATGAA-T--A-TTGTA---AT-GTTGTAT-GAAT
* *
53797630 AGTTAT-TTTTTGTATGAATATTGTAATTTTGTATGAAT
1 A-TTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
53797668 ATTATAAATTTTTTGTATGAATATTGTAAT
1 ATTAT-AA--TTTTGTATGAATATTGTAAT
53797698 AATATTATAG
Statistics
Matches: 121, Mismatches: 12, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
37 6 0.05
38 28 0.23
39 8 0.07
40 2 0.02
41 47 0.39
42 6 0.05
44 7 0.06
45 11 0.09
46 6 0.05
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:53797562 original size:19 final size:19
Alignment explanation
Indices: 53797506--53797600 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
53797496 TATAGTTTAG
* *
53797506 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
53797525 ATTTTAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
53797547 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
53797566 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
53797585 ATTGTAATTATTTTAT
1 ATTATAATT-TTTTAT
53797601 AATTAAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 34 0.54
20 12 0.19
21 6 0.10
22 11 0.17
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:53797661 original size:19 final size:19
Alignment explanation
Indices: 53797637--53797756 Score: 92
Period size: 19 Copynumber: 6.4 Consensus size: 19
53797627 ATTAGTTATT
53797637 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
53797656 TTTTGTATGAATATTATAAA
1 TTTTGTATGAATATTGT-AA
53797676 TTTT-T-TG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
* * *
53797689 TATTGTAAT-AATATTATAG
1 TTTTGT-ATGAATATTGTAA
*
53797708 TTTTGTATGAATATTGCAA
1 TTTTGTATGAATATTGTAA
53797727 TTTTTTTTGTATGAATATTGTAA
1 ----TTTTGTATGAATATTGTAA
53797750 TTTTGTA
1 TTTTGTA
53797757 ATTTTGTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
13 5 0.06
14 1 0.01
15 1 0.01
16 3 0.04
17 2 0.03
18 5 0.06
19 37 0.47
20 6 0.08
23 18 0.23
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:53797702 original size:52 final size:53
Alignment explanation
Indices: 53797646--53797765 Score: 167
Period size: 52 Copynumber: 2.3 Consensus size: 53
53797636 TTTTTGTATG
*
53797646 AATATTGTAATTTTGTATGAATATTATAA-ATTTTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
* * * *
53797698 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
53797751 --T-TTGTAATTTTGTAT
1 AATATTGTAATTTTGTAT
53797766 ATATTGTGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 12 0.20
51 1 0.02
52 25 0.42
53 22 0.37
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (53 bp):
AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
Found at i:53797738 original size:23 final size:23
Alignment explanation
Indices: 53797708--53797753 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
53797698 AATATTATAG
53797708 TTTTGTATGAATATTGCAATTTT
1 TTTTGTATGAATATTGCAATTTT
*
53797731 TTTTGTATGAATATTGTAATTTT
1 TTTTGTATGAATATTGCAATTTT
53797754 GTAATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (23 bp):
TTTTGTATGAATATTGCAATTTT
Found at i:53800451 original size:16 final size:17
Alignment explanation
Indices: 53800430--53800463 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53800420 TAGCCTAGAA
53800430 TATTT-AGAAAAATTAT
1 TATTTAAGAAAAATTAT
*
53800446 TATTTAAGGAAAATTAT
1 TATTTAAGAAAAATTAT
53800463 T
1 T
53800464 CAATTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TATTTAAGAAAAATTAT
Found at i:53801007 original size:42 final size:42
Alignment explanation
Indices: 53800944--53801103 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
53800934 TCGTGTTTAC
* * * *
53800944 TTTCCGTTTAGCTC-ACACGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTTAGCTCTA-TCGAGCTTCTGTTTAACCCTTATGGG
*
53800986 TTTCCATTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
* ** *
53801028 TTTCCGTTCAGCTCT-TACGAGCTTCCATTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTAT-CGAGCTTCTGTTTAACCCTTATGGG
* *
53801070 TTTCTGTTTAGCTCTCAT-GAGCTTCTGTTCAACC
1 TTTCCGTTTAGCTCT-ATCGAGCTTCTGTTTAACC
53801104 TTCGGGCTTC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 97 0.97
43 1 0.01
44 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
Found at i:53801097 original size:21 final size:21
Alignment explanation
Indices: 53800962--53801098 Score: 78
Period size: 21 Copynumber: 6.5 Consensus size: 21
53800952 TAGCTCACAC
* *
53800962 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAGCTCTTAT
* **
53800983 GAGTTTCCATTTAGCTC-TAT
1 GAGCTTCTGTTTAGCTCTTAT
* *
53801003 CGAGCTTCTGTTTAACCCTTAT
1 -GAGCTTCTGTTTAGCTCTTAT
* * * * *
53801025 GGGTTTCCGTTCAGCTCTTAC
1 GAGCTTCTGTTTAGCTCTTAT
** * * *
53801046 GAGCTTCCATTCAACCCTTAT
1 GAGCTTCTGTTTAGCTCTTAT
* * *
53801067 GGGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTTAGCTCTTAT
53801088 GAGCTTCTGTT
1 GAGCTTCTGTT
53801099 CAACCTTCGG
Statistics
Matches: 82, Mismatches: 32, Indels: 4
0.69 0.27 0.03
Matches are distributed among these distances:
20 3 0.04
21 76 0.93
22 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
GAGCTTCTGTTTAGCTCTTAT
Found at i:53806067 original size:43 final size:41
Alignment explanation
Indices: 53805996--53806076 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 41
53805986 TAATAAATAT
*
53805996 ATATATTTTTTTTTATTTTTTAATTTTAAAATACTTTTAAA
1 ATATATTTTTTTTTATTTTTTAATTTTAAAATAATTTTAAA
*
53806037 ATAT-TTTTATTTTTATTTTTATTATTTTTAAAATAATTTT
1 ATATATTTT-TTTTTA-TTTT-TTAATTTTAAAATAATTTT
53806077 TTAATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 4 0.11
41 10 0.29
42 4 0.11
43 17 0.49
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (41 bp):
ATATATTTTTTTTTATTTTTTAATTTTAAAATAATTTTAAA
Found at i:53812419 original size:92 final size:91
Alignment explanation
Indices: 53812262--53812470 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
53812252 TTGATTTTAC
* * * *
53812262 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
53812327 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
53812354 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
53812418 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
53812446 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
53812471 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:53812433 original size:24 final size:25
Alignment explanation
Indices: 53812398--53812445 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
53812388 TTATGAAATT
53812398 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
53812422 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
53812446 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:53812768 original size:157 final size:157
Alignment explanation
Indices: 53812595--53812911 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
53812585 ATAAGAATAT
* * *
53812595 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATTTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
53812660 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
53812725 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
53812752 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
53812817 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
53812882 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
53812909 TAA
1 TAA
53812912 GGGTATTTTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:53812792 original size:18 final size:17
Alignment explanation
Indices: 53812764--53812798 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53812754 ATTATTAAGA
*
53812764 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
53812781 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
53812799 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:53813058 original size:16 final size:16
Alignment explanation
Indices: 53813034--53813069 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
53813024 GACTTGCTAT
*
53813034 TACACCTCTAATCCAA
1 TACAACTCTAATCCAA
*
53813050 TACAACTCTAATTCAA
1 TACAACTCTAATCCAA
53813066 TACA
1 TACA
53813070 GCGAATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (16 bp):
TACAACTCTAATCCAA
Found at i:53823782 original size:14 final size:14
Alignment explanation
Indices: 53823765--53823800 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
53823755 GTTAAAAATA
53823765 TATTATTAAATTAG
1 TATTATTAAATTAG
*
53823779 TATTATTAAATTAT
1 TATTATTAAATTAG
53823793 TATTATTA
1 TATTATTA
53823801 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATTATTAAATTAG
Found at i:53823793 original size:11 final size:12
Alignment explanation
Indices: 53823760--53823811 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 12
53823750 TATGTGTTAA
53823760 AAATATATTATT
1 AAATATATTATT
53823772 AAATTAGTATTATT
1 AAA-TA-TATTATT
53823786 AAAT-TATTATT
1 AAATATATTATT
*
53823797 -ATTATATT-TT
1 AAATATATTATT
53823807 AAATA
1 AAATA
53823812 AAAAAAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.12
11 14 0.41
12 3 0.09
13 3 0.09
14 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATATATTATT
Found at i:53823984 original size:17 final size:18
Alignment explanation
Indices: 53823962--53823997 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
53823952 GGAATAAAAT
*
53823962 AAAAGAATAAA-AGAAAC
1 AAAAGAAGAAATAGAAAC
53823979 AAAAGAAGAAATAGAAAC
1 AAAAGAAGAAATAGAAAC
53823997 A
1 A
53823998 GAATAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAGAAGAAATAGAAAC
Found at i:53837111 original size:21 final size:22
Alignment explanation
Indices: 53837064--53837111 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
53837054 TTAATCTTAA
53837064 TTTTATGATATAAGTTATTGAT
1 TTTTATGATATAAGTTATTGAT
* *
53837086 GTTTAT-ATATATATTTA-TGAT
1 TTTTATGATATA-AGTTATTGAT
53837107 TTTTA
1 TTTTA
53837112 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTATGATATAAGTTATTGAT
Found at i:53844443 original size:126 final size:126
Alignment explanation
Indices: 53844118--53844638 Score: 749
Period size: 126 Copynumber: 4.1 Consensus size: 126
53844108 GGCCAAACAT
* *
53844118 GAACTAATGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTTCA-TCAATTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGT-AATTTTGCTGACAGTGCA
** * * * *
53844182 TCCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAGCCGTCTTCTTAAAATTATTTTTGCAA
64 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
53844245 GAACTACTGTA-AAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTACTGACAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
53844309 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCATCTTCTCAAACTTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
53844370 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGATCTTTTTTTAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
53844435 CTGCTTGAAGCATTTTTGGCACTATTTGTTCATAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
53844496 AAACTAATGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* ** * *
53844561 TTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAATTTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
*
53844622 GAACTACTGTGGAAAAA
1 GAACTACTGTAGAAAAA
53844639 AAAACAAAAT
Statistics
Matches: 350, Mismatches: 42, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 89 0.25
126 251 0.72
127 10 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:53844738 original size:34 final size:33
Alignment explanation
Indices: 53844700--53844804 Score: 147
Period size: 34 Copynumber: 3.1 Consensus size: 33
53844690 CACAATATTA
*
53844700 TTTTTTAAAAAACTAAACCCTAATTTAAGTAAT
1 TTTTTTAAAAAACTAAACCCTAATTTAATTAAT
*
53844733 TTTTTTAAAAACACTAAACACTAATTTAATTAAT
1 TTTTTTAAAAA-ACTAAACCCTAATTTAATTAAT
* **
53844767 TTATTTAAAACTCTTAAACCCTAATTTAATTAAT
1 TTTTTTAAAAAAC-TAAACCCTAATTTAATTAAT
53844801 TTTT
1 TTTT
53844805 AGAAAAGAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
33 12 0.19
34 51 0.81
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (33 bp):
TTTTTTAAAAAACTAAACCCTAATTTAATTAAT
Found at i:53860542 original size:14 final size:15
Alignment explanation
Indices: 53860513--53860547 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
53860503 CCCTTTTAAC
53860513 TTTTGAATTTATTTT
1 TTTTGAATTTATTTT
53860528 TTTTGAATTTATTTT
1 TTTTGAATTTATTTT
53860543 TTTTG
1 TTTTG
53860548 TTGCTGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
TTTTGAATTTATTTT
Found at i:53861634 original size:45 final size:45
Alignment explanation
Indices: 53861571--53861660 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
53861561 TTATGTATAC
*
53861571 ATATCATCCATACGCATATGGTCGTTAGAAATTTATAATCAGTGT
1 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
53861616 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
1 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
53861661 GTGAAGCATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (45 bp):
ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
Found at i:53864049 original size:5 final size:5
Alignment explanation
Indices: 53864039--53864078 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
53864029 GAGGATAATA
*
53864039 TATAT TATAT TATAT TATAT TATAT TATAT TATAT CATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
53864079 ACGATAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:53864180 original size:33 final size:33
Alignment explanation
Indices: 53864142--53864204 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
53864132 TTAAATGAAC
*
53864142 ATTTTTAAATAATTTAATAATTATTTTATATAT
1 ATTTTTAAATAATTTAACAATTATTTTATATAT
53864175 ATTTTTAAATAATTTAACAATTATTTTATA
1 ATTTTTAAATAATTTAACAATTATTTTATA
53864205 ATTTTTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (33 bp):
ATTTTTAAATAATTTAACAATTATTTTATATAT
Found at i:53865664 original size:12 final size:12
Alignment explanation
Indices: 53865647--53865701 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
53865637 TGAATGGCCC
*
53865647 TGGTGGCAGTGT
1 TGGTGGCAGTGG
*
53865659 TGGTGGCGGTGG
1 TGGTGGCAGTGG
*
53865671 TGGTGGCGGTGG
1 TGGTGGCAGTGG
* * *
53865683 CGGTGGCAGCGT
1 TGGTGGCAGTGG
53865695 TGGTGGC
1 TGGTGGC
53865702 GGTCCTATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.04, C:0.13, G:0.58, T:0.25
Consensus pattern (12 bp):
TGGTGGCAGTGG
Found at i:53865675 original size:6 final size:6
Alignment explanation
Indices: 53865660--53865689 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
53865650 TGGCAGTGTT
*
53865660 GGTGGC GGTGGT GGTGGC GGTGGC GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
53865690 AGCGTTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.13, G:0.67, T:0.20
Consensus pattern (6 bp):
GGTGGC
Found at i:53865699 original size:18 final size:18
Alignment explanation
Indices: 53865648--53865704 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
53865638 GAATGGCCCT
53865648 GGTGGCAGTGTTGGTGGC
1 GGTGGCAGTGTTGGTGGC
** **
53865666 GGTGGTGGTGGCGGTGGC
1 GGTGGCAGTGTTGGTGGC
*
53865684 GGTGGCAGCGTTGGTGGC
1 GGTGGCAGTGTTGGTGGC
53865702 GGT
1 GGT
53865705 CCTATGGTTG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.04, C:0.12, G:0.60, T:0.25
Consensus pattern (18 bp):
GGTGGCAGTGTTGGTGGC
Found at i:53866983 original size:24 final size:24
Alignment explanation
Indices: 53866956--53867002 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
53866946 CTCTAGAGAT
* * *
53866956 CGTGACCGTGATCGTGATAGGGAA
1 CGTGACCGAGATAGGGATAGGGAA
*
53866980 CGTGATCGAGATAGGGATAGGGA
1 CGTGACCGAGATAGGGATAGGGA
53867003 TCGATATAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.40, T:0.19
Consensus pattern (24 bp):
CGTGACCGAGATAGGGATAGGGAA
Found at i:53866985 original size:18 final size:18
Alignment explanation
Indices: 53866962--53867015 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
53866952 AGATCGTGAC
*
53866962 CGTGATCGTGATAGGGAA
1 CGTGATCGAGATAGGGAA
53866980 CGTGATCGAGATAGGGATA
1 CGTGATCGAGATAGGGA-A
* *
53866999 -GGGATCGATATAGGGAA
1 CGTGATCGAGATAGGGAA
53867016 GACAGAGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.39, T:0.20
Consensus pattern (18 bp):
CGTGATCGAGATAGGGAA
Found at i:53879067 original size:10 final size:10
Alignment explanation
Indices: 53879052--53879081 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
53879042 TTTGATTGAG
53879052 GAATCAAATC
1 GAATCAAATC
53879062 GAATCAAATC
1 GAATCAAATC
53879072 GAATCAAATC
1 GAATCAAATC
53879082 ATATCCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (10 bp):
GAATCAAATC
Found at i:53886366 original size:25 final size:25
Alignment explanation
Indices: 53886332--53886381 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
53886322 GGGAGAGAGG
53886332 ATCAGTTCAAAGAAAATCCAATTTC
1 ATCAGTTCAAAGAAAATCCAATTTC
53886357 ATCAGTTCAAAGAAAATCCAATTTC
1 ATCAGTTCAAAGAAAATCCAATTTC
53886382 CTCCAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
ATCAGTTCAAAGAAAATCCAATTTC
Found at i:53886914 original size:34 final size:34
Alignment explanation
Indices: 53886800--53886901 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
53886790 TTGGAGAAGG
53886800 GGTAAATAGTAATCACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
*
53886834 GGTAAATAGTAATAACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
53886868 GGTAAATAGTAATCACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
53886902 CCAAAAAGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (34 bp):
GGTAAATAGTAATCACTGATGGTCATATAAACTT
Found at i:53888035 original size:33 final size:33
Alignment explanation
Indices: 53887983--53888098 Score: 160
Period size: 33 Copynumber: 3.5 Consensus size: 33
53887973 ACCTGGAGGA
* * *
53887983 GGTGGAGGAGCCCCCCGCATAGGAGGTGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
*
53888016 GGTGCAGGTGCCCCACGCATAGGAGGGGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
* *
53888049 GGTGCAGGTGCTCCACGCATAGGAGGTGGGGGT
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
* *
53888082 GGTGCTGGTGCTCCACG
1 GGTGCAGGTGCCCCACG
53888099 AGCAGGTGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.14, C:0.23, G:0.49, T:0.14
Consensus pattern (33 bp):
GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
Found at i:53888113 original size:30 final size:31
Alignment explanation
Indices: 53888006--53888121 Score: 90
Period size: 33 Copynumber: 3.6 Consensus size: 31
53887996 CCCGCATAGG
* * * *
53888006 AGGTGGGGGCGGTGCAGGTGCCCCACGCATAGG
1 AGGTGGAGGTGGTGCAGGTGCTCCACG-A-AGC
* * * *
53888039 AGGGGGGGGCGGTGCAGGTGCTCCACGCATAGG
1 AGGTGGAGGTGGTGCAGGTGCTCCACG-A-AGC
* *
53888072 AGGTGGGGGTGGTGCTGGTGCTCCACG-AGC
1 AGGTGGAGGTGGTGCAGGTGCTCCACGAAGC
*
53888102 AGGTGGAGGTGGTGCGGGTG
1 AGGTGGAGGTGGTGCAGGTG
53888122 GAGCTCCACG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
30 20 0.27
33 55 0.73
ACGTcount: A:0.13, C:0.19, G:0.53, T:0.16
Consensus pattern (31 bp):
AGGTGGAGGTGGTGCAGGTGCTCCACGAAGC
Found at i:53888311 original size:39 final size:39
Alignment explanation
Indices: 53888198--53888353 Score: 118
Period size: 39 Copynumber: 4.2 Consensus size: 39
53888188 CTCCAAATTT
53888198 TGGAGGTGGGGCACTAGACATCAAT----G-GG-GGAGG
1 TGGAGGTGGGGCACTAGACATCAATGAGGGTGGAGGAGG
* **
53888231 TGGAGGTGGAGG-ACTAGGCA-CAGATG-GGAG-CAATGGAGG
1 TGGAGGTGG-GGCACTAGACATCA-ATGAGG-GTGGA-GGAGG
*
53888270 TGGAGGTGGGGCACTAGACATCAATG-GCGGTGGAGGGGG
1 TGGAGGTGGGGCACTAGACATCAATGAG-GGTGGAGGAGG
* * * *
53888309 TGGAGGTGGGGCAGTGGACTTCAATGAGGGTGGTGGAGG
1 TGGAGGTGGGGCACTAGACATCAATGAGGGTGGAGGAGG
53888348 TGGAGG
1 TGGAGG
53888354 AGGAGGGGCA
Statistics
Matches: 98, Mismatches: 12, Indels: 20
0.75 0.09 0.15
Matches are distributed among these distances:
32 2 0.02
33 18 0.18
34 2 0.02
37 1 0.01
38 2 0.02
39 68 0.69
40 5 0.05
ACGTcount: A:0.22, C:0.10, G:0.51, T:0.16
Consensus pattern (39 bp):
TGGAGGTGGGGCACTAGACATCAATGAGGGTGGAGGAGG
Found at i:53888522 original size:3 final size:3
Alignment explanation
Indices: 53888514--53888542 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
53888504 ATGTCTATTA
53888514 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
53888543 CAAGGGGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:53888965 original size:3 final size:3
Alignment explanation
Indices: 53888933--53888985 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
53888923 ATGGAGGGAT
* * *
53888933 GGA GGG GGA GG- GGA TGGG GGA GGG GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA -GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
53888978 GGA GGA GG
1 GGA GGA GG
53888986 TGGTGGTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.74, T:0.02
Consensus pattern (3 bp):
GGA
Found at i:53904591 original size:26 final size:25
Alignment explanation
Indices: 53904562--53904645 Score: 60
Period size: 26 Copynumber: 3.0 Consensus size: 25
53904552 AATAAATAAT
53904562 TTAATCATATTTTAATATAATTATTA
1 TTAAT-ATATTTTAATATAATTATTA
* * *
53904588 TTAAATATAATTTAATAAAAATATATAA
1 TT-AATATATTTTAAT-ATAAT-TATTA
*
53904616 TTTAATAAAATTCTTAATATAATTACTTA
1 -TTAAT-ATATT-TTAATATAATTA-TTA
53904645 T
1 T
53904646 ATAAATTTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 11 0.25
27 7 0.16
28 10 0.23
29 11 0.25
30 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATATATTTTAATATAATTATTA
Found at i:53904682 original size:58 final size:56
Alignment explanation
Indices: 53904546--53904683 Score: 127
Period size: 58 Copynumber: 2.4 Consensus size: 56
53904536 GATTATTAAT
* * * * **
53904546 ATAAATAATAAATAATTTAATCATATT-TTAATATAATTATTATTAAATATAATTTA
1 ATAAA-AATATATAATCTAATAAAATTCTTAATATAATTATTATTAAATATAATAAA
* * *
53904602 ATAAAAATATATAATTTAATAAAATTCTTAATATAATTACTTATATAAATTTACTAAA
1 ATAAAAATATATAATCTAATAAAATTCTTAATATAATTA-TTAT-TAAATATAATAAA
* *
53904660 ATCATAATATATAATACT-ATAAAA
1 ATAAAAATATATAAT-CTAATAAAA
53904684 ATAATATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 18 0.26
56 17 0.25
57 4 0.06
58 28 0.41
59 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (56 bp):
ATAAAAATATATAATCTAATAAAATTCTTAATATAATTATTATTAAATATAATAAA
Found at i:53904687 original size:21 final size:21
Alignment explanation
Indices: 53904663--53904729 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
53904653 TACTAAAATC
53904663 ATAATATATAATACTATAAAA
1 ATAATATATAATACTATAAAA
* *
53904684 ATAATATATAATCTACTTTATAAT
1 ATAATATATAA--TACTATA-AAA
* *
53904708 ATAAAAAATAATACTATAAAA
1 ATAATATATAATACTATAAAA
53904729 A
1 A
53904730 ACTTGAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.38
22 6 0.16
23 6 0.16
24 11 0.30
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATATATAATACTATAAAA
Found at i:53904694 original size:45 final size:44
Alignment explanation
Indices: 53904643--53904729 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 44
53904633 TATAATTACT
* * *
53904643 TATATAAATTTAC-TAAAATCATAATATATAATACTATAAAAATAA
1 TATAT-AATCTACTTAAAAT-ATAAAAAATAATACTATAAAAATAA
*
53904688 TATATAATCTACTTTATAATATAAAAAATAATACTATAAAAA
1 TATATAATCTAC-TTAAAATATAAAAAATAATACTATAAAAA
53904730 ACTTGAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 6 0.17
45 25 0.69
46 5 0.14
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (44 bp):
TATATAATCTACTTAAAATATAAAAAATAATACTATAAAAATAA
Found at i:53906196 original size:6 final size:6
Alignment explanation
Indices: 53906187--53906214 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
53906177 ACAAACAGAC
53906187 ACAAGA ACAAGA ACAAGA ACAAGA ACAA
1 ACAAGA ACAAGA ACAAGA ACAAGA ACAA
53906215 CAAGAACGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.18, G:0.14, T:0.00
Consensus pattern (6 bp):
ACAAGA
Found at i:53906218 original size:15 final size:15
Alignment explanation
Indices: 53906187--53906234 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
53906177 ACAAACAGAC
53906187 ACAAGAACAAG---A
1 ACAAGAACAAGAACA
53906199 ACAAGAACAAGAACA
1 ACAAGAACAAGAACA
*
53906214 ACAAGAACGAGAACA
1 ACAAGAACAAGAACA
53906229 A-AAGAA
1 ACAAGAA
53906235 ACAATCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.34
14 5 0.16
15 16 0.50
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (15 bp):
ACAAGAACAAGAACA
Found at i:53906237 original size:21 final size:21
Alignment explanation
Indices: 53906192--53906238 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
53906182 CAGACACAAG
*
53906192 AACAAGAACAAGAACAAGAAC
1 AACAAGAACAAGAACAAGAAA
*
53906213 AACAAGAACGAGAACAA-AAGA
1 AACAAGAACAAGAACAAGAA-A
53906234 AACAA
1 AACAA
53906239 TCAAAACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (21 bp):
AACAAGAACAAGAACAAGAAA
Found at i:53914484 original size:28 final size:28
Alignment explanation
Indices: 53914416--53914485 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
53914406 TTTAAAGATT
** *
53914416 AAATGCAAGGAAAATGTATTAAGATATG
1 AAATGCAAGGAAAATACAGTAAGATATG
*
53914444 AAATG-TAGAGAAAATACAGTAAGATATG
1 AAATGCAAG-GAAAATACAGTAAGATATG
53914472 AAATGCAAGGAAAA
1 AAATGCAAGGAAAA
53914486 AGACTATTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.20
Consensus pattern (28 bp):
AAATGCAAGGAAAATACAGTAAGATATG
Found at i:53919484 original size:15 final size:15
Alignment explanation
Indices: 53919461--53919490 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53919451 TATAATATTC
53919461 TCATAATAAATGCAT
1 TCATAATAAATGCAT
*
53919476 TCATGATAAATGCAT
1 TCATAATAAATGCAT
53919491 GCAATGCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (15 bp):
TCATAATAAATGCAT
Found at i:53928638 original size:9 final size:9
Alignment explanation
Indices: 53928616--53928664 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
53928606 GTAGGGATTC
53928616 AATTCGGTT
1 AATTCGGTT
* *
53928625 TATTCAGTT
1 AATTCGGTT
*
53928634 AATTCGGGT
1 AATTCGGTT
53928643 AATTCGGTT
1 AATTCGGTT
*
53928652 AATTCGATT
1 AATTCGGTT
53928661 AATT
1 AATT
53928665 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:53928812 original size:12 final size:12
Alignment explanation
Indices: 53928795--53928819 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53928785 TGTTATTTCG
53928795 GGTCGGTTAACC
1 GGTCGGTTAACC
53928807 GGTCGGTTAACC
1 GGTCGGTTAACC
53928819 G
1 G
53928820 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:53931604 original size:20 final size:20
Alignment explanation
Indices: 53931579--53931617 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
53931569 AAAATATGTA
53931579 TATAAAT-TTTTGGAATTTTT
1 TATAAATGTTTT-GAATTTTT
53931599 TATAAATGTTTTGAATTTT
1 TATAAATGTTTTGAATTTT
53931618 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (20 bp):
TATAAATGTTTTGAATTTTT
Found at i:53931654 original size:20 final size:20
Alignment explanation
Indices: 53931607--53931657 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
53931597 TTTATAAATG
*
53931607 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAACTA
** *
53931626 TTTAAAATTTTTGAAAACTA
1 TTTTGAATTTTTAAAAACTA
53931646 TTTTGAATTTTT
1 TTTTGAATTTTT
53931658 TGTAATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAACTA
Found at i:53933562 original size:26 final size:25
Alignment explanation
Indices: 53933494--53933588 Score: 70
Period size: 26 Copynumber: 3.8 Consensus size: 25
53933484 TAAGATATAC
** **
53933494 AAAAATATGTATGTACGTGCAT-AT
1 AAAAATATGTATGTATATAAATAAT
* *
53933518 AAAAATATATATACT-TATAAA-AAT
1 AAAAATATGTAT-GTATATAAATAAT
53933542 AAAAGGATATGTATGTATATAAATTAAT
1 AAAA--ATATGTATGTATATAAA-TAAT
*
53933570 AATAATATGTATGTATATA
1 AAAAATATGTATGTATATA
53933589 CGGATTTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
24 19 0.35
25 2 0.04
26 28 0.51
28 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (25 bp):
AAAAATATGTATGTATATAAATAAT
Found at i:53933829 original size:3 final size:3
Alignment explanation
Indices: 53933821--53933861 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
53933811 AACAAATAGG
*
53933821 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
53933862 GGACTAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:53935414 original size:44 final size:43
Alignment explanation
Indices: 53935366--53935582 Score: 220
Period size: 44 Copynumber: 5.0 Consensus size: 43
53935356 TGTGGCCTAA
* *
53935366 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCGCCGTCTTCG
* * *
53935410 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTCG
* * * *
53935454 ACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTCG
* * ** * **
53935498 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GCCGTCTTCG
* *
53935541 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCGCCGTCTT
53935583 TAACCAGCTC
Statistics
Matches: 148, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
43 34 0.23
44 113 0.76
45 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCGCCGTCTTCG
Found at i:53935420 original size:88 final size:87
Alignment explanation
Indices: 53935342--53935582 Score: 304
Period size: 88 Copynumber: 2.8 Consensus size: 87
53935332 CTGTAATCTC
* *
53935342 AGGGAGATAAGACTTGTGGCCTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCT
1 AGGGAGATAAGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCT
53935407 TCGATCTGCTCCACTACTGCTT
66 TCGATCTGCTCCACTACTGCTT
**** ** * * * * * *
53935429 AGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCAT
1 AGGGAGATAAGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-GCCGT
*
53935493 CTTCGACCTGCTCCACTACTGCTT
64 CTTCGATCTGCTCCACTACTGCTT
* *
53935517 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCT
1 AGGGAGATAAGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCT
53935582 T
66 T
53935583 TAACCAGCTC
Statistics
Matches: 122, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
87 52 0.43
88 70 0.57
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGGAGATAAGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCT
TCGATCTGCTCCACTACTGCTT
Found at i:53935792 original size:86 final size:87
Alignment explanation
Indices: 53935579--53935976 Score: 665
Period size: 87 Copynumber: 4.6 Consensus size: 87
53935569 AGATTCGCCG
* *
53935579 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTTGATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
* *
53935644 CGTAAGAAGGCAAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
*
53935666 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAG
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
* *
53935731 CACAGGAAGGCAAGATCTG-TT
66 CGCAGGAAGGCAAGATCTGCTA
53935752 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
53935817 CGTAGGAAGGCAAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
* *
53935839 TCTTTAACCAGATCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
53935904 CGCAGGAAGACAAGATCTGCT-
66 CGCAGGAAGGCAAGATCTGCTA
* *
53935925 TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCAATCT
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
53935977 TCACTGATCT
Statistics
Matches: 293, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
86 132 0.45
87 161 0.55
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
CGCAGGAAGGCAAGATCTGCTA
Found at i:53935830 original size:173 final size:173
Alignment explanation
Indices: 53935579--53935976 Score: 697
Period size: 173 Copynumber: 2.3 Consensus size: 173
53935569 AGATTCGCCG
* *
53935579 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTTGATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
53935644 CGTAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGT
66 CGTAAGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGCAACCGATGGAGGCAAGGCTTTGT
* * * *
53935709 TTTCGATCTGCTTCGCTGTTAGCACAGGAAGGCAAGATCTGTT
131 TTTCAATCTGCTTCGCTGTTAACACAGGAAGACAAGATCTGCT
53935752 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
53935817 CGTAGGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGCAACCGATGGAGGCAAGGCTTTGT
66 CGTAAGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGCAACCGATGGAGGCAAGGCTTTGT
*
53935882 TTTCAATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCT
131 TTTCAATCTGCTTCGCTGTTAACACAGGAAGACAAGATCTGCT
* *
53935925 TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCAATCT
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
53935977 TCACTGATCT
Statistics
Matches: 214, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 214 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (173 bp):
TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
CGTAAGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGCAACCGATGGAGGCAAGGCTTTGT
TTTCAATCTGCTTCGCTGTTAACACAGGAAGACAAGATCTGCT
Found at i:53937692 original size:49 final size:49
Alignment explanation
Indices: 53937634--53937729 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
53937624 CTTTTCATAT
**
53937634 TTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTTGTTTTTTTTA
1 TTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTCCTTTTTTTTA
* * **
53937683 TTTTTATTTTTATTTTGATTTTTTTCTCTTTTTCTTTTCCTTTTTTT
1 TTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTCCTTTTTTT
53937730 CGAATCGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.08, C:0.09, G:0.05, T:0.77
Consensus pattern (49 bp):
TTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTCCTTTTTTTTA
Found at i:53937714 original size:22 final size:22
Alignment explanation
Indices: 53937689--53937730 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
53937679 TTTATTTTTA
*
53937689 TTTTTATTTTGATTTTTTTCTC
1 TTTTTATTTTCATTTTTTTCTC
* *
53937711 TTTTTCTTTTCCTTTTTTTC
1 TTTTTATTTTCATTTTTTTC
53937731 GAATCGGATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTATTTTCATTTTTTTCTC
Found at i:53942649 original size:26 final size:25
Alignment explanation
Indices: 53942581--53942675 Score: 70
Period size: 26 Copynumber: 3.8 Consensus size: 25
53942571 TAAGATATAC
** **
53942581 AAAAATATGTATGTACGTGCAT-AT
1 AAAAATATGTATGTATATAAATAAT
* *
53942605 AAAAATATATATACT-TATAAA-AAT
1 AAAAATATGTAT-GTATATAAATAAT
53942629 AAAAGGATATGTATGTATATAAATTAAT
1 AAAA--ATATGTATGTATATAAA-TAAT
*
53942657 AATAATATGTATGTATATA
1 AAAAATATGTATGTATATA
53942676 CGGATTTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
24 19 0.35
25 2 0.04
26 28 0.51
28 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (25 bp):
AAAAATATGTATGTATATAAATAAT
Found at i:53942916 original size:3 final size:3
Alignment explanation
Indices: 53942908--53942939 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
53942898 AACAAATAGG
*
53942908 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
53942940 GGACTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:53944958 original size:15 final size:15
Alignment explanation
Indices: 53944938--53944968 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53944928 CAGATCACCG
53944938 GCACGTAGCCTGCTA
1 GCACGTAGCCTGCTA
53944953 GCACGTAGCCTGCTA
1 GCACGTAGCCTGCTA
53944968 G
1 G
53944969 ACTTAAAGTC
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:0.19, C:0.32, G:0.29, T:0.19
Consensus pattern (15 bp):
GCACGTAGCCTGCTA
Found at i:53952946 original size:3 final size:3
Alignment explanation
Indices: 53952938--53952963 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
53952928 AAGATTACAA
53952938 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
53952964 ATCATTGTTA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:53957092 original size:18 final size:18
Alignment explanation
Indices: 53957069--53957121 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
53957059 TAAAAATGTT
*
53957069 ATTAAATT-TATTATAAAA
1 ATTAAATTCTA-TAAAAAA
53957087 ATTAAATTCTATAAAAAA
1 ATTAAATTCTATAAAAAA
*
53957105 ATCAAATTC-A-AAAAAA
1 ATTAAATTCTATAAAAAA
53957121 A
1 A
53957122 ACTTTGAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 22 0.69
19 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTAAATTCTATAAAAAA
Found at i:53964771 original size:22 final size:20
Alignment explanation
Indices: 53964746--53964793 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
53964736 ACATTTTCCT
53964746 TTAATTAATTTAGAAAATAT-AA
1 TTAATTAA-TTA-AAAA-ATCAA
53964768 TTAATTAATTAAAAAATCAA
1 TTAATTAATTAAAAAATCAA
53964788 TTAATT
1 TTAATT
53964794 TACTTGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 3 0.12
22 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAATTAATTAAAAAATCAA
Found at i:53965899 original size:3 final size:3
Alignment explanation
Indices: 53965893--53965924 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53965883 TTCTTCTGTC
53965893 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
53965925 AGGTAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:53976668 original size:17 final size:20
Alignment explanation
Indices: 53976634--53976675 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
53976624 TTTTTTCTCG
*
53976634 AAAAATTATTGATGTATT-A
1 AAAAATTATAGATGTATTGA
53976653 AAAAATT-TAGAT-TATTGA
1 AAAAATTATAGATGTATTGA
53976671 AAAAA
1 AAAAA
53976676 AAAAGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
AAAAATTATAGATGTATTGA
Found at i:53978426 original size:10 final size:11
Alignment explanation
Indices: 53978413--53978455 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
53978403 TAAATTTTGC
53978413 TAAAAATA-AT
1 TAAAAATATAT
53978423 TAAAAATATAT
1 TAAAAATATAT
53978434 T--AAAT-TAT
1 TAAAAATATAT
53978442 TAAAAA-ATAT
1 TAAAAATATAT
53978452 TAAA
1 TAAA
53978456 TTTCTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 18 0.62
11 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATATAT
Found at i:53978465 original size:18 final size:19
Alignment explanation
Indices: 53978416--53978457 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
53978406 ATTTTGCTAA
*
53978416 AAATAATTAAAAATATATT
1 AAATTATTAAAAATATATT
53978435 AAATTATTAAAAA-ATATT
1 AAATTATTAAAAATATATT
53978453 AAATT
1 AAATT
53978458 TCTCAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTATTAAAAATATATT
Found at i:53978733 original size:28 final size:28
Alignment explanation
Indices: 53978701--53978759 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
53978691 TAAAATTTTA
53978701 TAATGGTTTGAAAAACTATATCCAAAAT
1 TAATGGTTTGAAAAACTATATCCAAAAT
*
53978729 TAATGGTTTGAAAAACTATGTCCAAAAT
1 TAATGGTTTGAAAAACTATATCCAAAAT
53978757 TAA
1 TAA
53978760 CTTGGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (28 bp):
TAATGGTTTGAAAAACTATATCCAAAAT
Found at i:53988462 original size:22 final size:23
Alignment explanation
Indices: 53988437--53988480 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
53988427 ATTTAATTTA
*
53988437 TTTTGTAAAATT-AAAAATCTTT
1 TTTTATAAAATTGAAAAATCTTT
*
53988459 TTTTATAAAATTGATAAATCTT
1 TTTTATAAAATTGAAAAATCTT
53988481 ATAAACAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTATAAAATTGAAAAATCTTT
Found at i:53996465 original size:35 final size:35
Alignment explanation
Indices: 53996420--53996496 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
53996410 TTATTTTTAA
53996420 TATC-AATTTTTATAAACTTGTTACAA-AAAATTTC
1 TATCAAATTTTTATAAACTTGTTA-AAGAAAATTTC
*
53996454 TATCAAATTTTTATAAATTTGTTAAAGAAAATTTC
1 TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
53996489 -ACTCAAAT
1 TA-TCAAAT
53996497 CATGAGCACG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (35 bp):
TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
Found at i:54003473 original size:22 final size:22
Alignment explanation
Indices: 54003448--54003500 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
54003438 CCCTTGTGTA
*
54003448 GGACGTATAAGAGCCTTTTATG
1 GGACGTATAAGAGCCTTTAATG
** *
54003470 GGACGTACGAGATCCTTTAATG
1 GGACGTATAAGAGCCTTTAATG
*
54003492 GTACGTATA
1 GGACGTATA
54003501 GAAGTACATG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (22 bp):
GGACGTATAAGAGCCTTTAATG
Found at i:54003563 original size:27 final size:27
Alignment explanation
Indices: 54003528--54003595 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
54003518 TATTACCAGA
*
54003528 AATATGGGAAGTTCACAAGGACTACCT
1 AATATGGGAAGTCCACAAGGACTACCT
* * *
54003555 AATAAGGGAAGTCCATAAGGACTATCT
1 AATATGGGAAGTCCACAAGGACTACCT
*
54003582 AATGTGGGAAGTCC
1 AATATGGGAAGTCC
54003596 GGAGAGACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (27 bp):
AATATGGGAAGTCCACAAGGACTACCT
Found at i:54003621 original size:54 final size:55
Alignment explanation
Indices: 54003562--54003718 Score: 130
Period size: 54 Copynumber: 2.9 Consensus size: 55
54003552 CCTAATAAGG
54003562 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCG-GAGAGACT-ATCTAAA-TGTTA
1 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGA-AGA-TAATCTAAAGTG-TA
* ** * *
54003617 -AAGTCCATCAGGGA-TATAAAATGT-GGAAGTCCGTTAAGATAATCTTAAGTGTA
1 GAAGTCCAT-AAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAAGTGTA
* * * * * *
54003670 GAAGCCCATTAGGACTATCTAATGT-GGAAATTCGTGAGGATTATCTAAA
1 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAA
54003719 ATGGGGAAAG
Statistics
Matches: 80, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
52 1 0.01
53 23 0.29
54 52 0.65
55 4 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (55 bp):
GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAAGTGTA
Found at i:54005143 original size:11 final size:11
Alignment explanation
Indices: 54005127--54005152 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
54005117 ATTTTTTTAA
54005127 TTTTAAAATAC
1 TTTTAAAATAC
54005138 TTTTAAAATAC
1 TTTTAAAATAC
54005149 TTTT
1 TTTT
54005153 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:54005169 original size:41 final size:40
Alignment explanation
Indices: 54005113--54005242 Score: 201
Period size: 39 Copynumber: 3.3 Consensus size: 40
54005103 TAATAAATAC
*
54005113 TTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTT
1 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTT
* *
54005153 TTTTAATTTTTTTAATTTTAAAATATTTTTAAGATAC-AT
1 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
*
54005192 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAATTT
1 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
54005232 TTTTAATTTTT
1 TTTTAATTTTT
54005243 AAAATAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.44
40 16 0.20
41 30 0.37
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (40 bp):
TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
Found at i:54005255 original size:21 final size:21
Alignment explanation
Indices: 54005216--54005255 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54005206 ATTTTAAAAT
**
54005216 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
54005237 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
54005256 GGTATTTATT
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:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:54005262 original size:22 final size:20
Alignment explanation
Indices: 54005215--54005262 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
54005205 AATTTTAAAA
**
54005215 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTGG
54005235 TAATTTTTAAAATAAAATTTTGG
1 T-ATTTTTAAAAT--AATTTTGG
54005258 TATTT
1 TATTT
54005263 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 4 0.17
23 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTGG
Found at i:54006142 original size:29 final size:28
Alignment explanation
Indices: 54006089--54006155 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
54006079 ATTTTTAAAA
*
54006089 ATTTAAAAAATTAAAAAAATATAAATTT
1 ATTTAAAAAATTAAAAAAATATAAAATT
**
54006117 ATTTTAAAAAATTAAAAATCGT-TAAAATT
1 A-TTTAAAAAATTAAAAA-AATATAAAATT
54006146 A-TTAAAAAAT
1 ATTTAAAAAAT
54006156 AATATATACT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
28 1 0.03
29 23 0.68
30 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
ATTTAAAAAATTAAAAAAATATAAAATT
Found at i:54006439 original size:19 final size:21
Alignment explanation
Indices: 54006402--54006452 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
54006392 AGGAATAAGC
* *
54006402 AAAAATTTAATTATAATA-TG
1 AAAATTTTAATCATAATATTG
54006422 AAAATTTTAATCAT-ATATTG
1 AAAATTTTAATCATAATATTG
54006442 ATAAATTTTAA
1 A-AAATTTTAA
54006453 AAAATGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 15 0.56
21 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AAAATTTTAATCATAATATTG
Found at i:54025576 original size:28 final size:29
Alignment explanation
Indices: 54025544--54025600 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
54025534 TATAAGTAAC
54025544 TTTTAACAAAAATT-TAA-AAATCATAAAA
1 TTTTAA-AAAAATTATAACAAATCATAAAA
* *
54025572 TTTTAAAAATATTATAACAATTCATAAAA
1 TTTTAAAAAAATTATAACAAATCATAAAA
54025601 AATAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 9 0.36
29 10 0.40
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTTAAAAAAATTATAACAAATCATAAAA
Found at i:54025687 original size:21 final size:21
Alignment explanation
Indices: 54025640--54025687 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
54025630 GTGGGTTATC
54025640 ATAATTAAAGATTTAATTAAA
1 ATAATTAAAGATTTAATTAAA
* *
54025661 AAAATTAAAAGA-TTAATTTAA
1 ATAATT-AAAGATTTAATTAAA
*
54025682 CTAATT
1 ATAATT
54025688 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATTAAAGATTTAATTAAA
Found at i:54026868 original size:40 final size:40
Alignment explanation
Indices: 54026813--54026892 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
54026803 ACTCAGTTGA
*
54026813 TTCATGTTTTACATGATGACATTCAGCAGATCTTGAGTTT
1 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
54026853 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
1 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
54026893 GAATCCCTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (40 bp):
TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
Found at i:54034292 original size:22 final size:23
Alignment explanation
Indices: 54034264--54034314 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
54034254 TTTGTTTTAC
*
54034264 TATTTTAAATAT-TATTTGATAAA
1 TATTTTAAAAATAT-TTTGATAAA
54034287 T-TTTTAAAAATATTTTGATAAA
1 TATTTTAAAAATATTTTGATAAA
54034309 TATTTT
1 TATTTT
54034315 TGAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTTTAAAAATATTTTGATAAA
Found at i:54034309 original size:12 final size:12
Alignment explanation
Indices: 54034278--54034314 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
54034268 TTAAATATTA
54034278 TTTGATAAAT-T
1 TTTGATAAATAT
*
54034289 TTT-AAAAATAT
1 TTTGATAAATAT
54034300 TTTGATAAATAT
1 TTTGATAAATAT
54034312 TTT
1 TTT
54034315 TGAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 5 0.23
11 7 0.32
12 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (12 bp):
TTTGATAAATAT
Found at i:54034394 original size:23 final size:23
Alignment explanation
Indices: 54034351--54034395 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
54034341 TTAAATTATT
54034351 TTTATTATTTTAAATATAAAATA
1 TTTATTATTTTAAATATAAAATA
54034374 TTTATT-TTTATATAATA-AAAAT
1 TTTATTATTT-TA-AATATAAAAT
54034396 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATTATTTTAAATATAAAATA
Found at i:54035129 original size:20 final size:19
Alignment explanation
Indices: 54035106--54035153 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
54035096 TAAAATATCT
*
54035106 TATAATATATTAATATCTTA
1 TATAATATATTAAAAT-TTA
* *
54035126 TATAAAATTTTTAAAATTTA
1 TATAATA-TATTAAAATTTA
54035146 TATAATAT
1 TATAATAT
54035154 TAATTATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATTAAAATTTA
Found at i:54035509 original size:29 final size:29
Alignment explanation
Indices: 54035445--54035514 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
54035435 GTACTTTCAT
* * * *
54035445 AAAATATCTAATGTGATATCTGTAGTTTG
1 AAAATGTCTATTGTGATATCTGTAATTTC
54035474 AAAATGTCTATTGTGATATCTG-AATTATC
1 AAAATGTCTATTGTGATATCTGTAATT-TC
* *
54035503 AATATGTGTATT
1 AAAATGTCTATT
54035515 ATTATGGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (29 bp):
AAAATGTCTATTGTGATATCTGTAATTTC
Done.