Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 25 of 208
Found at i:7079445 original size:56 final size:50
Alignment explanation
Indices: 7079183--7079481 Score: 409
Period size: 50 Copynumber: 5.8 Consensus size: 50
7079173 GATAATAACA
* ** * *
7079183 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGG
* * * *
7079234 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7079284 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7079334 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
7079384 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG
* *
7079439 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7079482 TTACCCAAAT
Statistics
Matches: 225, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
50 146 0.65
51 33 0.15
52 1 0.00
53 4 0.02
55 2 0.01
56 39 0.17
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:7079935 original size:30 final size:30
Alignment explanation
Indices: 7079900--7079957 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7079890 CCTCGATTCT
*
7079900 AACTTTTTCAAAATTACAATTTTACCCCTA
1 AACTTTTGCAAAATTACAATTTTACCCCTA
* * *
7079930 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTACCCC
7079958 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTACCCCTA
Found at i:7085700 original size:35 final size:35
Alignment explanation
Indices: 7085654--7085723 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
7085644 TGATAAAAAT
* *
7085654 AGTTTGGATTTGAATCTTAATTATATTTTAAACCC
1 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
7085689 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
1 AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
7085724 CATATAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (35 bp):
AGTTTGGATTTGAATCCTAACTATATTTTAAACCC
Found at i:7086479 original size:59 final size:59
Alignment explanation
Indices: 7086375--7086497 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 59
7086365 AAGCAAAAAT
* * * * * *
7086375 AAAAGATTAGATATCAAATTAGGAAAAAGTGTCGAGTTTATGTACTAAATGGGACCCA-A
1 AAAAGATTAAATACCAAATTAGGAAAAAGTGTCAAATTCAAGTACTAAATGGGA-CCATA
*
7086434 AAAAGATTAAATACCAAATTAGGAAAATA-TGTCAAATTCAAGTACTAAATTGGACCATA
1 AAAAGATTAAATACCAAATTAGGAAAA-AGTGTCAAATTCAAGTACTAAATGGGACCATA
7086493 AAAAG
1 AAAAG
7086498 TCAAGGTACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 3 0.05
59 51 0.93
60 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (59 bp):
AAAAGATTAAATACCAAATTAGGAAAAAGTGTCAAATTCAAGTACTAAATGGGACCATA
Found at i:7090111 original size:15 final size:14
Alignment explanation
Indices: 7090084--7090111 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7090074 AATTAGTGTT
7090084 GAAAACTAAAAAAA
1 GAAAACTAAAAAAA
7090098 GAAAACTAAAAAAA
1 GAAAACTAAAAAAA
7090112 TAGGGGAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
GAAAACTAAAAAAA
Found at i:7090334 original size:31 final size:29
Alignment explanation
Indices: 7090299--7090357 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
7090289 TGACCACTTT
*
7090299 GTAACAAAATAATAACATAAGTGGCTAAAAC
1 GTAAC-AAATAA-AACATAAGTGACTAAAAC
* *
7090330 GTAACAATTCAAACATAAGTGACTAAAA
1 GTAACAAATAAAACATAAGTGACTAAAA
7090358 TAATCTGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 4 0.16
31 5 0.20
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.20
Consensus pattern (29 bp):
GTAACAAATAAAACATAAGTGACTAAAAC
Found at i:7093425 original size:29 final size:29
Alignment explanation
Indices: 7093388--7093446 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7093378 TAATTTTTAA
*
7093388 ATGTAGTGTTTTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
*
7093417 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
7093446 A
1 A
7093447 GTTTATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:7094311 original size:36 final size:35
Alignment explanation
Indices: 7094256--7094332 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
7094246 AAGAAAATAT
*
7094256 ATTTTGTTTAACTAGACTTGCAAGTAATCTCTTAG
1 ATTTTGTTTAACTAGACTTGCAAGCAATCTCTTAG
*
7094291 ATTTTGTTTTAACTTA-ACTTGCAAGCAATCTTTTAG
1 ATTTTG-TTTAAC-TAGACTTGCAAGCAATCTCTTAG
*
7094327 AATTTG
1 ATTTTG
7094333 AGTCACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 6 0.16
36 29 0.78
37 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (35 bp):
ATTTTGTTTAACTAGACTTGCAAGCAATCTCTTAG
Found at i:7094759 original size:7 final size:7
Alignment explanation
Indices: 7094749--7094773 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7094739 AAAAATAAAG
7094749 ATATGAT
1 ATATGAT
7094756 ATATGAT
1 ATATGAT
7094763 ATATGAT
1 ATATGAT
7094770 ATAT
1 ATAT
7094774 TGTATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATATGAT
Found at i:7094871 original size:20 final size:20
Alignment explanation
Indices: 7094836--7094904 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
7094826 TTAGACCCAT
*
7094836 ATATAATA-AT-TGATTATA
1 ATATAATATATATTATTATA
7094854 ATATAATATATATTATTAGT-
1 ATATAATATATATTATTA-TA
*
7094874 ATA-AATATAATATTATTTTA
1 ATATAATAT-ATATTATTATA
*
7094894 AAATCAATATA
1 ATAT-AATATA
7094905 CGGGTATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.20
19 8 0.20
20 18 0.44
21 2 0.05
22 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATAATATATATTATTATA
Found at i:7094881 original size:17 final size:18
Alignment explanation
Indices: 7094855--7094888 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7094845 TTGATTATAA
*
7094855 TATAATATATATTATTAG
1 TATAATATATAATATTAG
7094873 TATAA-ATATAATATTA
1 TATAATATATAATATTA
7094889 TTTTAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TATAATATATAATATTAG
Found at i:7094902 original size:22 final size:24
Alignment explanation
Indices: 7094853--7094904 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
7094843 AATTGATTAT
**
7094853 AATATAATATATATTATTAGTATA
1 AATATAATATATATTATTAAAATA
*
7094877 AATATAATAT-TATT-TTAAAATC
1 AATATAATATATATTATTAAAATA
7094899 AATATA
1 AATATA
7094905 CGGGTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 4 0.16
24 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATATATTATTAAAATA
Found at i:7099053 original size:14 final size:14
Alignment explanation
Indices: 7099011--7099058 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
7099001 GCAATTTAGA
7099011 TTTTTTTCTTTTATGT
1 TTTTTTTC-TTTAT-T
*
7099027 TTTTTTTAACTTTCTT
1 TTTTTTT--CTTTATT
7099043 TTTTTTTCTTTATT
1 TTTTTTTCTTTATT
7099057 TT
1 TT
7099059 CCATTCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
16 15 0.54
17 4 0.14
18 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTATT
Found at i:7102967 original size:35 final size:34
Alignment explanation
Indices: 7102921--7102994 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
7102911 GTAATTAACA
* *
7102921 AATCCCCATTTTGATGGCGGAGAGAAAAAAAAACT
1 AATCCACATTTT-ATGGCCGAGAGAAAAAAAAACT
* * *
7102956 AATCCACATTTTCTGGCCGAGTGAAAAAACAACT
1 AATCCACATTTTATGGCCGAGAGAAAAAAAAACT
*
7102990 GATCC
1 AATCC
7102995 TCATCTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (34 bp):
AATCCACATTTTATGGCCGAGAGAAAAAAAAACT
Found at i:7112173 original size:21 final size:21
Alignment explanation
Indices: 7112148--7112192 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7112138 CTAATAGAAT
*
7112148 AAAATTATTTA-AGTTAAATTA
1 AAAATTATATATA-TTAAATTA
7112169 AAAATTATATATATTAAATTA
1 AAAATTATATATATTAAATTA
7112190 AAA
1 AAA
7112193 TTTTGTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATTATATATATTAAATTA
Found at i:7112419 original size:18 final size:17
Alignment explanation
Indices: 7112398--7112441 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
7112388 TTTAAAAATA
7112398 TATAAAATTTGAAATTTT
1 TATAAAATTTG-AATTTT
*
7112416 TATAAATATTTGGATTTT
1 TATAAA-ATTTGAATTTT
7112434 TA-AAAATT
1 TATAAAATT
7112442 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 13 0.54
19 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAAATTTGAATTTT
Found at i:7112452 original size:18 final size:18
Alignment explanation
Indices: 7112411--7112453 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7112401 AAAATTTGAA
*
7112411 ATTTTTATAAATATTTGG
1 ATTTTTAAAAATATTTGG
*
7112429 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTGG
7112448 ATTTTT
1 ATTTTT
7112454 TTTGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATATTTGG
Found at i:7115129 original size:23 final size:23
Alignment explanation
Indices: 7115093--7115144 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
7115083 GATTATTTTT
*
7115093 ATATAA-ACATAAATTTA-TAAA
1 ATATAATACATAAATATATTAAA
7115114 ATATAATACATCAAATATATTAAA
1 ATATAATACAT-AAATATATTAAA
7115138 ATA-AATA
1 ATATAATA
7115145 TATTTCCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 6 0.22
22 4 0.15
23 10 0.37
24 7 0.26
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAATACATAAATATATTAAA
Found at i:7115309 original size:22 final size:22
Alignment explanation
Indices: 7115284--7115326 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7115274 TATCTAAATA
7115284 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
* *
7115306 ATAATAGCAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
7115327 AACTGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:7116621 original size:28 final size:28
Alignment explanation
Indices: 7116581--7116638 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7116571 CATCAGAGTT
7116581 AGTCTCTTTTTGATAGTTTAACAACCAA
1 AGTCTCTTTTTGATAGTTTAACAACCAA
7116609 AGTCTCTTTTTGATAGTTTAACAACCAA
1 AGTCTCTTTTTGATAGTTTAACAACCAA
7116637 AG
1 AG
7116639 AGAATATCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (28 bp):
AGTCTCTTTTTGATAGTTTAACAACCAA
Found at i:7117861 original size:25 final size:25
Alignment explanation
Indices: 7117830--7117879 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7117820 ATGAGGATGC
7117830 GGAGATATGTTTGTGTAGCCTCTGA
1 GGAGATATGTTTGTGTAGCCTCTGA
7117855 GGAGATATGTTTGTGTAGCCTCTGA
1 GGAGATATGTTTGTGTAGCCTCTGA
7117880 TAGGGAAAAT
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:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (25 bp):
GGAGATATGTTTGTGTAGCCTCTGA
Found at i:7120396 original size:22 final size:22
Alignment explanation
Indices: 7120350--7120396 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7120340 TGCATTTATT
* **
7120350 ATTATAATTGTAATTATTTTTA
1 ATTAAAATTGTAATTATTTACA
*
7120372 ATTAAAATTTTAATTATTTACA
1 ATTAAAATTGTAATTATTTACA
7120394 ATT
1 ATT
7120397 TTGTACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTAAAATTGTAATTATTTACA
Found at i:7121033 original size:17 final size:17
Alignment explanation
Indices: 7121006--7121055 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
7120996 GAAATATTTG
* *
7121006 ATATTTGAAATGGCA-A
1 ATATGTGAAATGGAAGA
7121022 ATGATGTGAAATGGAAGTA
1 AT-ATGTGAAATGGAAG-A
7121041 ATATGTGAAATGGAA
1 ATATGTGAAATGGAA
7121056 TATGCAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 11 0.38
18 13 0.45
19 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.26, T:0.28
Consensus pattern (17 bp):
ATATGTGAAATGGAAGA
Found at i:7124673 original size:15 final size:15
Alignment explanation
Indices: 7124648--7124682 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7124638 AACTCTATTT
*
7124648 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
7124662 TAATTAATATTAAGA
1 TAATTAATATTAAGA
7124677 TAATTA
1 TAATTA
7124683 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:7127041 original size:24 final size:23
Alignment explanation
Indices: 7127009--7127059 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
7126999 GAAGTTGATA
*
7127009 ATTTTATTTCTT-TTGTTATTTATT
1 ATTTTATTT-TTATTCTTATTT-TT
7127033 ATTTTATTTTTATTCTTATTTTT
1 ATTTTATTTTTATTCTTATTTTT
7127056 ATTT
1 ATTT
7127060 CTCTTTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTATTTTTATTCTTATTTTT
Found at i:7127054 original size:11 final size:11
Alignment explanation
Indices: 7127009--7127059 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
7126999 GAAGTTGATA
7127009 ATTTTATTTCTT
1 ATTTTATTT-TT
7127021 -TTGTTATTTATT
1 ATT-TTATTT-TT
7127033 ATTTTATTTTT
1 ATTTTATTTTT
7127044 ATTCTTATTTTT
1 ATT-TTATTTTT
7127056 ATTT
1 ATTT
7127060 CTCTTTATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 8 0.23
12 25 0.71
13 2 0.06
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:7134776 original size:15 final size:15
Alignment explanation
Indices: 7134756--7134786 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7134746 AGTGTTGGCA
7134756 TTTTTTACTATGAAT
1 TTTTTTACTATGAAT
7134771 TTTTTTACTATGAAT
1 TTTTTTACTATGAAT
7134786 T
1 T
7134787 AATGTTTAGC
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:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTTTACTATGAAT
Found at i:7135893 original size:26 final size:26
Alignment explanation
Indices: 7135838--7135893 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
7135828 CCTAATTTAA
* **
7135838 TTAATTCTTAAATATATTTTTAATTT
1 TTAACTCTTAAATATATTTTTAATAC
*
7135864 TTAACTCTTAAGTATATTTTTTAA-AC
1 TTAACTCTTAAATATA-TTTTTAATAC
7135890 TTAA
1 TTAA
7135894 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (26 bp):
TTAACTCTTAAATATATTTTTAATAC
Found at i:7137467 original size:2 final size:2
Alignment explanation
Indices: 7137460--7137495 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7137450 ATCGGTATAT
7137460 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7137496 AGCTCCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7145826 original size:14 final size:14
Alignment explanation
Indices: 7145799--7145832 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7145789 AAAATCTTTT
*
7145799 TTTTCTATATATATA
1 TTTT-TATAGATATA
7145814 TTTTTATAGATATA
1 TTTTTATAGATATA
7145828 TTTTT
1 TTTTT
7145833 TTACACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTTTATAGATATA
Found at i:7152426 original size:3 final size:3
Alignment explanation
Indices: 7152420--7152456 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
7152410 AAGATAATAA
7152420 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7152457 ACACTCATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:7152446 original size:17 final size:17
Alignment explanation
Indices: 7152424--7152456 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7152414 TAATAAATTA
7152424 TTATTATTATTATTATT
1 TTATTATTATTATTATT
7152441 TTATTATTATTATTAT
1 TTATTATTATTATTAT
7152457 ACACTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTATTATTATT
Found at i:7153208 original size:103 final size:103
Alignment explanation
Indices: 7153014--7153222 Score: 253
Period size: 103 Copynumber: 2.0 Consensus size: 103
7153004 TGAACGGGTG
* * *
7153014 TATAATAATAATTTTAAATCTTTAAAATTTGATGATGTGTCAAAATTTTATTGGTGCCTAAAAAC
1 TATAATAATAATTTTAAATCTTTAAAATTAGATAATGTGACAAAATTTTATTGGTGCCTAAAAAC
* *
7153079 TATAGTTTTTAGGATCATAATAATATAAATTATTCTCA
66 TATAGTTTTTAGAATCATAATAATATAAATTATTCCCA
* * *
7153117 TATAATAATACTTTGT-TATCTTTAAAATTAGATAATGTGACAATATTTTAATT-GTGCCTAAAA
1 TATAATAATAATTT-TAAATCTTTAAAATTAGATAATGTGACAAAATTTT-ATTGGTGCCTAAAA
* ** * *
7153180 ACTAT-GCTTTTTAGAATTATCCTGATATAAGTTATTCCCA
64 ACTATAG-TTTTTAGAATCATAATAATATAAATTATTCCCA
7153220 TAT
1 TAT
7153223 TTAATTGCAT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
102 1 0.01
103 85 0.94
104 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (103 bp):
TATAATAATAATTTTAAATCTTTAAAATTAGATAATGTGACAAAATTTTATTGGTGCCTAAAAAC
TATAGTTTTTAGAATCATAATAATATAAATTATTCCCA
Found at i:7155016 original size:11 final size:11
Alignment explanation
Indices: 7155000--7155024 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7154990 AGGGGTGTTC
7155000 AAAATTCGGTT
1 AAAATTCGGTT
7155011 AAAATTCGGTT
1 AAAATTCGGTT
7155022 AAA
1 AAA
7155025 GGTCGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (11 bp):
AAAATTCGGTT
Found at i:7161816 original size:18 final size:18
Alignment explanation
Indices: 7161793--7161836 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
7161783 ATAGAATTGT
*
7161793 AATAATAGGAGCAGCAGA-
1 AATAATAGCAGCAGCA-AC
7161811 AATAATAGCAGCAGCAAC
1 AATAATAGCAGCAGCAAC
7161829 AATAATAG
1 AATAATAG
7161837 TAACACACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (18 bp):
AATAATAGCAGCAGCAAC
Found at i:7164125 original size:11 final size:11
Alignment explanation
Indices: 7164109--7164139 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
7164099 TTAATTATTT
7164109 TCTCAATTTGC
1 TCTCAATTTGC
7164120 TCTCAATTTGC
1 TCTCAATTTGC
7164131 TCTCAATTT
1 TCTCAATTT
7164140 CCTTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:7164200 original size:50 final size:51
Alignment explanation
Indices: 7164125--7164223 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
7164115 TTTGCTCTCA
* *
7164125 ATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATA-TTTAATTTT
1 ATTTGCTCACAATTTCCTTCCAAATTTATCTCAAATCCATATTTTAATTTT
* * *
7164175 ATTTGCTCACAATTTCC-TCTTAAATTTATCTTAAATCCCTATTTTAATT
1 ATTTGCTCACAATTTCCTTC-CAAATTTATCTCAAATCCATATTTTAATT
7164224 ATTTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 33 0.79
51 7 0.17
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.48
Consensus pattern (51 bp):
ATTTGCTCACAATTTCCTTCCAAATTTATCTCAAATCCATATTTTAATTTT
Found at i:7167118 original size:122 final size:124
Alignment explanation
Indices: 7166901--7167204 Score: 461
Period size: 122 Copynumber: 2.5 Consensus size: 124
7166891 CAAACATGCT
* * * * *
7166901 ACTGTAGCAAAAGTGCGTCCACGAGGGTGCGATTTCATAAATTCTTTTGATAAAGCATCTGCTTG
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCATCTGCTTG
7166966 AAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAA-T-TTTTTTCAGGACCA
66 AAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
* * * * *
7167023 ACTGTAGCAAAAACGCGTTCACGTGGGCACGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCAT-CTGCTT
* **
7167088 GAAGTG-TTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
65 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
7167147 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCAT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCAT
7167205 TCTAAACCCT
Statistics
Matches: 162, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
122 83 0.51
123 12 0.07
124 67 0.41
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCATCTGCTTG
AAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
Found at i:7167330 original size:22 final size:22
Alignment explanation
Indices: 7167270--7167323 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
7167260 TCTCTAAAAT
7167270 CCTAAAAACCTTAAACCCTAAC
1 CCTAAAAACCTTAAACCCTAAC
*
7167292 CCTGAAAACCTTAAACCCTAAC
1 CCTAAAAACCTTAAACCCTAAC
7167314 CCTAAAAACC
1 CCTAAAAACC
7167324 CAAAACCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (22 bp):
CCTAAAAACCTTAAACCCTAAC
Found at i:7167729 original size:18 final size:18
Alignment explanation
Indices: 7167706--7167740 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7167696 CACTCCCACT
7167706 TTTTTCGGTTTTACTTTA
1 TTTTTCGGTTTTACTTTA
*
7167724 TTTTTCGTTTTTACTTT
1 TTTTTCGGTTTTACTTT
7167741 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTCGGTTTTACTTTA
Found at i:7168403 original size:3 final size:3
Alignment explanation
Indices: 7168395--7168424 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7168385 CAAACCTTTG
7168395 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
7168425 GCTGTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:7178497 original size:3 final size:3
Alignment explanation
Indices: 7178489--7178515 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7178479 TTATATTTTT
7178489 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
7178516 CAAAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7179602 original size:30 final size:30
Alignment explanation
Indices: 7179560--7179643 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 30
7179550 ATAATAGTTA
*
7179560 AATTTA-AAATTTTTAAATTTTTAAAATTT
1 AATTTATATATTTTTAAATTTTTAAAATTT
*
7179589 AATTTATATA-TTTT-AATTTTAATATAATTT
1 AATTTATATATTTTTAAATTTT--TAAAATTT
* *
7179619 AGTTTTTATATTTTTATAATATTTT
1 AATTTATATATTTTTA-AAT-TTTT
7179644 TAATTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
28 6 0.14
29 10 0.23
30 17 0.39
31 4 0.09
32 1 0.02
33 3 0.07
34 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
AATTTATATATTTTTAAATTTTTAAAATTT
Found at i:7179619 original size:16 final size:15
Alignment explanation
Indices: 7179575--7179628 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
7179565 AAAATTTTTA
*
7179575 AATTTT-TAAAATTT
1 AATTTTATATAATTT
*
7179589 AA-TTTATATATTTT
1 AATTTTATATAATTT
7179603 AATTTTAATATAATTT
1 AATTTT-ATATAATTT
*
7179619 AGTTTT-TATA
1 AATTTTATATA
7179629 TTTTTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.09
14 14 0.42
15 3 0.09
16 13 0.39
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
AATTTTATATAATTT
Found at i:7179629 original size:16 final size:16
Alignment explanation
Indices: 7179575--7179629 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
7179565 AAAATTTTTA
7179575 AATTTTTA-A-AATTT
1 AATTTTTATATAATTT
*
7179589 AA--TTTATATATTTT
1 AATTTTTATATAATTT
*
7179603 AATTTTAATATAATTT
1 AATTTTTATATAATTT
*
7179619 AGTTTTTATAT
1 AATTTTTATAT
7179630 TTTTATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 4 0.12
13 1 0.03
14 8 0.25
16 19 0.59
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
AATTTTTATATAATTT
Found at i:7181062 original size:22 final size:23
Alignment explanation
Indices: 7181029--7181075 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7181019 AAAAATCTAT
*
7181029 TTTTTATAAAATAATAAATATTA
1 TTTTTATAAAATAACAAATATTA
*
7181052 TTTTTAT-AAATACCAAATATTA
1 TTTTTATAAAATAACAAATATTA
7181074 TT
1 TT
7181076 ATTGAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTATAAAATAACAAATATTA
Found at i:7192728 original size:12 final size:12
Alignment explanation
Indices: 7192711--7192740 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7192701 ACAATATCAT
*
7192711 AATAATCCTAAC
1 AATAATCCTAAA
7192723 AATAATCCTAAA
1 AATAATCCTAAA
7192735 AATAAT
1 AATAAT
7192741 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATCCTAAA
Found at i:7201512 original size:21 final size:21
Alignment explanation
Indices: 7201482--7201534 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7201472 CATTGTTTCT
* * *
7201482 AATCTTACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
*
7201503 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
7201524 AATCTCACCGC
1 AATCTCACCGC
7201535 CACCACTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:7210807 original size:11 final size:11
Alignment explanation
Indices: 7210791--7210817 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7210781 ATTTTTTTAA
7210791 TTTTAAAATAC
1 TTTTAAAATAC
7210802 TTTTAAAATAC
1 TTTTAAAATAC
7210813 TTTTA
1 TTTTA
7210818 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:7210831 original size:41 final size:40
Alignment explanation
Indices: 7210781--7210907 Score: 193
Period size: 40 Copynumber: 3.1 Consensus size: 40
7210771 ATTATTTTTT
*
7210781 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTATTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT-TTAA
*
7210822 ATTTTTTTAATTTTAAAATTTTTTTAAAATAC-TTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
* *
7210861 TTTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 -ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
7210902 ATTTTT
1 ATTTTT
7210908 ATTTTAGTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
39 4 0.05
40 38 0.49
41 36 0.46
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:7212759 original size:18 final size:20
Alignment explanation
Indices: 7212728--7212767 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7212718 AAACAGAAAA
7212728 TTTTAGCCTCAAAAATA-TT
1 TTTTAGCCTCAAAAATACTT
*
7212747 TTTTAG-CTTAAAAATACTT
1 TTTTAGCCTCAAAAATACTT
7212766 TT
1 TT
7212768 GAGAAGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTAGCCTCAAAAATACTT
Found at i:7224705 original size:37 final size:37
Alignment explanation
Indices: 7224664--7224774 Score: 123
Period size: 46 Copynumber: 2.8 Consensus size: 37
7224654 TTTGAGTACT
7224664 TCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTA
*
7224701 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAA---GT-G-----GCTACACTTA
*
7224747 TCTGATCAAGTGGCAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
7224775 TAGCCTAGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 18
0.75 0.04 0.22
Matches are distributed among these distances:
37 24 0.39
40 2 0.03
41 1 0.02
42 1 0.02
43 2 0.03
46 32 0.52
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (37 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTA
Found at i:7224800 original size:45 final size:46
Alignment explanation
Indices: 7224691--7224814 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7224681 GTGATAAGTG
* *
7224691 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
7224737 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
7224782 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
7224815 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:7232492 original size:17 final size:18
Alignment explanation
Indices: 7232459--7232499 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7232449 TAATATATGC
*
7232459 ATTTTTAATATATTTTT-
1 ATTTTTAAGATATTTTTA
7232476 ATTTTTAAGAT-TCTTTTA
1 ATTTTTAAGATAT-TTTTA
7232494 ATTTTT
1 ATTTTT
7232500 TAGAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTAAGATATTTTTA
Found at i:7233934 original size:9 final size:9
Alignment explanation
Indices: 7233917--7233950 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7233907 ATCAGCATGA
7233917 TGATGATGC
1 TGATGATGC
*
7233926 TGCTGATGC
1 TGATGATGC
*
7233935 TGATGATGA
1 TGATGATGC
7233944 TGATGAT
1 TGATGAT
7233951 ATAATAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.35
Consensus pattern (9 bp):
TGATGATGC
Found at i:7235831 original size:17 final size:19
Alignment explanation
Indices: 7235799--7235835 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
7235789 CTTAACTCTA
7235799 AAAAATAAAATATATTTTT
1 AAAAATAAAATATATTTTT
7235818 AAAAA-AAAAT-TATTTTT
1 AAAAATAAAATATATTTTT
7235835 A
1 A
7235836 TCCCTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATAAAATATATTTTT
Found at i:7236709 original size:20 final size:19
Alignment explanation
Indices: 7236671--7236738 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
7236661 CATAATTAGA
* * *
7236671 AAAATGATTAAATCTAGTT
1 AAAATGTTTCAATCAAGTT
*
7236690 AAAATAGTTTCAATTAAGTT
1 AAAAT-GTTTCAATCAAGTT
*
7236710 AAACAT-TTTCAATCATGTT
1 AAA-ATGTTTCAATCAAGTT
7236729 AAAATTGTTT
1 AAAA-TGTTT
7236739 TTTAAACAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 1 0.03
19 20 0.51
20 16 0.41
21 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (19 bp):
AAAATGTTTCAATCAAGTT
Found at i:7238486 original size:25 final size:25
Alignment explanation
Indices: 7238458--7238522 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
7238448 TTAGCTCTCA
7238458 TGAGCTTCCTGTTAAATGGTTCTTG
1 TGAGCTTCCTGTTAAATGGTTCTTG
*
7238483 TGAGCTTCCCGTTAAATGGTTCTTG
1 TGAGCTTCCTGTTAAATGGTTCTTG
7238508 TGAGCTTCCTGTTAA
1 TGAGCTTCCTGTTAA
7238523 TAGCTTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (25 bp):
TGAGCTTCCTGTTAAATGGTTCTTG
Found at i:7238587 original size:24 final size:24
Alignment explanation
Indices: 7238559--7238640 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
7238549 AGGCTCTTTT
7238559 ATGAGCTTCTCGATATTGGCTCAC
1 ATGAGCTTCTCGATATTGGCTCAC
* *
7238583 ATGAGCTTCGCGATGTTGGCTCAC
1 ATGAGCTTCTCGATATTGGCTCAC
* *
7238607 ATGAGCTT-TCCGTTACATGGCTCAC
1 ATGAGCTTCT-CGATA-TTGGCTCAC
7238632 ATGAGCTTC
1 ATGAGCTTC
7238641 CCCTTATATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 33 0.67
25 16 0.33
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCTCGATATTGGCTCAC
Found at i:7238633 original size:25 final size:25
Alignment explanation
Indices: 7238599--7238653 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
7238589 TTCGCGATGT
* *
7238599 TGGCTCACATGAGCTTTCCGTTACA
1 TGGCTCACATGAGCTTCCCCTTACA
*
7238624 TGGCTCACATGAGCTTCCCCTTATA
1 TGGCTCACATGAGCTTCCCCTTACA
7238649 TGGCT
1 TGGCT
7238654 TGAAAGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCCTTACA
Found at i:7239366 original size:14 final size:15
Alignment explanation
Indices: 7239334--7239366 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7239324 AATGATAATG
*
7239334 TATGATTTGAGATAA
1 TATGATTGGAGATAA
7239349 TATGATTGGAGA-AA
1 TATGATTGGAGATAA
7239363 TATG
1 TATG
7239367 CATATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (15 bp):
TATGATTGGAGATAA
Found at i:7239414 original size:129 final size:129
Alignment explanation
Indices: 7239246--7239502 Score: 478
Period size: 129 Copynumber: 2.0 Consensus size: 129
7239236 GAGTTAGACA
*
7239246 TATTTTGATATGTATATGTATGTGTGGCTTAATACGTTTGTTGTGTTTAATGTGGTTGAGTAATG
1 TATTTTGATATGTATATGTATGTGTGGCTTAATACGTTTGTTGTGTTTAATATGGTTGAGTAATG
7239311 GATAATTTATGAAAATGATAATGTATGATTTGAGATAATATGATTGGAGAAATATGCATATAAT
66 GATAATTTATGAAAATGATAATGTATGATTTGAGATAATATGATTGGAGAAATATGCATATAAT
*
7239375 TATTTTGATATGTATATGTATGTGTGGCTTAATATGTTTGTTGTGTTTAATATGGTTGAGTAATG
1 TATTTTGATATGTATATGTATGTGTGGCTTAATACGTTTGTTGTGTTTAATATGGTTGAGTAATG
* *
7239440 GATAATTTATGAATATGATAATGTATTATTTGAGATAATATGATTGGAGAAATATGCATATAA
66 GATAATTTATGAAAATGATAATGTATGATTTGAGATAATATGATTGGAGAAATATGCATATAA
7239503 GTTTATATGG
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.44
Consensus pattern (129 bp):
TATTTTGATATGTATATGTATGTGTGGCTTAATACGTTTGTTGTGTTTAATATGGTTGAGTAATG
GATAATTTATGAAAATGATAATGTATGATTTGAGATAATATGATTGGAGAAATATGCATATAAT
Found at i:7239991 original size:6 final size:6
Alignment explanation
Indices: 7239980--7240008 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7239970 AATTAATACC
7239980 AAATAA AAATAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATA
7240009 TATTATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:7239996 original size:30 final size:29
Alignment explanation
Indices: 7239934--7239993 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
7239924 TTGATTTTTC
*
7239934 AATAATAATTAATACCAAGTAAAATATAA
1 AATAATAATTAATACCAAATAAAATATAA
7239963 AATATATAATTAATACCAAATAAAA-ATAA
1 AATA-ATAATTAATACCAAATAAAATATAA
7239992 AA
1 AA
7239994 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (29 bp):
AATAATAATTAATACCAAATAAAATATAA
Found at i:7242164 original size:19 final size:18
Alignment explanation
Indices: 7242149--7242185 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
7242139 AAATTTAACT
7242149 TTTTTATATATTTTTAGAA
1 TTTTTATATATTTTTA-AA
*
7242168 TTTTTATATTTTTTTAAA
1 TTTTTATATATTTTTAAA
7242186 AATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTATATATTTTTAAA
Found at i:7242731 original size:21 final size:21
Alignment explanation
Indices: 7242713--7242754 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
7242703 TGTTTTTTTC
7242713 ATTATATATGAATTTTTTTGAAA
1 ATTATATATG-ATTTTTTT-AAA
7242736 ATTATATATGATTTTTTTA
1 ATTATATATGATTTTTTTA
7242755 TTAAATTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 8 0.42
23 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTATATATGATTTTTTTAAA
Found at i:7256309 original size:7 final size:7
Alignment explanation
Indices: 7256294--7256323 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7256284 TTCTTTTATT
*
7256294 ATATTAA
1 ATATAAA
7256301 ATATAAA
1 ATATAAA
7256308 ATATAAA
1 ATATAAA
7256315 ATATAAA
1 ATATAAA
7256322 AT
1 AT
7256324 TTTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATATAAA
Found at i:7262728 original size:21 final size:21
Alignment explanation
Indices: 7262670--7262715 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
7262660 ATTGAATCTA
* *
7262670 AAATCATGAACCTTAAATCCT
1 AAATCTTGAACCTTAAACCCT
7262691 AAATCTTGAACCTTAAACCCT
1 AAATCTTGAACCTTAAACCCT
7262712 AAAT
1 AAAT
7262716 TCTAACTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (21 bp):
AAATCTTGAACCTTAAACCCT
Found at i:7266684 original size:24 final size:24
Alignment explanation
Indices: 7266648--7266705 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
7266638 CACCTTTGAA
*
7266648 ACCCTTTCCACAGCTCATCTCTTC
1 ACCCTTTCGACAGCTCATCTCTTC
7266672 ACCCTTTCGACAGCTCATCTCTTC
1 ACCCTTTCGACAGCTCATCTCTTC
*
7266696 ACCCTATCGA
1 ACCCTTTCGA
7266706 TTGCAGCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.43, G:0.07, T:0.31
Consensus pattern (24 bp):
ACCCTTTCGACAGCTCATCTCTTC
Found at i:7270047 original size:20 final size:20
Alignment explanation
Indices: 7270022--7270061 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7270012 AATATTTTTC
*
7270022 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7270042 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7270062 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7270063 original size:34 final size:35
Alignment explanation
Indices: 7270010--7270076 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7270000 GAAACACCAG
* *
7270010 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7270045 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7270077 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7270068 original size:14 final size:14
Alignment explanation
Indices: 7270045--7270084 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7270035 ACAGAAAAGT
*
7270045 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7270059 AAATCATTTTACGG
1 AAAACATTTTACAG
7270073 AAAACATTTTAC
1 AAAACATTTTAC
7270085 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7273615 original size:16 final size:16
Alignment explanation
Indices: 7273580--7273614 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7273570 GCTTTGGGAT
7273580 AAAAGTGTAATTTTTG
1 AAAAGTGTAATTTTTG
*
7273596 AAAAGT-TATTTTTTG
1 AAAAGTGTAATTTTTG
7273611 AAAA
1 AAAA
7273615 ATGGGGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (16 bp):
AAAAGTGTAATTTTTG
Found at i:7277670 original size:24 final size:24
Alignment explanation
Indices: 7277634--7277679 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7277624 AGGAACCATG
*
7277634 TAACGGAAAGCTC-GAGAGAGCTTA
1 TAACAGAAAGCTCAGA-AGAGCTTA
*
7277658 TAACAGAATGCTCAGAAGAGCT
1 TAACAGAAAGCTCAGAAGAGCT
7277680 ATTGTGTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (24 bp):
TAACAGAAAGCTCAGAAGAGCTTA
Found at i:7296925 original size:18 final size:17
Alignment explanation
Indices: 7296882--7296925 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7296872 AATGACTGCA
7296882 TAAATTTTTTTAAAATT
1 TAAATTTTTTTAAAATT
* *
7296899 TGATTTTTTTTAATAATT
1 TAAATTTTTTTAA-AATT
7296917 TAAAATTTT
1 T-AAATTTT
7296926 GTTATTGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 11 0.52
18 5 0.24
19 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TAAATTTTTTTAAAATT
Found at i:7304967 original size:11 final size:11
Alignment explanation
Indices: 7304951--7304976 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7304941 AAACACACAC
7304951 AAAAAAAGAAA
1 AAAAAAAGAAA
7304962 AAAAAAAGAAA
1 AAAAAAAGAAA
7304973 AAAA
1 AAAA
7304977 GAGGAAGAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:7304987 original size:19 final size:20
Alignment explanation
Indices: 7304951--7304992 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
7304941 AAACACACAC
7304951 AAAAAAAGAAAAAAAAAA-G
1 AAAAAAAGAAAAAAAAAATG
** *
7304970 AAAAAAAGAGGAAGAAAATG
1 AAAAAAAGAAAAAAAAAATG
7304990 AAA
1 AAA
7304993 GAGGAAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAAATG
Found at i:7306262 original size:221 final size:220
Alignment explanation
Indices: 7306008--7306530 Score: 629
Period size: 221 Copynumber: 2.4 Consensus size: 220
7305998 GGAAAAGAGA
* *
7306008 AGAATAAATAAACATAGCTTGCCAACTGAATTTTACAATTTATTGATCAGGTTCATGGTTCAGAG
1 AGAATAAATGAACATAGCTTGCTAACTGAATTTTACAATTTATTGATCAGGTTCATGGTTCAGAG
* *
7306073 TACT-ACATCAATGCTTTATTG-GTTAG-TCCTTATTGAATTTAACAGCTGTTATGTGTTGATGC
66 T-CTGACATCAATGCTTTA-TGCGTT-GTTCCTTATTGAACTTAACAGCTGTTATGTGTTGATAC
* *
7306135 GAGAGAATGCATCCTTAAGATTACCTGACGGGGGAGA-GAA-TTAAGTTTAGGCAAAATGATACC
128 GAGAGAATGAATCCTTAAGATTACCTGA-GAGGGA-ATGAATTTAAGTTTAGGCAAAATGATACC
*
7306198 TGGATTGTATTACCAGGAAAAGAAAAAAAAT
191 CGGATTGTATTACCAGGAAAA-AAAAAAAAT
* * *
7306229 AGAATAAATGAACATAGCTTGCTAACCGAATTTTAACAGTTTATAGA-CAGGTTCATGGTTCAGA
1 AGAATAAATGAACATAGCTTGCTAACTGAATTTT-ACAATTTATTGATCAGGTTCATGGTTCAGA
* **
7306293 GTCTGACATCTATGCTTTATGCGTTGTTCCTTATTGAACTTGGCAGCTGTTATGTGTTGATACGA
65 GTCTGACATCAATGCTTTATGCGTTGTTCCTTATTGAACTTAACAGCTGTTATGTGTTGATACGA
* * *
7306358 GAGAGTGAATCCTTAATATTACCTGAGAGGGAATTAAGTTTTAAGTTTAGGCAAAATGATACCCG
130 GAGAATGAATCCTTAAGATTACCTGAGAGGGAATGAA--TTTAAGTTTAGGCAAAATGATACCCG
** * *
7306423 GATTGTATTTTCAGGAAAAAACAAGAAT
193 GATTGTATTACCAGGAAAAAAAAAAAAT
* * * *
7306451 A-AAT-AA-G--CATA-CTTACTGACTGAATTGTAACATTTTATTGATCAGGTTCATGGTTCAGA
1 AGAATAAATGAACATAGCTTGCTAACTGAATT-TTACAATTTATTGATCAGGTTCATGGTTCAGA
* **
7306510 GTCAGACATTGATGCTTTATG
65 GTCTGACATCAATGCTTTATG
7306531 TGTCGGTCCT
Statistics
Matches: 263, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
216 22 0.08
217 40 0.15
219 2 0.01
220 14 0.05
221 126 0.48
222 18 0.07
223 41 0.16
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (220 bp):
AGAATAAATGAACATAGCTTGCTAACTGAATTTTACAATTTATTGATCAGGTTCATGGTTCAGAG
TCTGACATCAATGCTTTATGCGTTGTTCCTTATTGAACTTAACAGCTGTTATGTGTTGATACGAG
AGAATGAATCCTTAAGATTACCTGAGAGGGAATGAATTTAAGTTTAGGCAAAATGATACCCGGAT
TGTATTACCAGGAAAAAAAAAAAAT
Found at i:7314618 original size:220 final size:217
Alignment explanation
Indices: 7314206--7314726 Score: 585
Period size: 220 Copynumber: 2.4 Consensus size: 217
7314196 ACCGACACAA
* * ** *
7314206 AAAGCATCGATGTCTA-ACTTTGAACCATGAACTTGATCAATAAAATGTTACAATTCAGTCAGTA
1 AAAGCATCGATGTC-AGACTTTGAACCATGAACTTG-TCAATAAAATGTTAAAATTTAGTTGGCA
* * * * *
7314270 AG-TAAGCTTATTTATTC-TTGTTTTTTTCGTGGAAATATAATCCGGGTATCATTCTGCCTAAAC
64 AGCTATG-TTATTTATTCTTTGTTTTTTTCCTAGAAATACAATCCAGGTATCATTCTGCCTAAAC
* * * *
7314333 TTAAAACTTAATTCCCTCCCAGGTAATCTTAAGGATTCATTATCTCGTATCAACACGTAACAGCT
128 TT-AAACTTAATTCCCCCCCAGGTAATCTTAAGGATGCATTATCTCGCATCAACACATAACAGCT
*
7314398 GCCAAGTTCAGTAATGAAC-AA-CGCAT
192 GCCAAATTCAGTAA-GAACTAACCG-AT
*
7314424 AAAGCATAGATGTCAGACTTTGAACCATGAACTTGTCAATAAAATGTTAAAATTTAGTTGGCAAG
1 AAAGCATCGATGTCAGACTTTGAACCATGAACTTGTCAATAAAATGTTAAAATTTAGTTGGCAAG
* * *
7314489 CTATGTTCATTTATTCTATTTTTTTCTTTTCCTAGTAATACAATCCAGGTATCATTTTGCCTAAA
66 CTATGTT-ATTTATTC--TTTGTTT-TTTTCCTAGAAATACAATCCAGGTATCATTCTGCCTAAA
* *
7314554 CTT-AA-TT-CTCTCCCCCGCCAGGTAATCTTAAGGATGCATTCTCTCGCATCAACACATAACAG
127 CTTAAACTTAAT-TCCCCC-CCAGGTAATCTTAAGGATGCATTATCTCGCATCAACACATAACAG
** *
7314616 CTGTTAAATTCAGTAAGGACTAACCGAT
190 CTGCCAAATTCAGTAAGAACTAACCGAT
** * *
7314644 AAAGCATCGATGT-AGTACTTTGAACCATGAACCTAATCAATAAATTG-TAAAATTTAGTTGACA
1 AAAGCATCGATGTCAG-ACTTTGAACCATGAA-CTTGTCAATAAAATGTTAAAATTTAGTTGGCA
7314707 AGCTATGTTTATTTATTCTT
64 AGCTATG-TTATTTATTCTT
7314727 CTCTTTTCCC
Statistics
Matches: 260, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
217 28 0.11
218 46 0.18
219 12 0.05
220 117 0.45
221 21 0.08
222 36 0.14
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (217 bp):
AAAGCATCGATGTCAGACTTTGAACCATGAACTTGTCAATAAAATGTTAAAATTTAGTTGGCAAG
CTATGTTATTTATTCTTTGTTTTTTTCCTAGAAATACAATCCAGGTATCATTCTGCCTAAACTTA
AACTTAATTCCCCCCCAGGTAATCTTAAGGATGCATTATCTCGCATCAACACATAACAGCTGCCA
AATTCAGTAAGAACTAACCGAT
Found at i:7315145 original size:210 final size:208
Alignment explanation
Indices: 7314375--7315146 Score: 594
Period size: 215 Copynumber: 3.6 Consensus size: 208
7314365 GGATTCATTA
* ** ** * * * * *
7314375 TCTCGTATCAACACGTAACAGCTGCCAAGTTCAGTAATGAACAACGCATAAAGCATAGATGTCAG
1 TCTCGTATCAACACATAACAGCTGTTAAAATCAGTAAGGACCAACACGTAAAGCATCGATGT-AG
* * * *
7314440 -ACTTTGAACCATGAACTTG-TCAATAAAATGTTAAAATTTAGTTGGCAAGCTATGTTCATTTAT
65 TACTCTGAACCATGAACCTGATCAATAAATTG-T-AAATTTAGTTGGCAAGCTATGTTTATTTAT
* * ** * *
7314503 TCTAT-TTTTTTCTTTTCCTAGTAATACAA-TCCAGGTATCATTTTGCCTAAA-CTTAATTCTCT
128 TCT-TCTCTTTTC----CCTGGTAATACAATTTGA-ATACCATTTTGCCTAAACCTT-A---T-T
* * * ** * *
7314565 CCCCCGCCAGGTAATCTTAAGGATGCATTC
182 --CCC-TCACGTAATCTCAACAATGAACTC
* * *
7314595 TCTCGCATCAACACATAACAGCTGTTAAATTCAGTAAGGACTAAC-CGATAAAGCATCGATGTAG
1 TCTCGTATCAACACATAACAGCTGTTAAAATCAGTAAGGACCAACACG-TAAAGCATCGATGTAG
* * *
7314659 TACTTTGAACCATGAACCTAATCAATAAATTGTAAAATTTAGTTGACAAGCTATGTTTATTTATT
65 TACTCTGAACCATGAACCTGATCAATAAATTGT-AAATTTAGTTGGCAAGCTATGTTTATTTATT
* * * * *
7314724 CTTCTCTTTTCCCTGTTAATATAATTTGAGTACCATTTTGCCTAAACCTTATTGCCTCAGGTAAT
129 CTTCTCTTTTCCCTGGTAATACAATTTGAATACCATTTTGCCTAAACCTTATTCCCTCACGTAAT
*
7314789 CTCAACAATGCACTC
194 CTCAACAATGAACTC
* * *
7314804 TCTCGTATCAACACATAACTGCTGTTAAAATCAGTAAGGACCAAGATCAATACATAAAGCACCGA
1 TCTCGTATCAACACATAACAGCTGTTAAAATCAGTAAGGACC-A-A-C---ACGTAAAGCATCGA
* * *
7314869 TGTCGTACTCTGAACCATGAACTTGATCAATAAATTGTTAAATTTAGTTGGCAAGCTACGTTTAT
60 TGTAGTACTCTGAACCATGAACCTGATCAATAAATTG-TAAATTTAGTTGGCAAGCTATGTTTAT
* * * *
7314934 TTATTCTTTTGTTTTCCCTGGTAATACAATTTGAATACCGTTTTTCC-AGAACC-TACTTCCCTC
124 TTATTCTTCTCTTTTCCCTGGTAATACAATTTGAATACCATTTTGCCTA-AACCTTA-TTCCCT-
* **
7314997 CCACGTAGTCTCGAGTAA-GAACTC
186 -CACGTAATCTC-AACAATGAACTC
* * * * * * * *
7315021 TCTGGTATCAACACATAGCAGTTGTCAAAATGAGT-AGGACCAACACGTAAAGCATCAATGTTGG
1 TCTCGTATCAACACATAACAGCTGTTAAAATCAGTAAGGACCAACACGTAAAGCATCGATGTAGT
* * * *
7315085 ACTCTAAACCAAGAACCTGATC-ATCAATTTGATAAATTTAGTTGGCAAGCTATATTTATTTA
66 ACTCTGAACCATGAACCTGATCAAT-AAATTG-TAAATTTAGTTGGCAAGCTATGTTTATTTA
7315147 CCCTTTTCTC
Statistics
Matches: 461, Mismatches: 71, Indels: 50
0.79 0.12 0.09
Matches are distributed among these distances:
209 59 0.13
210 70 0.15
211 1 0.00
212 2 0.00
213 2 0.00
214 4 0.01
215 117 0.25
216 35 0.08
217 48 0.10
218 3 0.01
219 4 0.01
220 106 0.23
221 10 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (208 bp):
TCTCGTATCAACACATAACAGCTGTTAAAATCAGTAAGGACCAACACGTAAAGCATCGATGTAGT
ACTCTGAACCATGAACCTGATCAATAAATTGTAAATTTAGTTGGCAAGCTATGTTTATTTATTCT
TCTCTTTTCCCTGGTAATACAATTTGAATACCATTTTGCCTAAACCTTATTCCCTCACGTAATCT
CAACAATGAACTC
Found at i:7316786 original size:40 final size:40
Alignment explanation
Indices: 7316687--7316805 Score: 159
Period size: 39 Copynumber: 3.0 Consensus size: 40
7316677 TACACAAATG
**
7316687 ACCCGTGCATCGTATAAAAATACAAACTAATAATTATATA
1 ACCCGTGCATCGTATAAAAATACAAACTAGCAATTATATA
* * * *
7316727 A-TCATGCATCGCATAAAAATACAAATTAGCAATTATATA
1 ACCCGTGCATCGTATAAAAATACAAACTAGCAATTATATA
* *
7316766 ACCCGTGCATCGTACAAAAATACAAACTAGCAACTATATA
1 ACCCGTGCATCGTATAAAAATACAAACTAGCAATTATATA
7316806 CCTTTTCACT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 33 0.50
40 33 0.50
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.25
Consensus pattern (40 bp):
ACCCGTGCATCGTATAAAAATACAAACTAGCAATTATATA
Found at i:7327338 original size:19 final size:19
Alignment explanation
Indices: 7327311--7327363 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
7327301 GTGCTTATGC
*
7327311 GCCAGGATGCAGTTCGTGT
1 GCCAGGATGCACTTCGTGT
* *
7327330 GCCAAGATGCACTTCTTGT
1 GCCAGGATGCACTTCGTGT
*
7327349 GTCAGGATGCACTTC
1 GCCAGGATGCACTTC
7327364 ATGCGCCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (19 bp):
GCCAGGATGCACTTCGTGT
Found at i:7330397 original size:46 final size:45
Alignment explanation
Indices: 7330228--7330549 Score: 307
Period size: 46 Copynumber: 7.5 Consensus size: 45
7330218 TACGTATGAT
** *
7330228 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTCTTACGTATGAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG--C-TA-GGCT-AC
7330276 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
7330319 CACTTATCAC-TT-TCACTTGATCAAATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
7330363 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
7330409 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
7330445 CACTTATCACCTTT-TCACTTGATCAGATAA--GTA--TA-GC-A-
1 CACTTATCA-CTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
7330483 -A-TTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
7330527 CACTTATCACTTTATCTCTTGAT
1 CACTTATCACTTTGTCACTTGAT
7330550 TAGAAGTACT
Statistics
Matches: 247, Mismatches: 9, Indels: 38
0.84 0.03 0.13
Matches are distributed among these distances:
35 4 0.02
36 53 0.21
37 5 0.02
38 3 0.01
40 2 0.01
41 2 0.01
42 5 0.02
43 34 0.14
44 22 0.09
45 5 0.02
46 78 0.32
48 34 0.14
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:7330450 original size:36 final size:35
Alignment explanation
Indices: 7330409--7330517 Score: 173
Period size: 36 Copynumber: 3.0 Consensus size: 35
7330399 CTAAAGCTAC
7330409 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTT-TCACTTGATCAGATAAGTATAG
7330445 CACTTATCACCTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCA-CTTTTCACTTGATCAGATAAGTATAG
* *
7330481 CAATTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTATAG
7330517 C
1 C
7330518 TAAAGCTACC
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.01
36 64 0.93
37 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (35 bp):
CACTTATCACTTTTCACTTGATCAGATAAGTATAG
Found at i:7336067 original size:31 final size:31
Alignment explanation
Indices: 7336032--7336094 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
7336022 TGCATGCAAC
*
7336032 TGAATCAAAGTTAAAA-TTTCATGTGTACAAT
1 TGAATCAAA-ATAAAAGTTTCATGTGTACAAT
* *
7336063 TGAATCAAAATAAAAGTTTTATGTGTATAAT
1 TGAATCAAAATAAAAGTTTCATGTGTACAAT
7336094 T
1 T
7336095 ACACTATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (31 bp):
TGAATCAAAATAAAAGTTTCATGTGTACAAT
Found at i:7342995 original size:86 final size:86
Alignment explanation
Indices: 7342850--7343022 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
7342840 ATCCAATAAC
7342850 ATGTTTTGATTTGATACTAATAAATATAGAATGTTGGAAAATTTTGATTGAAAATATTAACAACC
1 ATGTTTTGATTTGATACTAATAAATATAGAATGTTGGAAAATTTTGATTGAAAATATTAACAACC
7342915 CCAAGATTGCATAAAGTAGTA
66 CCAAGATTGCATAAAGTAGTA
7342936 ATGTTTTGATTTGATACTAATAAATATAGAATGTTGGAAAATTTTGATTGAAAATATTAACAACC
1 ATGTTTTGATTTGATACTAATAAATATAGAATGTTGGAAAATTTTGATTGAAAATATTAACAACC
7343001 CCAAGATTGCATAAAGTAGTA
66 CCAAGATTGCATAAAGTAGTA
7343022 A
1 A
7343023 AGGGAATAAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (86 bp):
ATGTTTTGATTTGATACTAATAAATATAGAATGTTGGAAAATTTTGATTGAAAATATTAACAACC
CCAAGATTGCATAAAGTAGTA
Found at i:7344891 original size:2 final size:2
Alignment explanation
Indices: 7344884--7344914 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7344874 TGTTACATAC
7344884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7344915 GAAAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7354299 original size:22 final size:22
Alignment explanation
Indices: 7354258--7354299 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7354248 ACACCAAAAC
*
7354258 AGGCATTTAGCGGCATTTTTTT
1 AGGCATTTAGCGGCACTTTTTT
*
7354280 AGGCATTTAGCGGCGCTTTT
1 AGGCATTTAGCGGCACTTTT
7354300 AAACGCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (22 bp):
AGGCATTTAGCGGCACTTTTTT
Found at i:7354447 original size:43 final size:43
Alignment explanation
Indices: 7354394--7354503 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 43
7354384 TTATGCGAAA
7354394 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCGTCTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCGTCTGTCAC
* * *
7354437 AAACGCCGCTAAAGACCATGAGCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCGTCTGTCAC
* * *
7354480 AAATGCCACTAAAGATCATGACCT
1 AAACGCCGCTAAAGACCATGACCT
7354504 AAAGAACAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCGTCTGTCAC
Found at i:7356677 original size:45 final size:46
Alignment explanation
Indices: 7356626--7356736 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
7356616 ATTACTTGTC
* *
7356626 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTCGCCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTCACCA
* *
7356671 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTCACCA
7356717 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
7356737 CACTTATCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 21 0.34
46 40 0.66
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTCACCA
Found at i:7356740 original size:37 final size:37
Alignment explanation
Indices: 7356698--7356871 Score: 285
Period size: 37 Copynumber: 4.7 Consensus size: 37
7356688 AGCTGAAGCT
* *
7356698 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
7356735 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
7356772 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
7356809 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
* *
7356846 GCCACTTATCACTTTGTCACTTGATC
1 ACCACTTATCACTTTGTCTCTTGATC
7356872 NNNNNNNNNN
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 129 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:7359939 original size:15 final size:15
Alignment explanation
Indices: 7359919--7359948 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7359909 AGCGGTGATT
*
7359919 CTATATACTAATTTA
1 CTATATAATAATTTA
7359934 CTATATAATAATTTA
1 CTATATAATAATTTA
7359949 AACCTATAAG
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:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
CTATATAATAATTTA
Found at i:7361859 original size:148 final size:149
Alignment explanation
Indices: 7361352--7361981 Score: 1066
Period size: 150 Copynumber: 4.2 Consensus size: 149
7361342 GCAAATTTTT
* * * *
7361352 TTTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAAAAGGGCGCTATTTTTTTAAAG
1 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
* *
7361417 TAAAATTAGTTTTGTGGCGATTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTC
66 TAAAATTA-TTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTC
7361482 ATAAAAACGCCGCAAAAAAA
130 ATAAAAACGCCGCAAAAAAA
*
7361502 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGACTATTTTTTAAAAG
1 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
*
7361567 TAAAATTATTTTGTGGCGTTTTTTACAAAAAATGCCGCTATTGCTTACCTTTAGCGGCGTTTTTC
66 TAAAATTATTTTGTGGCGTTTTTTAC-AAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTC
7361632 ATAAAAACGCCGCAAAAAAA
130 ATAAAAACGCCGCAAAAAAA
7361652 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
1 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
* * *
7361717 TAAAATTATTTTGTGACGTTTTTTACAAAAACGCCGCTATTACTTACCTTTAGCGGTGTTTTTCA
66 TAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCA
*
7361782 TAAAAACGCAGCAAAAAAA
131 TAAAAACGCCGCAAAAAAA
7361801 -TTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
1 TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
7361865 TAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT-A
66 TAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCA
*** *
7361929 CGCAAACGCTGCAAAAAAA
131 TAAAAACGCCGCAAAAAAA
* *
7361948 TTTCATTTTGAACAAAACTACGCTGTTTTGCTAT
1 TTTCATTTTGAATAAAACTACGCCGTTTTGCTAT
7361982 TCTAAAAATT
Statistics
Matches: 455, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
147 16 0.04
148 155 0.34
149 70 0.15
150 214 0.47
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (149 bp):
TTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAG
TAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCA
TAAAAACGCCGCAAAAAAA
Found at i:7362039 original size:298 final size:297
Alignment explanation
Indices: 7361263--7361980 Score: 1009
Period size: 298 Copynumber: 2.4 Consensus size: 297
7361253 AAAATGGCGG
* * *
7361263 TATTTGTTT-AAAGTGAAATTATTTTTGTGGCGTTTTCT-CTAAAAACGCCGCTATTGCTTACCT
1 TATTT-TTTAAAAGTAAAATTA-TTTTGTGGCGTTTTTTACAAAAAACGCCGCTATTGCTTACCT
**** *
7361326 TTA---GCG----T---AAAAACGCCGCAAATTTTTTTTCATTTTGAACAAAACTACACCGTTTT
64 TTAGCGGCGTTTTTCACAAAAACGCCGCAAA-AAAATTTCATTTTGAACAAAACTACGCCGTTTT
* * * *
7361381 GCTATGCTATGCT-AAAAGGGCGCTATTTTTTTAAAGTAAAATTAGTTTTGTGGCGATTTTTATA
128 GCTA--CTATGCTAAAAAGGG-GCTATTTTTTAAAAGTAAAATTA-TTTTGCGACGTTTTTTATA
* *
7361445 AAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTT
189 AAAACGCCGCTATTACTTACCTTTAGCGGCGTTTTTCATAAAAACGCAGCAAAAAAATTTCATTT
7361510 TGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGAC
254 TGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGAC
*
7361554 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAAATGCCGCTATTGCTTACCTTT
1 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAAACGCCGCTATTGCTTACCTTT
* *
7361619 AGCGGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCT
66 AGCGGCGTTTTTCACAAAAACGCCGCAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCT
* * *
7361684 ATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGACGTTTTTTACAAAAAC
131 A--CTATGCTAAAAAGGGGCTATTTTTTAAAAGTAAAATTATTTTGCGACGTTTTTTATAAAAAC
*
7361749 GCCGCTATTACTTACCTTTAGCGGTGTTTTTCATAAAAACGCAGCAAAAAAA-TTCATTTTGAAT
194 GCCGCTATTACTTACCTTTAGCGGCGTTTTTCATAAAAACGCAGCAAAAAAATTTCATTTTGAAT
*
7361813 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGC
259 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGAC
7361852 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTAC-AAAAACGCCGCTATTGCTTACCTTT
1 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAAACGCCGCTATTGCTTACCTTT
** * *
7361916 AGCGGCGTTTTT-ACGCAAACGCTGCAAAAAAATTTCATTTTGAACAAAACTACGCTGTTTTGCT
66 AGCGGCGTTTTTCACAAAAACGCCGCAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCT
7361980 A
131 A
7361981 TTCTAAAAAT
Statistics
Matches: 388, Mismatches: 26, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
290 18 0.05
291 42 0.11
294 3 0.01
296 47 0.12
297 36 0.09
298 90 0.23
299 70 0.18
300 62 0.16
301 20 0.05
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (297 bp):
TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAAACGCCGCTATTGCTTACCTTT
AGCGGCGTTTTTCACAAAAACGCCGCAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCT
ACTATGCTAAAAAGGGGCTATTTTTTAAAAGTAAAATTATTTTGCGACGTTTTTTATAAAAACGC
CGCTATTACTTACCTTTAGCGGCGTTTTTCATAAAAACGCAGCAAAAAAATTTCATTTTGAATAA
AACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGAC
Found at i:7362111 original size:94 final size:94
Alignment explanation
Indices: 7362002--7362293 Score: 318
Period size: 94 Copynumber: 2.9 Consensus size: 94
7361992 TTTTATTTTG
* * * *
7362002 TTTTTTATAATTTGATTTA-TTTTTGCGGCATTTTTTTATAAAACCGCCGCGATTTCATTTTGAA
1 TTTTTTATAAATTGATTTATTTTTTGCGGC-TTTTTTAATAAAAACGCCGCTATTTCATTTTGAA
7362066 CAAAATGACGCCGTTTTGCTATGCAAA-TT
65 CAAAATGACGCCGTTTTGCTATGCAAATTT
* *
7362095 TTTTTTACTAAATTGATTTATTTTTTGCGGCGTTTTTGATAAAAACGCCGCTATTTCATTTTGAA
1 TTTTTTA-TAAATTGATTTATTTTTTGCGGCTTTTTTAATAAAAACGCCGCTATTTCATTTTGAA
* * *
7362160 CAAAATGACACAGTTTTTCTATGCCAAATTT
65 CAAAATGACGCCGTTTTGCTATG-CAAATTT
*
7362191 TTTTTTATTTTTTTAAAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAATGCCGCTAAATAT
1 TTTTTTA------T-AAATTGATTTATTTTTTGCGGC-TTTTTTAATAAAAACGCCGC-------
7362256 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGC
51 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGC
7362294 TAAAAATTTT
Statistics
Matches: 166, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
93 7 0.04
94 61 0.37
95 14 0.08
96 9 0.05
101 1 0.01
102 22 0.13
103 17 0.10
109 1 0.01
110 34 0.20
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (94 bp):
TTTTTTATAAATTGATTTATTTTTTGCGGCTTTTTTAATAAAAACGCCGCTATTTCATTTTGAAC
AAAATGACGCCGTTTTGCTATGCAAATTT
Found at i:7362222 original size:102 final size:106
Alignment explanation
Indices: 7362093--7362329 Score: 295
Period size: 110 Copynumber: 2.2 Consensus size: 106
7362083 GCTATGCAAA
*
7362093 TTTTTTTTACTAAATTGATTTATTTTTTGCGGCG-TTTTTGATAAAAACGCCGC-TATTTCATTT
1 TTTTTTTTA-TAAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAACGCCGCATATTTCATTT
* *
7362156 TGAACAAAATGACACAGTTTTTCTATGC-CAAATTTTTT-TT
65 TGAACAAAATGACACAGTTTTGCTATGCAAAAATTTTTTATT
*
7362196 TATTTTTTTA-AAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAATGCCGCTAAATATTATT
1 T-TTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAACGCCGC-----A-TATT
* *
7362260 TCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATT
59 TCATTTTGAACAAAATGACACAGTTTTGCTATGC-AAAAATTTTTTATT
7362309 TTGTTTTTTATAAATTGATTT
1 TT-TTTTTTATAAATTGATTT
7362330 TTTATAAAAT
Statistics
Matches: 114, Mismatches: 6, Indels: 17
0.83 0.04 0.12
Matches are distributed among these distances:
102 23 0.20
103 18 0.16
104 8 0.07
110 35 0.31
112 10 0.09
113 10 0.09
114 10 0.09
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (106 bp):
TTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAACGCCGCATATTTCATTTT
GAACAAAATGACACAGTTTTGCTATGCAAAAATTTTTTATT
Found at i:7362965 original size:14 final size:14
Alignment explanation
Indices: 7362947--7362988 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7362937 AACACTTAAA
7362947 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
7362961 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
7362976 CCATACTCCCTAA
1 CCATAATCCCTAA
7362989 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:7362985 original size:15 final size:15
Alignment explanation
Indices: 7362943--7362989 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
7362933 TCCAAACACT
7362943 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
7362957 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
7362971 TAAATCCATACTCCC
1 TAAATCCATAATCCC
7362986 TAAA
1 TAAA
7362990 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:7363240 original size:14 final size:14
Alignment explanation
Indices: 7363223--7363271 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
7363213 TAAATCCCAA
7363223 CCCTAATCCATAAT
1 CCCTAATCCATAAT
7363237 CCCTAATCCATAAT
1 CCCTAATCCATAAT
* *
7363251 CCCTAAACCCATACT
1 CCCT-AATCCATAAT
7363266 CCCTAA
1 CCCTAA
7363272 ACCGGCCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:7363268 original size:15 final size:15
Alignment explanation
Indices: 7363230--7363274 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
7363220 CAACCCTAAT
*
7363230 CCATAATCCCT-AAT
1 CCATAATCCCTAAAC
7363244 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
7363259 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
7363274 C
1 C
7363275 GGCCTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:7363350 original size:261 final size:268
Alignment explanation
Indices: 7362777--7363352 Score: 688
Period size: 288 Copynumber: 2.1 Consensus size: 268
7362767 AATATATTTG
7362777 ATTTATTATTATCTCTTTTACAATTATATAAGAATATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAATATATTTAAAATATAAATTAAAAAATAATTA
* * * *
7362842 ATCTAAACTCAAAACCTTAACTCAACCCCTGAATCCCTAAACCTTAAATCTCTAACTCTTAACCC
66 ATCTAAACCCAAAACCCTAACTCAACCCCTAAATCCCTAAACCTTAAACCTCTAACTCTTAACCC
* *
7362907 CTAACATCTAACCCCTAAACCTTAAATCCAAACACTTAAACCATAATCCCTAATTCATAATCCCT
131 CT-A-A--TAACCCCTAAACCTTAAATCCAAACACCTAAACCATAATCCCTAATCCATAATCCCT
* * *
7362972 AAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGACCTTCAATACTAAATTAATCA
192 AAACCCATACTCCCTAAACC-------A-G-A-GCCTAAA-C-A-C-TC-ATA-TAAATAAATCA
* *
7363037 TATACCTTAAACTAAAAACCCTAAACAA
241 TATACCCTAAACCAAAAACCCTAAACAA
7363065 ATTTATTATTATCTCTTTTACAATTATATAAGAATATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAATATATTTAAAATATAAATT-AAAAAATAATT
* * *
7363130 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCT-AACTTTTAACCTCTAGCACGTC-TA
65 AATCTAAACCCAAAACCCTAACTCAACCCCTAAATCCCTAAACCTTAAACCTCTA--AC-TCTTA
* * *
7363193 ACCCCT-A-AACCCCTAACCCTTAAATCCCAAC-CCTAATCCATAATCCCTAATCCATAATCCCT
127 ACCCCTAATAACCCCTAAACCTTAAATCCAAACACCTAAACCATAATCCCTAATCCATAATCCCT
* *
7363255 AAACCCATACTCCCTAAACC-G-GCCTTAA-A-TC-T-TAGATAAATCATATACCCTAAACCAAA
192 AAACCCATACTCCCTAAACCAGAGCCTAAACACTCATATAAATAAATCATATACCCTAAACCAAA
7363314 AACCCTAAACAA
257 AACCCTAAACAA
7363326 ATTTATTATTATCTCTTTTACAATTAT
1 ATTTATTATTATCTCTTTTACAATTAT
7363353 TTTAAATAAT
Statistics
Matches: 265, Mismatches: 19, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
261 62 0.23
263 1 0.00
265 2 0.01
268 1 0.00
271 5 0.02
274 1 0.00
283 47 0.18
284 22 0.08
287 1 0.00
288 65 0.25
289 46 0.17
290 10 0.04
291 2 0.01
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (268 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAATATATTTAAAATATAAATTAAAAAATAATTA
ATCTAAACCCAAAACCCTAACTCAACCCCTAAATCCCTAAACCTTAAACCTCTAACTCTTAACCC
CTAATAACCCCTAAACCTTAAATCCAAACACCTAAACCATAATCCCTAATCCATAATCCCTAAAC
CCATACTCCCTAAACCAGAGCCTAAACACTCATATAAATAAATCATATACCCTAAACCAAAAACC
CTAAACAA
Found at i:7363546 original size:73 final size:72
Alignment explanation
Indices: 7363427--7363569 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 72
7363417 TTTTTTGGCC
* * * * *
7363427 GCTAAATCCCCGGAAGCTCACAAAACGGCGTCATTTGGCTTATGTTTTTTTACGGCGCTTTCTTA
1 GCTAAATCCCCGAAAGCCCACAAAACGGCGTCATTGGGCTTATG-TTTTTTACAGCGCTTTCTCA
7363492 AAAACGCT
65 AAAACGCT
* *
7363500 GCTAAATCCCCGAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTGCAGCGCTTTCTCAA
1 GCTAAATCCCCGAAAGCCCACAAAACGGCGTCATTGGGCTTATGTTTTTTACAGCGCTTTCTCAA
7363565 AAACG
66 AAACG
7363570 TAGTTAAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 23 0.37
73 40 0.63
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (72 bp):
GCTAAATCCCCGAAAGCCCACAAAACGGCGTCATTGGGCTTATGTTTTTTACAGCGCTTTCTCAA
AAACGCT
Found at i:7363839 original size:114 final size:114
Alignment explanation
Indices: 7363479--7364122 Score: 971
Period size: 114 Copynumber: 5.7 Consensus size: 114
7363469 TGTTTTTTTA
* *
7363479 CGGCGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* ** * * *
7363544 -TTTTTTGCAGCGCTTTCTCAAAAACGTAGTTAAAGCCCTAAGCATTAG
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
*
7363592 CGGCGCTTTCTTAAAAACGTCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
*
7363657 TTTTTTTGCGGCG-TTT-T----TACGCCGCTAAAGCCCTGACCATTAG
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
*
7363700 CGGCGCTTTCTTAAAAACGCCGCTAAATCACCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* * *
7363765 TTTTTTTGTGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGACCATTAG
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* * *
7363814 CGGCGCTTTCTTAAAAACGCTGCTAAATCCCCAACAGCCCAAAAAACGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
7363879 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* * * *
7363928 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTAGGCCTGTG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
*
7363993 TTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* ** * *
7364042 CGGCGCTTTATTAAAAACGCCGCTAAATCCCCAAAAGCTAAGAAAACGACGTCGTTGGGCTTA-G
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* *
7364106 GTTGTTTGCGGCGCTTT
66 TTTTTTTGCGGCGCTTT
7364123 TGGAAACGTC
Statistics
Matches: 482, Mismatches: 42, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
108 95 0.20
109 3 0.01
110 1 0.00
112 1 0.00
113 80 0.17
114 302 0.63
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (114 bp):
CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAG
Found at i:7364833 original size:15 final size:15
Alignment explanation
Indices: 7364800--7364832 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7364790 TTTTTAGTAG
*
7364800 TTTTAAAAAATTTTA
1 TTTTAAAAAATTATA
7364815 TTTTAAAAAA-TATA
1 TTTTAAAAAATTATA
7364829 TTTT
1 TTTT
7364833 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAAAAAATTATA
Found at i:7371468 original size:30 final size:30
Alignment explanation
Indices: 7371429--7371488 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7371419 TATTTTATAT
*
7371429 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAAATTTGTTATTATTTTAAAGGCATTTG
*
7371459 TTAAATTTGTTATTATTTTAGAGGCATTTG
1 TTAAATTTGTTATTATTTTAAAGGCATTTG
7371489 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (30 bp):
TTAAATTTGTTATTATTTTAAAGGCATTTG
Found at i:7381350 original size:14 final size:14
Alignment explanation
Indices: 7381333--7381378 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
7381323 TAAAAAAATG
7381333 TTATTAAATTATTA
1 TTATTAAATTATTA
*
7381347 TTATTAAATTAGTA
1 TTATTAAATTATTA
7381361 TTATTAAATTATTA
1 TTATTAAATTATTA
7381375 TTAT
1 TTAT
7381379 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:7381863 original size:3 final size:3
Alignment explanation
Indices: 7381843--7381905 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
7381833 GTGAGGTAAG
* *
7381843 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7381891 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
7381906 GAGTGGGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7382076 original size:24 final size:27
Alignment explanation
Indices: 7382049--7382117 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 27
7382039 GTGAATTTGT
*
7382049 GAAATAATTATTG-ATTGAAAG-GTG-
1 GAAATAATGATTGAATTGAAAGTGTGA
7382073 GAAA-AATGATTGAATTGAAAGTGTGA
1 GAAATAATGATTGAATTGAAAGTGTGA
**
7382099 GAAATTGTGATTGAATTGA
1 GAAATAATGATTGAATTGA
7382118 GAATATATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
25 3 0.08
26 4 0.11
27 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (27 bp):
GAAATAATGATTGAATTGAAAGTGTGA
Found at i:7388389 original size:14 final size:14
Alignment explanation
Indices: 7388372--7388417 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
7388362 TAAAAAAATG
7388372 TTATTAAATTATTA
1 TTATTAAATTATTA
*
7388386 TTATTAAATTAGTA
1 TTATTAAATTATTA
7388400 TTATTAAATTATTA
1 TTATTAAATTATTA
7388414 TTAT
1 TTAT
7388418 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:7388549 original size:3 final size:3
Alignment explanation
Indices: 7388543--7388568 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7388533 TATTAAAATA
7388543 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7388569 ACTAATGAAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7388944 original size:3 final size:3
Alignment explanation
Indices: 7388918--7388968 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
7388908 GTGAGGTAAG
* * * *
7388918 TAT TAA TAT TAG TAT TAA TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7388966 TAT
1 TAT
7388969 GAGTGGGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7388945 original size:18 final size:18
Alignment explanation
Indices: 7388918--7388964 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
7388908 GTGAGGTAAG
*
7388918 TATTAATATTAGTATTAA
1 TATTATTATTAGTATTAA
*
7388936 TATTATTATTAGTATTAT
1 TATTATTATTAGTATTAA
7388954 TATTATTATTA
1 TATTATTATTA
7388965 TTATGAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TATTATTATTAGTATTAA
Found at i:7388965 original size:12 final size:12
Alignment explanation
Indices: 7388918--7388968 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
7388908 GTGAGGTAAG
*
7388918 TATTAATATTAG
1 TATTAATATTAT
7388930 TATTAATATTAT
1 TATTAATATTAT
*
7388942 TATTAGTATTAT
1 TATTAATATTAT
*
7388954 TATTATTATTAT
1 TATTAATATTAT
7388966 TAT
1 TAT
7388969 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTAATATTAT
Found at i:7389139 original size:24 final size:27
Alignment explanation
Indices: 7389112--7389180 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 27
7389102 GTGAATTTGT
*
7389112 GAAATAATTATTG-ATTGAAAG-GTG-
1 GAAATAATGATTGAATTGAAAGTGTGA
7389136 GAAA-AATGATTGAATTGAAAGTGTGA
1 GAAATAATGATTGAATTGAAAGTGTGA
**
7389162 GAAATTGTGATTGAATTGA
1 GAAATAATGATTGAATTGA
7389181 GAATATATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
25 3 0.08
26 4 0.11
27 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (27 bp):
GAAATAATGATTGAATTGAAAGTGTGA
Found at i:7389383 original size:37 final size:39
Alignment explanation
Indices: 7389324--7389419 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
7389314 CGGATAGATT
* * * *
7389324 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
7389361 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
7389400 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
7389420 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:7396794 original size:36 final size:35
Alignment explanation
Indices: 7396714--7396917 Score: 111
Period size: 36 Copynumber: 5.8 Consensus size: 35
7396704 CCCAACGCTT
* * *
7396714 GGGAAGGCTTAC-AGGGTCCTACTTTCATACAATTA-
1 GGGAAGGCTTACGAAGGTCCTACTTCCACAC-A-TAG
7396749 -GGAAGGCTTACAGAAGGTCCTA-TTCCTA-ACATATGG
1 GGGAAGGCTTAC-GAAGGTCCTACTTCC-ACACATA--G
*
7396785 GGGAA-GCTTACGAAGGCCCTACTTCCACACATAG
1 GGGAAGGCTTACGAAGGTCCTACTTCCACACATAG
* * **
7396819 GGGAATGCTTACGGAAGGTCCTACGTTCAATGCAT-G
1 GGGAAGGCTTAC-GAAGGTCCTAC-TTCCACACATAG
* * * * *
7396855 AGG-AGGCCTAC-AAGGGGCTTACTTCCAGACATAG
1 GGGAAGGCTTACGAA-GGTCCTACTTCCACACATAG
* * *
7396889 AGGAAGACTTATGTAAGGTCCTACTTCCA
1 GGGAAGGCTTACG-AAGGTCCTACTTCCA
7396918 AAGCATGACG
Statistics
Matches: 132, Mismatches: 20, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
33 11 0.08
34 28 0.21
35 32 0.24
36 48 0.36
37 13 0.10
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (35 bp):
GGGAAGGCTTACGAAGGTCCTACTTCCACACATAG
Found at i:7400799 original size:13 final size:13
Alignment explanation
Indices: 7400781--7400813 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
7400771 TAATTGGACA
7400781 CTTCCCATGTGGG
1 CTTCCCATGTGGG
7400794 CTTCCCATGTGGG
1 CTTCCCATGTGGG
7400807 CTTCCCA
1 CTTCCCA
7400814 CTTCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.24, T:0.30
Consensus pattern (13 bp):
CTTCCCATGTGGG
Found at i:7406283 original size:5 final size:5
Alignment explanation
Indices: 7406273--7406298 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7406263 ATAACAATAG
7406273 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
7406299 AAACTATGAC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:7408767 original size:7 final size:7
Alignment explanation
Indices: 7408757--7408783 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7408747 ATAATTTAAA
7408757 TTTAATT
1 TTTAATT
7408764 TTTAATT
1 TTTAATT
7408771 TTTAATT
1 TTTAATT
7408778 TTTAAT
1 TTTAAT
7408784 ACTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTAATT
Found at i:7409435 original size:20 final size:20
Alignment explanation
Indices: 7409412--7409451 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7409402 AAAAAATCAT
*
7409412 TTAATATGGTATAAAAATGA
1 TTAATATGATATAAAAATGA
* *
7409432 TTAATTTGATTTAAAAATGA
1 TTAATATGATATAAAAATGA
7409452 AGATGTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
TTAATATGATATAAAAATGA
Done.