Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 69 of 100
Found at i:12329955 original size:19 final size:19
Alignment explanation
Indices: 12329913--12329954 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
12329903 TAAGGCTCCA
12329913 TTTTTCTTCATTTTTCTCT
1 TTTTTCTTCATTTTTCTCT
*
12329932 TTTTTTTTC-TTTTTGCT-T
1 TTTTTCTTCATTTTT-CTCT
12329950 TTTTT
1 TTTTT
12329955 TGTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTCTTCATTTTTCTCT
Found at i:12330009 original size:1 final size:1
Alignment explanation
Indices: 12329931--12329996 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
12329921 CATTTTTCTC
* ** * * ** * *
12329931 TTTTTTTTTCTTTTTGCTTTTTTTTGTTTTATTTTTTTTTGCTTTATTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12329996 T
1 T
12329997 ACACACATTT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.03, C:0.06, G:0.05, T:0.86
Consensus pattern (1 bp):
T
Found at i:12330366 original size:53 final size:53
Alignment explanation
Indices: 12330293--12330402 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 53
12330283 TTTTTCTTCT
* **
12330293 TTTTTTCTTTTTTGCTTTTTTTTAGGTGGAGCACATTGGCATTTTGCCTTATCAA
1 TTTTTTC--TTTTACTTTTTTTTAGGTGGAGCACATTGGCATTTTGCCCAATCAA
* *
12330348 TTTTTTCTTTTA-TTTTTTTTATGTGGAGCACATTGGTATTTTGCCCAATCAA
1 TTTTTTCTTTTACTTTTTTTTAGGTGGAGCACATTGGCATTTTGCCCAATCAA
12330400 TTT
1 TTT
12330403 CTCTTCATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 39 0.78
53 4 0.08
55 7 0.14
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (53 bp):
TTTTTTCTTTTACTTTTTTTTAGGTGGAGCACATTGGCATTTTGCCCAATCAA
Found at i:12333021 original size:78 final size:78
Alignment explanation
Indices: 12332892--12333049 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
12332882 AAGTAAAATA
12332892 ACAACATGACTCTAAATTTGGGTTAACTATAGAGGGCGAAAGGACACAGCTCTATTTATAGTTAG
1 ACAACATGACTCTAAATTTGGGTTAACTATAGAGGGCGAAAGGACACAGCTCTATTTATAGTTAG
12332957 GCTTTTAAAGTTC
66 GCTTTTAAAGTTC
* *
12332970 ACAACATGACTCTAAATTTGGGTTAACTATAGAGGGTGGAAGGACACAGCTCTATTTATAGTTAG
1 ACAACATGACTCTAAATTTGGGTTAACTATAGAGGGCGAAAGGACACAGCTCTATTTATAGTTAG
12333035 GCTTTTAAAGTTC
66 GCTTTTAAAGTTC
12333048 AC
1 AC
12333050 TATATGCGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (78 bp):
ACAACATGACTCTAAATTTGGGTTAACTATAGAGGGCGAAAGGACACAGCTCTATTTATAGTTAG
GCTTTTAAAGTTC
Found at i:12334003 original size:16 final size:16
Alignment explanation
Indices: 12333982--12334031 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
12333972 ATTCCATAAA
12333982 TTTATTTTGAAAGATT
1 TTTATTTTGAAAGATT
12333998 TTTA-TTTGAAAAAGATT
1 TTTATTTTG--AAAGATT
* *
12334015 TTT-TTTTAAAATATT
1 TTTATTTTGAAAGATT
12334030 TT
1 TT
12334032 GAAAACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 12 0.41
16 4 0.14
17 13 0.45
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (16 bp):
TTTATTTTGAAAGATT
Found at i:12335109 original size:3 final size:3
Alignment explanation
Indices: 12335096--12335161 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
12335086 AATAAAAAAA
* * * * * * *
12335096 GAT GAT AAT GAT GAT GAT GAT AAT AAT AAT AAT AAT AAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
12335144 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
12335162 AATTCTGATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:12335197 original size:3 final size:3
Alignment explanation
Indices: 12335191--12335243 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
12335181 CTAATACCAT
* *
12335191 ATA ATA ATA ATA ATA ATA ATA ATA ACA AT- ATA ACA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
12335237 AAA ATA A
1 ATA ATA A
12335244 CCCTAAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:12336108 original size:114 final size:114
Alignment explanation
Indices: 12335926--12336265 Score: 273
Period size: 114 Copynumber: 3.0 Consensus size: 114
12335916 CATGAGTTTG
* * * * * * *
12335926 AAAGTGATCAAGATCAAGTTGAGATTATAGATTAATGACCGAAATGATGCCA-CAGGTCTT-AAA
1 AAAGTGATCAAGATCAAGTCGAGGTCATAGATTAATGAACGAGATGATG-TAGAAGGT-TTGAAA
*
12335989 GTGATCTGACCTGAATCGAGATTAGATGACTGGGATGATGTCACGAGTCTA
64 ATGATCTGACCTGAATCGAGATTAGATGACTGGGATGATGTCACGAGTCTA
* * * *
12336040 AAAGTGATTAAGATCAAGTCGAGGTCATAGATTAATGATCGAGATGATGTTGAAAGTTTGAAAAT
1 AAAGTGATCAAGATCAAGTCGAGGTCATAGATTAATGAACGAGATGATGTAGAAGGTTTGAAAAT
* * * * * * * * *
12336105 GATCTAACTTG-AGCTAAGA-TCGAATGACTGAGACGATGTCATGATTCTA
66 GATCTGACCTGAATC-GAGATTAG-ATGACTGGGATGATGTCACGAGTCTA
* * * * * * *
12336154 AAAATGATCAAGACCTAGTCGATGTCATAGATTAAT-AACTAAGATGATGTAGCAGGTCTG-AAA
1 AAAGTGATCAAGATCAAGTCGAGGTCATAGATTAATGAAC-GAGATGATGTAGAAGGTTTGAAAA
* * **
12336217 TGATCTGACCT-AAGTCG-GGTTCAGATGATTGGGATGATGTTGCGAGTCT
65 TGATCTGACCTGAA-TCGAGATT-AGATGACTGGGATGATGTCACGAGTCT
12336266 TAAGATGATC
Statistics
Matches: 173, Mismatches: 44, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
112 1 0.01
113 40 0.23
114 132 0.76
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (114 bp):
AAAGTGATCAAGATCAAGTCGAGGTCATAGATTAATGAACGAGATGATGTAGAAGGTTTGAAAAT
GATCTGACCTGAATCGAGATTAGATGACTGGGATGATGTCACGAGTCTA
Found at i:12347645 original size:21 final size:21
Alignment explanation
Indices: 12347612--12347660 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12347602 TTACTAAATG
12347612 AAAT-AAA-TAAAAAATAGT-A
1 AAATAAAATTAAAAAA-AGTGA
*
12347631 AAATAAAATTAAAAAAATTGA
1 AAATAAAATTAAAAAAAGTGA
12347652 AAATAAAAT
1 AAATAAAAT
12347661 AAACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATAAAATTAAAAAAAGTGA
Found at i:12347648 original size:22 final size:21
Alignment explanation
Indices: 12347620--12347682 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 21
12347610 TGAAATAAAT
12347620 AAAAAATAGTAAAATAAAATTA
1 AAAAAATAG-AAAATAAAATTA
*
12347642 AAAAAATTGAAAATAAAA-TA
1 AAAAAATAGAAAATAAAATTA
12347662 AACTTAAAATATGAAAATAAA
1 AA---AAAATA-GAAAATAAA
12347683 TGAAAATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.11
21 9 0.26
22 8 0.23
23 5 0.14
24 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAAATAGAAAATAAAATTA
Found at i:12347668 original size:26 final size:24
Alignment explanation
Indices: 12347629--12347713 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 24
12347619 TAAAAAATAG
12347629 TAAAATAAAATTAAAAAAATTGAAAA
1 TAAAATAAAATT-AAAAAA-TGAAAA
* *
12347655 TAAAATAAACTTAAAATATGAAAA
1 TAAAATAAAATTAAAAAATGAAAA
*
12347679 T-AAATGAAAATCAAAAAAT-AAAA
1 TAAAAT-AAAATTAAAAAATGAAAA
12347702 TGAAAATGAAAA
1 T-AAAAT-AAAA
12347714 AGGAAATGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 9 0.18
24 17 0.33
25 14 0.27
26 11 0.22
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (24 bp):
TAAAATAAAATTAAAAAATGAAAA
Found at i:12347670 original size:24 final size:25
Alignment explanation
Indices: 12347629--12347713 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
12347619 TAAAAAATAG
*
12347629 TAAAATAAAATTAAAAAAATTGAAAA
1 TAAAATAAAATTAAAAATA-TGAAAA
*
12347655 TAAAATAAACTT-AAAATATGAAAA
1 TAAAATAAAATTAAAAATATGAAAA
*
12347679 T-AAATGAAAATCAAAAA-AT-AAAA
1 TAAAAT-AAAATTAAAAATATGAAAA
12347702 TGAAAATGAAAA
1 T-AAAAT-AAAA
12347714 AGGAAATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
23 9 0.18
24 13 0.25
25 18 0.35
26 11 0.22
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (25 bp):
TAAAATAAAATTAAAAATATGAAAA
Found at i:12347696 original size:18 final size:19
Alignment explanation
Indices: 12347675--12347714 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
12347665 TTAAAATATG
12347675 AAAAT-AAATGAAAATCAA
1 AAAATAAAATGAAAATCAA
*
12347693 AAAATAAAATGAAAATGAA
1 AAAATAAAATGAAAATCAA
12347712 AAA
1 AAA
12347715 GGAAATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAATAAAATGAAAATCAA
Found at i:12348624 original size:3 final size:3
Alignment explanation
Indices: 12348581--12348605 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12348571 AAATAAAAGA
12348581 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12348606 TATACTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12349570 original size:20 final size:21
Alignment explanation
Indices: 12349545--12349586 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12349535 ACTGATTTCG
*
12349545 TAAATCTAAATT-TTTTTAAA
1 TAAATCTAAATTAATTTTAAA
*
12349565 TAAATCTTAATTAATTTTAAA
1 TAAATCTAAATTAATTTTAAA
12349586 T
1 T
12349587 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATCTAAATTAATTTTAAA
Found at i:12350129 original size:16 final size:16
Alignment explanation
Indices: 12350099--12350133 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12350089 TAAATATATT
12350099 AAAATTAAAAGTTAAA
1 AAAATTAAAAGTTAAA
12350115 AAAATGTAAAA-TTAAA
1 AAAAT-TAAAAGTTAAA
12350131 AAA
1 AAA
12350134 GTTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATTAAAAGTTAAA
Found at i:12350170 original size:2 final size:2
Alignment explanation
Indices: 12350163--12350201 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
12350153 ATTCCTCCTC
*
12350163 AT AT AT AT AT AT AT AT AT A- AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12350202 TCAGCCATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12350188 original size:21 final size:21
Alignment explanation
Indices: 12350162--12350201 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12350152 GATTCCTCCT
12350162 CATATATATATATATATATAA
1 CATATATATATATATATATAA
12350183 CATATATATATATATATAT
1 CATATATATATATATATAT
12350202 TCAGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
CATATATATATATATATATAA
Found at i:12360009 original size:2 final size:2
Alignment explanation
Indices: 12360002--12360043 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
12359992 TTTCTTTCTT
* *
12360002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12360044 ATAACGTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12364171 original size:9 final size:9
Alignment explanation
Indices: 12364159--12364189 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12364149 TTGATTTTTA
12364159 TATTTTTGT
1 TATTTTTGT
12364168 TATTTTTGT
1 TATTTTTGT
12364177 TA-TTTTGT
1 TATTTTTGT
12364185 TATTT
1 TATTT
12364190 ATATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (9 bp):
TATTTTTGT
Found at i:12364174 original size:17 final size:17
Alignment explanation
Indices: 12364152--12364194 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
12364142 TTTTGATTTG
12364152 ATTTTTA-TATTTTTGTT
1 ATTTTTATTA-TTTTGTT
*
12364169 ATTTTTGTTATTTTGTT
1 ATTTTTATTATTTTGTT
*
12364186 ATTTATATT
1 ATTTTTATT
12364195 TTAATATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTTTATTATTTTGTT
Found at i:12368137 original size:47 final size:46
Alignment explanation
Indices: 12368086--12368177 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 46
12368076 ATTTTATGTT
* *
12368086 ATTTCTAAATTTTTTACCATTCGAGCTAATTTAGAAATTTCTTTTTA
1 ATTTCTAAATTTTTCACCATTCGAGCCAATTTAGAAATTT-TTTTTA
*
12368133 ATTTCTAAATTTTTCACCATTTGAGCCAATTTAGAAATTTTTTTT
1 ATTTCTAAATTTTTCACCATTCGAGCCAATTTAGAAATTTTTTTT
12368178 GTTTTTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (46 bp):
ATTTCTAAATTTTTCACCATTCGAGCCAATTTAGAAATTTTTTTTA
Found at i:12368913 original size:14 final size:15
Alignment explanation
Indices: 12368894--12368935 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
12368884 TTTCTTCAAA
12368894 TTTCTC-CTTCTTTT
1 TTTCTCTCTTCTTTT
*
12368908 TTTCTCTTTTTCTTTT
1 TTTCTC-TCTTCTTTT
*
12368924 TTTCTCTATTCT
1 TTTCTCTCTTCT
12368936 CTCTCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 13 0.54
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTCTTCTTTT
Found at i:12369085 original size:19 final size:18
Alignment explanation
Indices: 12369061--12369097 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12369051 GCCCAAAATC
*
12369061 TTCATTGGAATCTAGAAAA
1 TTCATTAGAATCTA-AAAA
12369080 TTCATTAGAATCTAAAAA
1 TTCATTAGAATCTAAAAA
12369098 GTTTTCAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
TTCATTAGAATCTAAAAA
Found at i:12369674 original size:16 final size:17
Alignment explanation
Indices: 12369653--12369685 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12369643 AGTGGAGAAT
12369653 AATAGA-TTTAGTGAAA
1 AATAGACTTTAGTGAAA
*
12369669 AATAGACTTTTGTGAAA
1 AATAGACTTTAGTGAAA
12369686 TAAATAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (17 bp):
AATAGACTTTAGTGAAA
Found at i:12372875 original size:34 final size:34
Alignment explanation
Indices: 12372827--12372963 Score: 98
Period size: 34 Copynumber: 3.9 Consensus size: 34
12372817 TAATCATAAT
* * *
12372827 AAAAATGATAATAAATGAAAT-TAAAGAAAATCTA
1 AAAAAT-AAAATAAATAAAATATAAACAAAATCTA
* * **
12372861 AAAGAATACAATAAATAAAATGTAAACAAAAAATAA
1 AAA-AATAAAATAAATAAAATATAAACAAAATCT-A
* * *
12372897 ATAATAATGATAATAAATGAAAT-TAAAGAAAATCTA
1 A-AA-AAT-AAAATAAATAAAATATAAACAAAATCTA
*
12372933 GGAAAATAAAATAAATAAAATATAAACAAAA
1 -AAAAATAAAATAAATAAAATATAAACAAAA
12372964 AAAACAATAA
Statistics
Matches: 81, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
34 27 0.33
35 23 0.28
36 5 0.06
37 14 0.17
38 12 0.15
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (34 bp):
AAAAATAAAATAAATAAAATATAAACAAAATCTA
Found at i:12372878 original size:38 final size:36
Alignment explanation
Indices: 12372836--12372951 Score: 91
Period size: 38 Copynumber: 3.2 Consensus size: 36
12372826 TAAAAATGAT
12372836 AATAAATGAAATTAAAGAAAATCTAAAAGAATACAATA
1 AATAAATGAAATTAAAGAAAATCTAAAA-AATA-AATA
* *
12372874 AATAAAATGTAAA--CAA-AAAA--TAAATAAT-AATGA
1 AAT-AAATG-AAATTAAAGAAAATCTAAAAAATAAAT-A
*
12372907 TAATAAATGAAATTAAAGAAAATCTAGGAAAATAAAATA
1 -AATAAATGAAATTAAAGAAAATCTA-AAAAAT-AAATA
12372946 AATAAA
1 AATAAA
12372952 ATATAAACAA
Statistics
Matches: 61, Mismatches: 5, Indels: 24
0.68 0.06 0.27
Matches are distributed among these distances:
32 6 0.10
33 6 0.10
34 8 0.13
35 8 0.13
37 6 0.10
38 15 0.25
39 6 0.10
40 6 0.10
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (36 bp):
AATAAATGAAATTAAAGAAAATCTAAAAAATAAATA
Found at i:12372906 original size:72 final size:72
Alignment explanation
Indices: 12372797--12372965 Score: 232
Period size: 72 Copynumber: 2.3 Consensus size: 72
12372787 AAATATTTAA
* *
12372797 AAATAAAAATAAAAATCAAATAATCATAATAAAAATGATAATAAATGAAATTAAAGAAAATCTA-
1 AAAT-AAAATATAAA-CAAAAAAT-A-AATAAAAATGATAATAAATGAAATTAAAGAAAATCTAG
*
12372861 AAAGAATACAAT
62 AAA-AATAAAAT
* * *
12372873 AAATAAAATGTAAACAAAAAATAAATAATAATGATAATAAATGAAATTAAAGAAAATCTAGGAAA
1 AAATAAAATATAAACAAAAAATAAATAAAAATGATAATAAATGAAATTAAAGAAAATCTAGAAAA
12372938 ATAAAAT
66 ATAAAAT
12372945 AAATAAAATATAAACAAAAAA
1 AAATAAAATATAAACAAAAAA
12372966 AACAATAACA
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
72 63 0.74
73 3 0.04
74 7 0.08
75 8 0.09
76 4 0.05
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (72 bp):
AAATAAAATATAAACAAAAAATAAATAAAAATGATAATAAATGAAATTAAAGAAAATCTAGAAAA
ATAAAAT
Found at i:12373751 original size:3 final size:3
Alignment explanation
Indices: 12373745--12373773 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12373735 TAAATAAAAT
12373745 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
12373774 CAATATTGGT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12374277 original size:21 final size:20
Alignment explanation
Indices: 12374244--12374372 Score: 57
Period size: 20 Copynumber: 6.0 Consensus size: 20
12374234 AAAATAGTAA
* *
12374244 AAAATATATAAAATTTTATT
1 AAAATATAAAAAAATTTATT
12374264 AAAATAATAAAAAAATTTATTTATT
1 AAAAT-AT-AAAAAA---ATTTATT
* *
12374289 AAAAGTAGTAAAAATAGA-TAAAT
1 AAAA-TA-TAAAAA-A-ATTTATT
*
12374312 AAAATA-AAAATAAATAT-TT
1 AAAATATAAAA-AAATTTATT
** *
12374331 AAAATATAAATTAATTTATC
1 AAAATATAAAAAAATTTATT
12374351 AAAATACTAAAAAAATCTTATT
1 AAAATA-TAAAAAAAT-TTATT
12374373 TTTTTACTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 26
0.66 0.12 0.21
Matches are distributed among these distances:
19 12 0.15
20 20 0.25
21 10 0.12
22 11 0.14
23 7 0.09
24 1 0.01
25 16 0.20
26 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATAAAAAAATTTATT
Found at i:12374333 original size:19 final size:19
Alignment explanation
Indices: 12374297--12374341 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
12374287 TTAAAAGTAG
*
12374297 TAAAAATAGATAAATAAAA
1 TAAAAATAAATAAATAAAA
**
12374316 TAAAAATAAATATTTAAAA
1 TAAAAATAAATAAATAAAA
*
12374335 TATAAAT
1 TAAAAAT
12374342 TAATTTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATAAATAAATAAAA
Found at i:12376467 original size:18 final size:19
Alignment explanation
Indices: 12376438--12376486 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
12376428 AAAAAGGATG
*
12376438 AAAAATCAAAAATTAAAAAT
1 AAAAATGAAAAA-TAAAAAT
*
12376458 CAAAA-GAAAAATAAAAAT
1 AAAAATGAAAAATAAAAAT
12376476 AAAAATGAAAA
1 AAAAATGAAAA
12376487 CAAAATGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 10 0.40
20 4 0.16
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (19 bp):
AAAAATGAAAAATAAAAAT
Found at i:12376473 original size:5 final size:6
Alignment explanation
Indices: 12376438--12376491 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
12376428 AAAAAGGATG
* * * *
12376438 AAAAAT CAAAAATT AAAAAT CAAAAG AAAAAT AAAAAT AAAAAT GAAAAC
1 AAAAAT -AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
12376488 AAAA
1 AAAA
12376492 TGGAAGAATC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
6 28 0.72
7 10 0.26
8 1 0.03
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:12380786 original size:26 final size:25
Alignment explanation
Indices: 12380731--12380792 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
12380721 TTTAAGAAGT
12380731 TTATATTTT--TATTTTTAAAAATA
1 TTATATTTTAATATTTTTAAAAATA
*
12380754 TAATATATTTTAATATTTTTATCAAATA
1 T--TATATTTTAATATTTTTA-AAAATA
*
12380782 TTATAATTTAA
1 TTATATTTTAA
12380793 AATAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
25 8 0.25
26 9 0.28
27 8 0.25
28 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATATTTTAATATTTTTAAAAATA
Found at i:12380796 original size:28 final size:27
Alignment explanation
Indices: 12380740--12380793 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
12380730 TTTATATTTT
*
12380740 TATTTTTAAAAATATAATATATTTTAA
1 TATTTTTAAAAATATAATATATTTAAA
* *
12380767 TATTTTTATCAAATATTATA-ATTTAAA
1 TATTTTTA-AAAATATAATATATTTAAA
12380794 ATAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTTTTAAAAATATAATATATTTAAA
Found at i:12380836 original size:96 final size:94
Alignment explanation
Indices: 12380629--12380892 Score: 268
Period size: 96 Copynumber: 2.7 Consensus size: 94
12380619 AATTAACAAA
* *
12380629 AATAATTTTATTTTTTATTTTTAAATATAATATAAAATTTTAATATATTTA-CAAATATTATAAT
1 AATAAGTTTATTTTTTATTTTTAAATATAATAT---ATTTTAATATTTTTATCAAATATTATAAT
* * * * * **
12380693 TT-CAATAAATAAGTTTTAAATTTTCTATTTT
63 TTAAAATAAACAAATTTAAAAATTTCTATTCC
*
12380724 AAGAAGTTTATATTTTTATTTTTAAAAATATAATATATTTTAATATTTTTATCAAATATTATAAT
1 AATAAGTTTAT-TTTTTATTTTT--AAATATAATATATTTTAATATTTTTATCAAATATTATAAT
12380789 TTAAAATAAACAAATTTCAAAAATTTCT-TTCCC
63 TTAAAATAAACAAATTT-AAAAATTTCTATT-CC
* * * *
12380822 AATAAGTTT-TTTTTTAATTTTTACATATAATATAGTTTGATATATTTTATCAAA-ATTTATAGT
1 AATAAGTTTATTTTTT-ATTTTTAAATATAATATATTTTAATAT-TTTTATCAAATA-TTATAAT
12380885 TTAAAATA
63 TTAAAATA
12380893 CATATATTCT
Statistics
Matches: 144, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
95 42 0.29
96 55 0.38
97 20 0.14
98 27 0.19
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (94 bp):
AATAAGTTTATTTTTTATTTTTAAATATAATATATTTTAATATTTTTATCAAATATTATAATTTA
AAATAAACAAATTTAAAAATTTCTATTCC
Found at i:12380913 original size:194 final size:193
Alignment explanation
Indices: 12380712--12381090 Score: 452
Period size: 197 Copynumber: 2.0 Consensus size: 193
12380702 TAAGTTTTAA
*
12380712 ATTTTCT-ATTTTAAGAAGTTTATATT-TTTATT-TTTAAAAATATAATATATTT-TAATATTTT
1 ATTTTCTAATTTTAAGAAGTTTATATTGTTTATTATTTAAAAAGATAATATATTTGT-ATA-TTT
* *
12380773 TATC-AAATATTATAATTTAAAATAAACAAATTTCAAAAATTTCTTTCCCAATAAGTTTTTTTTT
64 TATCTAAAT-TTATAATTTAAAATAAACAAATTTC-AAAATTTATTT-----TAAG-TTGTTTTT
* * *
12380837 AATTT-TTACATATAATATAG-TTTGATATA-TTTTATCAAAA-TTTATAGTTTAAAATACATAT
121 AATTTATTAAATATAATATAGCTTTAATATATTTTTAACAAAATTTTATAGTTTAAAATACATAT
12380898 ATTCTAAC
186 ATTCTAAC
* * * ****
12380906 ATTTTCTAATTTTGAGAAGTTTTTATTGTTTTTTAATTTTTTTAGATAATATATTTGTATATTTT
1 ATTTTCTAATTTTAAGAAGTTTATATTGTTTATT-ATTTAAAAAGATAATATATTTGTATATTTT
* * *
12380971 ATCTAGATTTATAATTTAAAATAAATAAATTTCAAATTTTATTTTAAGTTGTTTTTAATTTATTA
65 ATCTAAATTTATAATTTAAAATAAACAAATTTCAAAATTTATTTTAAGTTGTTTTTAATTTATTA
12381036 AATATAATATAGCTTTAATATATTTTTAACAAAATTTTATAGTTTAAAATACATA
130 AATATAATATAGCTTTAATATATTTTTAACAAAATTTTATAGTTTAAAATACATA
12381091 AATTTTATAT
Statistics
Matches: 159, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
190 12 0.08
191 18 0.11
192 8 0.05
193 10 0.06
194 27 0.17
195 17 0.11
196 14 0.09
197 31 0.19
198 21 0.13
199 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (193 bp):
ATTTTCTAATTTTAAGAAGTTTATATTGTTTATTATTTAAAAAGATAATATATTTGTATATTTTA
TCTAAATTTATAATTTAAAATAAACAAATTTCAAAATTTATTTTAAGTTGTTTTTAATTTATTAA
ATATAATATAGCTTTAATATATTTTTAACAAAATTTTATAGTTTAAAATACATATATTCTAAC
Found at i:12381104 original size:8 final size:8
Alignment explanation
Indices: 12381093--12381165 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
12381083 AATACATAAA
12381093 TTTTATATT
1 TTTTATA-T
*
12381102 TTTTATAA
1 TTTTATAT
*
12381110 TTTTATAA
1 TTTTATAT
12381118 TTTTA-AT
1 TTTTATAT
12381125 TTTTGAATAT
1 TTTT--ATAT
**
12381135 AATT-TAT
1 TTTTATAT
12381142 TTTTATAT
1 TTTTATAT
*
12381150 TTTATATAG
1 TTT-TATAT
12381159 TTTTATA
1 TTTTATA
12381166 ATTTAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
7 10 0.19
8 23 0.44
9 15 0.29
10 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
TTTTATAT
Found at i:12381152 original size:182 final size:187
Alignment explanation
Indices: 12380750--12381177 Score: 444
Period size: 182 Copynumber: 2.3 Consensus size: 187
12380740 TATTTTTAAA
* *
12380750 AATATAATATATTTTAATATTTTTATC-AAATATTATAATTTAAAATAAACAAATTTCAAAAATT
1 AATATAATATATTTTTATA-TTTTATCTAGAT-TTATAATTTAAAATAAACAAATTTCAAAAATT
* * * * *
12380814 TCTTTCCCAATAAGTTTTTTTTTAATTTTTACATATAATATAGTTTGATATATTTTATCAAAATT
64 TATTT--C--TAAGTTTGTTTTTAATTTTTAAATATAATATAGTTTAATATATTTTAACAAAATT
* **
12380879 TATAGTTTAAAATACATATATTCTAACATTTTCTAATTTTGAGAAGTTTTTATTGTTTTTTAATT
125 TATAGTTTAAAATAC--A-A-T-TAACATTTTATAATTTTGAGAAG-TTTTATTGAATTTTAATT
*
12380944 TTTT
184 TTTG
* * * * *
12380948 TAGATAATATATTTGTATATTTTATCTAGATTTATAATTTAAAATAAATAAATTTC-AAATTTTA
1 AATATAATATATTTTTATATTTTATCTAGATTTATAATTTAAAATAAACAAATTTCAAAAATTTA
12381012 TTT-TAAG-TTGTTTTTAATTTATTAAATATAATATAGCTTTAATATATTTTTAACAAAATTTTA
66 TTTCTAAGTTTGTTTTTAATTT-TTAAATATAATATAG-TTTAATATA-TTTTAACAAAA-TTTA
* * *
12381075 TAGTTTAAAATAC-A-TAA-ATTTTATATTTTTTATAA-TTTTA-T-AATTTTAATTTTTG
127 TAGTTTAAAATACAATTAACATTTTATAATTTTGAGAAGTTTTATTGAATTTTAATTTTTG
* * *
12381130 AATATAATTTATTTTTATATTTTATATAGTTTTATAATTTAAAATAAA
1 AATATAATATATTTTTATATTTTATCTAGATTTATAATTTAAAATAAA
12381178 GAAAATAATT
Statistics
Matches: 200, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
182 53 0.26
183 1 0.00
184 5 0.03
186 14 0.07
187 3 0.01
190 13 0.06
191 18 0.09
192 8 0.04
193 10 0.05
194 17 0.09
196 9 0.05
197 31 0.16
198 18 0.09
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (187 bp):
AATATAATATATTTTTATATTTTATCTAGATTTATAATTTAAAATAAACAAATTTCAAAAATTTA
TTTCTAAGTTTGTTTTTAATTTTTAAATATAATATAGTTTAATATATTTTAACAAAATTTATAGT
TTAAAATACAATTAACATTTTATAATTTTGAGAAGTTTTATTGAATTTTAATTTTTG
Found at i:12381186 original size:49 final size:49
Alignment explanation
Indices: 12381093--12381187 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
12381083 AATACATAAA
* * * *** *
12381093 TTTTATATTTTTTATAATTTTATAATTTTAATTTTTGAATATAATTTAT
1 TTTTATATTTTATATAATTTTATAATTTAAAATAAAGAAAATAATTTAT
*
12381142 TTTTATATTTTATATAGTTTTATAATTTAAAATAAAGAAAATAATT
1 TTTTATATTTTATATAATTTTATAATTTAAAATAAAGAAAATAATT
12381188 AATAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (49 bp):
TTTTATATTTTATATAATTTTATAATTTAAAATAAAGAAAATAATTTAT
Found at i:12381885 original size:17 final size:17
Alignment explanation
Indices: 12381865--12381907 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
12381855 ATATTTTTTT
12381865 GAAATTAATAAAAATTA
1 GAAATTAATAAAAATTA
*
12381882 GAAATTACT-AAAATTA
1 GAAATTAATAAAAATTA
* *
12381898 TAGATTAATA
1 GAAATTAATA
12381908 TTAAATATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
GAAATTAATAAAAATTA
Found at i:12382215 original size:88 final size:88
Alignment explanation
Indices: 12382111--12382635 Score: 249
Period size: 88 Copynumber: 6.0 Consensus size: 88
12382101 TAATTTTTTT
* * *
12382111 TATAGTTTCAACAAAATCTATGTTTTAATCTTAAAAAAGTTGAT-TTTGTTGGAACTATAAAAAT
1 TATAGTTTCAAAAAAATCTATGTTTTAATATTAAAAAAGTTGATCTTTGTTGAAACTAT-AAAAT
12382175 TTAAAAAAATAATTTTTTTCATAA
65 TTAAAAAAATAATTTTTTTCATAA
* *
12382199 TATATTTTCAAAAAAATTTACATG-TTTAATATTAAAAATA-TT-ATCTTTGTTGAAACT-TAAA
1 TATAGTTTCAAAAAAATCT--ATGTTTTAATATTAAAAA-AGTTGATCTTTGTTGAAACTATAAA
12382260 ATTCTAAAAAAA-AATTTTTTTACATAA
63 ATT-TAAAAAAATAATTTTTTT-CATAA
* * * * * * * * * **
12382287 AATAGTTTCAACAAAGATCAAAT-TTCTAATTTTAAAAATG-TGGTCTTTATTAAAACTATCGAA
1 TATAGTTTCAA-AAAAATC-TATGTTTTAATATTAAAAAAGTTGATCTTTGTTGAAACTATAAAA
**
12382350 TTTTGAAAAATAATTTTTTTCATAA
64 TTTAAAAAAATAATTTTTTTCATAA
* * * * *
12382375 TATA-TTTCTATAATTATAA-CT-T-TTTTAACATTAAAAGCA-TTG-CCTTTGTTGAAA-TTTA
1 TATAGTTTC-A-AA--AAAATCTATGTTTTAATATTAAAA-AAGTTGATCTTTGTTGAAACTATA
* ** *
12382433 TAATTTTGAAAAATAAGTTTTTTCATAA
61 AAATTTAAAAAAATAATTTTTTTCATAA
* * * * * * *
12382461 TATA-TGTTCAATAGAAAT-TTTGTTTTTAATACTAAAAGTA-TTG-TTTTTGTTGAAATTATAG
1 TATAGT-TTCAA-AAAAATCTATG-TTTTAATATTAAAA-AAGTTGATCTTTGTTGAAACTATAA
*
12382522 AATTCCT-AAAAAA-AA----TTTCATAG
62 AATT--TAAAAAAATAATTTTTTTCATAA
* ** * * * * * * *
12382545 TATATTTTCAGCAAAGTTTATGTTTTTATTTTAAAAACA-TTG-TTTTTGTTCAAATTATAAAAT
1 TATAGTTTCAAAAAAATCTATGTTTTAATATTAAAAA-AGTTGATCTTTGTTGAAACTATAAAAT
** *
12382608 TTTGAAAAGTAATTTTTTTCATAA
65 TTAAAAAAATAATTTTTTTCATAA
12382632 TATA
1 TATA
12382636 TTTTTAACAA
Statistics
Matches: 339, Mismatches: 61, Indels: 75
0.71 0.13 0.16
Matches are distributed among these distances:
81 1 0.00
82 4 0.01
83 40 0.12
84 21 0.06
85 3 0.01
86 35 0.10
87 82 0.24
88 94 0.28
89 52 0.15
90 7 0.02
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (88 bp):
TATAGTTTCAAAAAAATCTATGTTTTAATATTAAAAAAGTTGATCTTTGTTGAAACTATAAAATT
TAAAAAAATAATTTTTTTCATAA
Found at i:12382517 original size:87 final size:86
Alignment explanation
Indices: 12382090--12382638 Score: 304
Period size: 87 Copynumber: 6.4 Consensus size: 86
12382080 TTTAATTAGC
* * * * *
12382090 ATTTTGAAAAATAATTTTTTT--T-ATA-GTTTCAACAAAATCTATG-TTTTAATCTTAAAA-AA
1 ATTTTGAAAAATAATTTTTTTCATAATATATTTCAATAAAAT-TTTGTTTTTAATATTAAAAGCA
* * *
12382149 GTTGATTTTGTTGGAACTATAAAA
65 -TTGTTTTTGTTGAAATTAT-AAA
** * ** * **
12382173 ATTTAAAAAAATAATTTTTTTCATAATATATTTTCAAAAAAATTTACATGTTTAATATTAAAAAT
1 ATTTTGAAAAATAATTTTTTTCATAATATA-TTTCAATAAAATTT-TGTTTTTAATATTAAAAGC
* * *
12382238 ATTATCTTTGTTGAAACT-TAAA
64 ATTGTTTTTGTTGAAATTATAAA
* * * * * **** * *
12382260 ATTCTAAAAAAAAATTTTTTTACATAAAATAGTTTCAACAAAGATCAAATTTCTAATTTTAAAA-
1 ATTTTGAAAAATAATTTTTTT-CATAATATA-TTTCAATAAA-ATTTTGTTTTTAATATTAAAAG
* * * * **
12382324 -ATGTGGTCTTTATTAAAACTATCGA
63 CAT-T-GTTTTTGTTGAAATTATAAA
* * ** *
12382349 ATTTTGAAAAATAATTTTTTTCATAATATATTTCTATAATTATAACT-TTTTTAACATTAAAAGC
1 ATTTTGAAAAATAATTTTTTTCATAATATATTTCAATAA-AAT-TTTGTTTTTAATATTAAAAGC
** *
12382413 ATTGCCTTTGTTGAAATT-TATA
64 ATTGTTTTTGTTGAAATTATAAA
* * *
12382435 ATTTTGAAAAATAAGTTTTTTCATAATATATGTTCAATAGAAATTTTGTTTTTAATACTAAAAGT
1 ATTTTGAAAAATAATTTTTTTCATAATATAT-TTCAATA-AAATTTTGTTTTTAATATTAAAAGC
*
12382500 ATTGTTTTTGTTGAAATTATAGA
64 ATTGTTTTTGTTGAAATTATAAA
* * * ** * * *
12382523 ATTCCT-AAAAA-AA---ATTTCATAGTATATTTTCAGCAAAGTTTATGTTTTT-ATTTTAAAAA
1 ATT-TTGAAAAATAATTTTTTTCATAATATA-TTTCAATAAAATTT-TGTTTTTAATATTAAAAG
*
12382582 CATTGTTTTTGTTCAAATTATAAA
63 CATTGTTTTTGTTGAAATTATAAA
*
12382606 ATTTTGAAAAGTAATTTTTTTCATAATATATTT
1 ATTTTGAAAAATAATTTTTTTCATAATATATTT
12382639 TTAACAAAGA
Statistics
Matches: 360, Mismatches: 77, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
82 1 0.00
83 59 0.16
84 25 0.07
85 2 0.01
86 41 0.11
87 106 0.29
88 75 0.21
89 50 0.14
90 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (86 bp):
ATTTTGAAAAATAATTTTTTTCATAATATATTTCAATAAAATTTTGTTTTTAATATTAAAAGCAT
TGTTTTTGTTGAAATTATAAA
Found at i:12387395 original size:14 final size:14
Alignment explanation
Indices: 12387348--12387386 Score: 64
Period size: 12 Copynumber: 2.9 Consensus size: 14
12387338 GACTTCTCAT
12387348 ATAGTGAAATTTT-
1 ATAGTGAAATTTTA
12387361 A-AGTGAAATTTTA
1 ATAGTGAAATTTTA
12387374 ATAGTGAAATTTT
1 ATAGTGAAATTTT
12387387 CATTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATAGTGAAATTTTA
Found at i:12387909 original size:6 final size:6
Alignment explanation
Indices: 12387893--12387923 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
12387883 TTGTTCTAAT
12387893 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
12387924 GACCATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:12388386 original size:41 final size:42
Alignment explanation
Indices: 12388271--12388392 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 42
12388261 GAAAACAACT
* * *
12388271 TGAATTATACATTGCTATTACTATCAAA-AGCATTCTTTATCTA
1 TGAATTATACATTTCTATTACTATCAAAGA-CATT-TCTATCAA
*
12388314 TGAGATTGTATGCATTTCTATTACTATCAAAGACATTTCTA-CAA
1 TGA-A-T-TATACATTTCTATTACTATCAAAGACATTTCTATCAA
* *
12388358 TGAATTATACATTTCTATTACTAGCAAAGGCATTT
1 TGAATTATACATTTCTATTACTATCAAAGACATTT
12388393 TTTATCTATC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 27 0.40
42 1 0.01
43 4 0.06
44 6 0.09
45 4 0.06
46 25 0.37
47 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (42 bp):
TGAATTATACATTTCTATTACTATCAAAGACATTTCTATCAA
Found at i:12391991 original size:14 final size:14
Alignment explanation
Indices: 12391966--12391999 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12391956 ACAAATATAC
*
12391966 AATAATTGATAAAA
1 AATAATTAATAAAA
*
12391980 ATTAATTAATAAAA
1 AATAATTAATAAAA
12391994 AATAAT
1 AATAAT
12392000 AATTTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AATAATTAATAAAA
Found at i:12392398 original size:13 final size:13
Alignment explanation
Indices: 12392379--12392416 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12392369 TTTAAAAACT
12392379 TAAATAATAATAAA
1 TAAATAATAA-AAA
12392393 -AAATAATAAAAA
1 TAAATAATAAAAA
*
12392405 TCAATAATAAAA
1 TAAATAATAAAA
12392417 TGTGTGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:12393372 original size:9 final size:8
Alignment explanation
Indices: 12393351--12393376 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12393341 CTTGTCCCCA
12393351 GTTTTTTG
1 GTTTTTTG
12393359 GTTTTTTG
1 GTTTTTTG
12393367 GTTTTTTG
1 GTTTTTTG
12393375 GT
1 GT
12393377 GATGTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (8 bp):
GTTTTTTG
Found at i:12398037 original size:12 final size:12
Alignment explanation
Indices: 12398009--12398038 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
12397999 TTAGAAAAAA
12398009 GAAAAATGAAAG
1 GAAAAATGAAAG
12398021 G-AAAATGAAAG
1 GAAAAATGAAAG
12398032 GAAAAAT
1 GAAAAAT
12398039 AGAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (12 bp):
GAAAAATGAAAG
Found at i:12400298 original size:21 final size:21
Alignment explanation
Indices: 12400274--12400325 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
12400264 AGAAAGAAAT
*
12400274 AAGATAGACAAAGTTAAAAAG
1 AAGATAGACAAAGATAAAAAG
* * *
12400295 AAGATAGAGAAAGATAGAATG
1 AAGATAGACAAAGATAAAAAG
12400316 AAGATAGACA
1 AAGATAGACA
12400326 TGCTACTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.23, T:0.13
Consensus pattern (21 bp):
AAGATAGACAAAGATAAAAAG
Found at i:12406597 original size:3 final size:3
Alignment explanation
Indices: 12406576--12406688 Score: 51
Period size: 3 Copynumber: 36.3 Consensus size: 3
12406566 TCTTTTTTTG
12406576 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT GTAT ATATT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T
* * *
12406621 TAT T-T T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T
12406667 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
12406689 TTAATTATCT
Statistics
Matches: 89, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
2 11 0.12
3 49 0.55
4 26 0.29
5 3 0.03
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12406795 original size:11 final size:12
Alignment explanation
Indices: 12406775--12406807 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
12406765 TCTAGATTTT
*
12406775 TTTTTTTTTTAA
1 TTTTTATTTTAA
12406787 -TTTTATTTTAA
1 TTTTTATTTTAA
12406798 TTTTTATTTT
1 TTTTTATTTT
12406808 GAGAGCTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:12407312 original size:20 final size:20
Alignment explanation
Indices: 12407269--12407313 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12407259 CCGGCCAACT
*
12407269 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
12407289 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
12407309 TCCGG
1 TCCGG
12407314 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:12407575 original size:14 final size:15
Alignment explanation
Indices: 12407556--12407597 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
12407546 CCGAGCCGAG
12407556 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
12407570 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
12407583 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
12407597 C
1 C
12407598 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:12407588 original size:13 final size:14
Alignment explanation
Indices: 12407556--12407592 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
12407546 CCGAGCCGAG
12407556 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
12407570 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
12407582 TCCGAGCCGTT
1 -CCGAGCCGTT
12407593 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:12408098 original size:152 final size:152
Alignment explanation
Indices: 12407691--12408137 Score: 765
Period size: 149 Copynumber: 3.0 Consensus size: 152
12407681 CTTGATTTTT
* *
12407691 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
12407756 ATACTCTTGAGGTGAGGAAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
12407821 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
* *
12407843 TTTTGATTTTTC-TT--TAAATCCGACGACGGAGCCTCTGCAGGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
12407905 ATACTCTTGAGGTGAGAGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
12407970 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
* *
12407992 TTTTGTTTTTTCTTTAATAAATCTGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
* *
12408057 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
* *
12408122 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
12408138 ACTTGGTAAA
Statistics
Matches: 277, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
149 142 0.51
150 2 0.01
151 2 0.01
152 131 0.47
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:12411179 original size:3 final size:3
Alignment explanation
Indices: 12411171--12411221 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
12411161 TTTGTTTATG
12411171 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12411218 ATA A
1 ATA A
12411222 AAAGAGAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:12418341 original size:21 final size:21
Alignment explanation
Indices: 12418315--12418364 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
12418305 AAGTAGCATG
*
12418315 TCTATCTTCATTCTATCTTTC
1 TCTATCTTCATTCTAACTTTC
* * *
12418336 TCTATCTTCTTTTTAACTTTG
1 TCTATCTTCATTCTAACTTTC
12418357 TCTATCTT
1 TCTATCTT
12418365 ATTTCTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (21 bp):
TCTATCTTCATTCTAACTTTC
Found at i:12420607 original size:11 final size:11
Alignment explanation
Indices: 12420593--12420623 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12420583 TTTCTTCTAT
12420593 TTTTCCTTTCA
1 TTTTCCTTTCA
12420604 TTTTCCTTTCA
1 TTTTCCTTTCA
*
12420615 TTTTTCTTT
1 TTTTCCTTT
12420624 TTTCTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:12426630 original size:14 final size:14
Alignment explanation
Indices: 12426613--12426646 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12426603 ATTTTAAATT
*
12426613 ATTATTTTTTATTA
1 ATTATTTTTTATCA
*
12426627 ATTAATTTTTATCA
1 ATTATTTTTTATCA
12426641 ATTATT
1 ATTATT
12426647 GTATATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTTTATCA
Found at i:12430285 original size:41 final size:41
Alignment explanation
Indices: 12430219--12430350 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 41
12430209 AAAGTAAGTG
*
12430219 ATAGATAAAAAATGCCTTTGCTAGTAATAGAAATGTATAATTC
1 ATAGAT-AAAAATG-CTTTGATAGTAATAGAAATGTATAATTC
* * *
12430262 ATTG-TAGAAATGTCTTTGATAGTAATAGAAATGCATACAATCTC
1 ATAGATAAAAATG-CTTTGATAGTAATAGAAATG--TATAAT-TC
12430306 ATAGATAAAGAATGCTTTTGATAGTAATAGCAAATGTATAATTC
1 ATAGATAAA-AATGC-TTTGATAGTAATAG-AAATGTATAATTC
12430350 A
1 A
12430351 AGTTGTTTTC
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
41 25 0.34
42 1 0.01
43 8 0.11
44 8 0.11
45 9 0.12
46 18 0.24
47 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (41 bp):
ATAGATAAAAATGCTTTGATAGTAATAGAAATGTATAATTC
Found at i:12431244 original size:14 final size:14
Alignment explanation
Indices: 12431227--12431265 Score: 64
Period size: 12 Copynumber: 2.9 Consensus size: 14
12431217 GTTCAAAATG
12431227 AAAATTTCACTATT
1 AAAATTTCACTATT
12431241 AAAATTTCAC--TT
1 AAAATTTCACTATT
12431253 AAAATTTCACTAT
1 AAAATTTCACTAT
12431266 ATGAGAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.52
14 11 0.48
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTCACTATT
Found at i:12431983 original size:15 final size:13
Alignment explanation
Indices: 12431961--12431994 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
12431951 AGACAAATTA
12431961 TTTTTGATAAATAT
1 TTTTTGATAAA-AT
12431975 TTGTTTGATAAAAT
1 TT-TTTGATAAAAT
12431989 TTTTTG
1 TTTTTG
12431995 GTCATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 6 0.32
15 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (13 bp):
TTTTTGATAAAAT
Found at i:12434935 original size:19 final size:17
Alignment explanation
Indices: 12434887--12434941 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
12434877 TATTAAATAT
* *
12434887 AAAGAGTAAAAAAAGAA
1 AAAGAATAAAAAAAGAG
*
12434904 AAAGAATATAAAAAGAG
1 AAAGAATAAAAAAAGAG
12434921 AAAGAATAAGAAAAAGGAG
1 AAAGAATAA-AAAAA-GAG
12434940 AA
1 AA
12434942 GAAAATTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 22 0.69
18 5 0.16
19 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (17 bp):
AAAGAATAAAAAAAGAG
Found at i:12435985 original size:17 final size:15
Alignment explanation
Indices: 12435937--12435999 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
12435927 TAAATATAAA
12435937 AAAAAAAG-AAAAAG
1 AAAAAAAGTAAAAAG
*
12435951 --AAAAAGTAAATAG
1 AAAAAAAGTAAAAAG
12435964 AAAAAAAGTAAGAAAG
1 AAAAAAAGTAA-AAAG
* *
12435980 GAAAAATG-AAAAA-
1 AAAAAAAGTAAAAAG
12435993 AAAAAAA
1 AAAAAAA
12436000 AAAACAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 6 0.15
13 10 0.26
14 3 0.08
15 11 0.28
16 9 0.23
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAAAAGTAAAAAG
Found at i:12435999 original size:31 final size:27
Alignment explanation
Indices: 12435934--12436001 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 27
12435924 TATTAAATAT
*
12435934 AAAAAAAAAAGAAAAAGAAAAAGTAAA
1 AAAAAAAAAAGAAAAAGAAAAAGAAAA
* *
12435961 TAGAAAAAAAGTAAGAAAGGAAAAATGAAAA
1 AAAAAAAAAAG-AA-AAA-GAAAAA-GAAAA
12435992 AAAAAAAAAA
1 AAAAAAAAAA
12436002 AACAAAGTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.28
28 2 0.06
29 3 0.09
30 6 0.19
31 12 0.38
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (27 bp):
AAAAAAAAAAGAAAAAGAAAAAGAAAA
Found at i:12436075 original size:17 final size:17
Alignment explanation
Indices: 12436053--12436086 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12436043 AGAAAATTCG
*
12436053 TTAAATATAAATAAATA
1 TTAAATATAAAAAAATA
12436070 TTAAATATAAAAAAATA
1 TTAAATATAAAAAAATA
12436087 AACAAGGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAATATAAAAAAATA
Found at i:12436727 original size:30 final size:30
Alignment explanation
Indices: 12436693--12436805 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 30
12436683 TATAATTTAT
*
12436693 ATTAAGAGCTTATTTAGATATAAATTAAAG
1 ATTAAAAGCTTATTTAGATATAAATTAAAG
* * *
12436723 ATTAAAAGTTTATTTGGATACAAATTAAAG
1 ATTAAAAGCTTATTTAGATATAAATTAAAG
** * *
12436753 ATTAATGGTTTATTT-GAATGTAAATTAAAG
1 ATTAAAAGCTTATTTAG-ATATAAATTAAAG
* * *
12436783 GTTAAAAACTTATTTAGGTATAA
1 ATTAAAAGCTTATTTAGATATAA
12436806 TAAAAGTATA
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
29 1 0.02
30 64 0.97
31 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (30 bp):
ATTAAAAGCTTATTTAGATATAAATTAAAG
Found at i:12437198 original size:129 final size:125
Alignment explanation
Indices: 12437047--12437446 Score: 399
Period size: 129 Copynumber: 3.1 Consensus size: 125
12437037 ATAAAATACT
* *** * * * *
12437047 ACATGTCAAATTTTCATGAAGCAATTATAAGGGTATTTTAGAAATTCAATGTGTAGTTAATTTTA
1 ACATGTCAAATTTT-ATAAAGCAATGGCAAGGTTATTTTAGAAATTTAATATGTAATTAATTTTA
*
12437112 TATTATGTTAAAATTTAATTTGTAATCTAATAAGGGTATTATAGTAAATTTTGAACAAAATGCC
65 TATTATGTTAAAATTTAATTT-TAAT-TAATAAGGGTATTATAGT-AATTTTGAACAAAATGTC
* *
12437176 ACATGTCAAATTTGTATAAAGCAATGGCAAGATTATTTCA-ATAATTTAATATGTAATTAATTTT
1 ACATGTCAAATTT-TATAAAGCAATGGCAAGGTTATTTTAGA-AATTTAATATGTAATTAATTTT
* * * * * *
12437240 ATATTATGTTAAAATTTCATTTACAATTTAATAGGGGTATTATAGTAATTTTAAATAAAATATC
64 ATATTATGTTAAAATTTAATTT-TAA-TTAATAAGGGTATTATAGTAATTTTGAACAAAATGTC
* * * * * ***
12437304 ATATGTCAAAATTCTACAAGGCAATGGCAAGGTTATTTTAGTAATTTAATACCCAATTAATTTTA
1 ACATGTC-AAATTTTATAAAGCAATGGCAAGGTTATTTTAGAAATTTAATATGTAATTAATTTTA
* * *
12437369 TATTATATTAAAATTTAATCCTTAATTCAAT-AGAGGTATTGTAGTAATTTTGAAACAAAATGTC
65 TATTATGTTAAAATTTAAT-TTTAATT-AATAAG-GGTATTATAGTAATTTTG-AACAAAATGTC
* *
12437433 ATATGTCAACTTTT
1 ACATGTCAAATTTT
12437447 TAGGAAGCAA
Statistics
Matches: 223, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
127 3 0.01
128 106 0.48
129 112 0.50
130 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (125 bp):
ACATGTCAAATTTTATAAAGCAATGGCAAGGTTATTTTAGAAATTTAATATGTAATTAATTTTAT
ATTATGTTAAAATTTAATTTTAATTAATAAGGGTATTATAGTAATTTTGAACAAAATGTC
Found at i:12437362 original size:128 final size:126
Alignment explanation
Indices: 12437103--12437441 Score: 408
Period size: 128 Copynumber: 2.6 Consensus size: 126
12437093 CAATGTGTAG
* * *
12437103 TTAATTTTATATTATGTTAAAATTTAATTTGTAATCTAATAAGGGTATTATAGTAAATTTTGAAC
1 TTAATTTTATATTATGTTAAAATTTAA-TT-TAATTTAATAGGGGTATTATAGT-AATTTTAAAC
* * * * * ***
12437168 AAAATGCCACATGTCAAATTTGTATAAAGCAATGGCAAGATTATTTCAATAATTTAATATGTAA
63 AAAATGTCATATGTCAAAATTCTACAAAGCAATGGCAAGATTATTTCAATAATTTAATACCCAA
* *
12437232 TTAATTTTATATTATGTTAAAATTTCATTTACAATTTAATAGGGGTATTATAGTAATTTTAAATA
1 TTAATTTTATATTATGTTAAAATTTAATTT--AATTTAATAGGGGTATTATAGTAATTTTAAACA
* * * * *
12437297 AAATATCATATGTCAAAATTCTACAAGGCAATGGCAAGGTTATTTTAGTAATTTAATACCCAA
64 AAATGTCATATGTCAAAATTCTACAAAGCAATGGCAAGATTATTTCAATAATTTAATACCCAA
* * * *
12437360 TTAATTTTATATTATATTAAAATTTAATCCTTAATTCAATAGAGGTATTGTAGTAATTTTGAAAC
1 TTAATTTTATATTATGTTAAAATTTAAT--TTAATTTAATAGGGGTATTATAGTAATTTT-AAAC
12437425 AAAATGTCATATGTCAA
63 AAAATGTCATATGTCAA
12437442 CTTTTTAGGA
Statistics
Matches: 180, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
127 1 0.01
128 112 0.62
129 65 0.36
130 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (126 bp):
TTAATTTTATATTATGTTAAAATTTAATTTAATTTAATAGGGGTATTATAGTAATTTTAAACAAA
ATGTCATATGTCAAAATTCTACAAAGCAATGGCAAGATTATTTCAATAATTTAATACCCAA
Found at i:12438264 original size:20 final size:20
Alignment explanation
Indices: 12438239--12438374 Score: 83
Period size: 20 Copynumber: 7.0 Consensus size: 20
12438229 TAGTGACGCT
*
12438239 ATAATTATTGTATTAATAAA
1 ATAATTATTATATTAATAAA
* *
12438259 ATAATT-TT-T-TT-ATTAT
1 ATAATTATTATATTAATAAA
*
12438275 ATAAATATTATATT-A-AAA
1 ATAATTATTATATTAATAAA
12438293 ATAA-TATTATATTTATTATAAAA
1 ATAATTATTATA-TTA--AT-AAA
12438316 ATAA-TATTATATTAAT-AA
1 ATAATTATTATATTAATAAA
* *
12438334 ATAATGTATTATATTATTAAT
1 ATAAT-TATTATATTAATAAA
* *
12438355 ATATTATATTATTTTAATAA
1 ATAAT-TATTATATTAATAA
12438375 TATGTTGTAT
Statistics
Matches: 93, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
16 8 0.09
17 11 0.12
18 15 0.16
19 5 0.05
20 19 0.20
21 18 0.19
22 3 0.03
23 14 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (20 bp):
ATAATTATTATATTAATAAA
Found at i:12438359 original size:16 final size:16
Alignment explanation
Indices: 12438335--12438456 Score: 68
Period size: 16 Copynumber: 7.1 Consensus size: 16
12438325 TATTAATAAA
*
12438335 TAATGTATTATATTAT
1 TAATATATTATATTAT
12438351 TAATATATTATATTATTT
1 TAATATATTATATTA--T
* *
12438369 TAATAATATGTTGTATTAA
1 TAAT-ATA--TTATATTAT
**
12438388 TAATATAACA-ATTAT
1 TAATATATTATATTAT
*
12438403 TAATATAATATATTAAT
1 TAATATATTATATT-AT
*
12438420 AAATAAATATTAT-TATAT
1 TAAT--ATATTATAT-TAT
*
12438438 TAATCTTATTATATTAT
1 TAAT-ATATTATATTAT
12438455 TA
1 TA
12438457 GTAACAAATG
Statistics
Matches: 82, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
15 13 0.16
16 17 0.21
17 16 0.20
18 15 0.18
19 14 0.17
21 7 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATATATTATATTAT
Found at i:12438402 original size:57 final size:58
Alignment explanation
Indices: 12438273--12438417 Score: 136
Period size: 57 Copynumber: 2.5 Consensus size: 58
12438263 TTTTTTTATT
**
12438273 ATATAAATATTATATTAAAAATAATATTATATTTATTATAAAAATAATATTATATTAATA
1 ATATAAA-ATTATATTATTAAT-ATATTATATTTATTATAAAAATAATATTATATTAATA
* * * * *
12438333 A-ATAATGTATTATATTATTAATATATTATA-TTATTTTAATAAT-ATGTTGTATTAATA
1 ATATAA--AATTATATTATTAATATATTATATTTATTATAAAAATAATATTATATTAATA
*
12438390 ATATAACAATTAT-TAATATAATATATTA
1 ATATAA-AATTATATTAT-TAATATATTA
12438418 ATAAATAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
56 3 0.04
57 28 0.39
58 15 0.21
59 12 0.17
60 13 0.18
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (58 bp):
ATATAAAATTATATTATTAATATATTATATTTATTATAAAAATAATATTATATTAATA
Found at i:12439063 original size:15 final size:15
Alignment explanation
Indices: 12439043--12439072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12439033 AAATTTTATT
*
12439043 TTATTTTTTTATTTA
1 TTATTTATTTATTTA
12439058 TTATTTATTTATTTA
1 TTATTTATTTATTTA
12439073 GTGAAAAATT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:12439911 original size:14 final size:14
Alignment explanation
Indices: 12439887--12439935 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
12439877 ATTTTGGTAT
12439887 TTTATTT-TTTTTG
1 TTTATTTATTTTTG
12439900 TTTATTTATTTTTG
1 TTTATTTATTTTTG
*
12439914 TTTTATGTTATTATT-
1 -TTTAT-TTATTTTTG
12439929 TTTATTT
1 TTTATTT
12439936 TTAAAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.28
14 11 0.34
15 5 0.16
16 7 0.22
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTTTG
Found at i:12439937 original size:20 final size:22
Alignment explanation
Indices: 12439886--12439938 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
12439876 TATTTTGGTA
*
12439886 TTTTATTTTTTTTGTTTATTTAT
1 TTTTA-TTTTTATGTTTATTTAT
*
12439909 TTTT-GTTTTATG-TTA-TTAT
1 TTTTATTTTTATGTTTATTTAT
12439928 TTTTATTTTTA
1 TTTTATTTTTA
12439939 AAACATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.31
20 8 0.31
21 6 0.23
23 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTTATTTTTATGTTTATTTAT
Found at i:12440635 original size:12 final size:13
Alignment explanation
Indices: 12440618--12440646 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12440608 GTGAAAAATT
12440618 TAAAAAT-AAAAA
1 TAAAAATAAAAAA
12440630 TAAAAATAAAAAA
1 TAAAAATAAAAAA
12440643 TAAA
1 TAAA
12440647 TTTTGAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:12443206 original size:3 final size:3
Alignment explanation
Indices: 12443194--12443322 Score: 73
Period size: 3 Copynumber: 43.3 Consensus size: 3
12443184 TATTCTATGG
12443194 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT GTA- TAT CT-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
12443238 TAT TAT T-T TAT TCA- GAT TA- GAT T-T ATAT GTAT T-T TATT TAT ATAGT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT -TAT -TAT TAT TA-T TAT -TA-T
12443284 TAT ATATT TAT TAT TA- TAT TAT TAT TAT T-T TAT T-T TAT T
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12443323 TATTTATTTA
Statistics
Matches: 101, Mismatches: 5, Indels: 40
0.69 0.03 0.27
Matches are distributed among these distances:
2 18 0.18
3 62 0.61
4 19 0.19
5 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:12443216 original size:15 final size:15
Alignment explanation
Indices: 12443194--12443322 Score: 73
Period size: 14 Copynumber: 8.7 Consensus size: 15
12443184 TATTCTATGG
12443194 TATT-TTATTATTAT
1 TATTATTATTATTAT
12443208 TATTATTATTATTAT
1 TATTATTATTATTAT
12443223 GTA-TATCT-TTATTAT
1 -TATTAT-TATTATTAT
12443238 TATTATT-TTATTCA-
1 TATTATTATTATT-AT
* *
12443252 GATTA-GATT-TATAT
1 TATTATTATTAT-TAT
12443266 GTATT-TTATTTATATAGT
1 -TATTATTA-TTAT-TA-T
12443284 TATATATTTATTATTA-
1 TAT-TA-TTATTATTAT
12443300 TATTATTATTATT-T
1 TATTATTATTATTAT
12443314 TATT-TTATT
1 TATTATTATT
12443323 TATTTATTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 35
0.71 0.03 0.26
Matches are distributed among these distances:
13 7 0.07
14 31 0.33
15 30 0.32
16 8 0.09
17 7 0.07
18 4 0.04
19 4 0.04
20 3 0.03
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
TATTATTATTATTAT
Found at i:12443295 original size:4 final size:4
Alignment explanation
Indices: 12443270--12443335 Score: 50
Period size: 4 Copynumber: 16.8 Consensus size: 4
12443260 TTATATGTAT
* * *
12443270 TTTA TTTA TATA GTTA TATA TTTA -TTA -TTA TATTA -TTA -TTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA
12443316 TTTTA TTTA TTTA TTTA TTT
1 -TTTA TTTA TTTA TTTA TTT
12443336 TTTCTTTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
3 12 0.23
4 29 0.56
5 11 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:12443732 original size:26 final size:25
Alignment explanation
Indices: 12443703--12443757 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
12443693 CTGGGAGTGA
12443703 GAAAAAAATTTCTAGAAATTTCTGG
1 GAAAAAAATTTCTAGAAATTTCTGG
* *
12443728 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAAATTTCTAGAAATTTCTGG
12443754 GAAA
1 GAAA
12443758 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (25 bp):
GAAAAAAATTTCTAGAAATTTCTGG
Found at i:12443924 original size:20 final size:20
Alignment explanation
Indices: 12443899--12443947 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
12443889 TCCGGCGAAC
*
12443899 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
12443919 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
12443939 ATCCGGCGA
1 TTCCGGCGA
12443948 AATCCCACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:12444209 original size:14 final size:15
Alignment explanation
Indices: 12444190--12444231 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
12444180 CCGAGCCGAG
12444190 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
12444204 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
12444217 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
12444231 C
1 C
12444232 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:12444222 original size:13 final size:14
Alignment explanation
Indices: 12444190--12444226 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
12444180 CCGAGCCGAG
12444190 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
12444204 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
12444216 TCCGAGCCGTT
1 -CCGAGCCGTT
12444227 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:12444313 original size:11 final size:11
Alignment explanation
Indices: 12444299--12444328 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
12444289 TTTTTTTTTT
12444299 TTTTTTTTGAA
1 TTTTTTTTGAA
12444310 TTTTTTTTGAA
1 TTTTTTTTGAA
12444321 TTTTTTTT
1 TTTTTTTT
12444329 TATTTGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:12444325 original size:33 final size:32
Alignment explanation
Indices: 12444288--12444364 Score: 55
Period size: 33 Copynumber: 2.4 Consensus size: 32
12444278 TTTTTTTTTT
*** * **
12444288 TTTTTTTTTTTTTTTTTTTGAATTTTTTTTGA
1 TTTTTTTTTTTTTGACTTTGATTTTTTTTGAA
* ***
12444320 ATTTTTTTTTATTTGACTTTGATTTTTTTTTTC
1 TTTTTTTTTT-TTTGACTTTGATTTTTTTTGAA
12444353 TTTTTTTTTTTT
1 TTTTTTTTTTTT
12444365 CCTTTAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
32 11 0.31
33 25 0.69
ACGTcount: A:0.09, C:0.03, G:0.05, T:0.83
Consensus pattern (32 bp):
TTTTTTTTTTTTTGACTTTGATTTTTTTTGAA
Found at i:12444326 original size:1 final size:1
Alignment explanation
Indices: 12444278--12444306 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
12444268 CCGCTCCAGG
12444278 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12444307 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12444640 original size:152 final size:153
Alignment explanation
Indices: 12444354--12444652 Score: 510
Period size: 152 Copynumber: 2.0 Consensus size: 153
12444344 TTTTTTTTCT
* * *
12444354 TTTTTTTTTTTCCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGTTTTTTCCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTG
* * *
12444419 TATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
66 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
* *
12444484 ATTTCCAATAATTAATTGGATGA
131 ATTTCCAACAACTAATTGGATGA
12444507 TTTTGTTTTTT-CTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGTTTTTTCCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTG
*
12444571 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATC
66 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
12444636 ATTTCCAACAACTAATT
131 ATTTCCAACAACTAATT
12444653 ACTTGGTAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
152 127 0.93
153 10 0.07
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (153 bp):
TTTTGTTTTTTCCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTG
CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
ATTTCCAACAACTAATTGGATGA
Found at i:12447908 original size:1 final size:1
Alignment explanation
Indices: 12447902--12447930 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
12447892 GTAAATTTTG
12447902 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12447931 CACCACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12448434 original size:1 final size:1
Alignment explanation
Indices: 12448428--12448453 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
12448418 TGATCTTGGT
12448428 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
12448454 GATCCAGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12449774 original size:41 final size:41
Alignment explanation
Indices: 12449612--12450074 Score: 591
Period size: 41 Copynumber: 11.5 Consensus size: 41
12449602 TCAAGTTCGT
12449612 TGCCTCTGTTTAGAGGAGC-ATTTAC-TTTC-AAGTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGG
12449649 TG-CTCTGTTTTAGAGGAGCAATTTACTATTTC-AAGTTCGT--
1 TGCCTCTG-TTTAGAGGAGCAATTTACT-TTTCAAAG-TCGTGG
12449689 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTC-AAGTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGG
12449727 TGCCTCTG-TTAGAGGAGCAATTTACTTTTCAAAGTCGGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC-GTGG
12449768 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
12449809 TGCCTCTGTTGAGAGGAGCAATTTAATTTTTCCAAAGTCGT-G
1 TGCCTCTGTTTAGAGGAGCAATTT-ACTTTT-CAAAGTCGTGG
*
12449851 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
12449892 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
12449932 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
12449973 TACCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
* * *
12450015 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* *
12450056 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
12450075 TTCGACAAAA
Statistics
Matches: 396, Mismatches: 13, Indels: 30
0.90 0.03 0.07
Matches are distributed among these distances:
36 5 0.01
37 30 0.08
38 32 0.08
39 5 0.01
40 82 0.21
41 140 0.35
42 93 0.23
43 9 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:12449866 original size:83 final size:81
Alignment explanation
Indices: 12449612--12450074 Score: 576
Period size: 83 Copynumber: 5.7 Consensus size: 81
12449602 TCAAGTTCGT
*
12449612 TGCCTCTGTTTAGAGGAGC-ATTTACTTTC-AAGTTCGT--TG-CTCTGTTTTAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAG-TCGTGGTGCCTCTG-TTTAGAGGAGCAATT
*
12449672 TACTATTTC-AAGTTCGT--
64 TA-TTTTTCAAAG-TCGTGG
*
12449689 TGCCTCTGTTTAGAGGAGCAATTTACTTTC-AAGTTCGT--TGCCTCTG-TTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
12449750 ACTTTTCAAAGTCGGTGG
65 ATTTTTCAAAGTC-GTGG
* *
12449768 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
12449833 AATTTTTCCAAAGTCGT-G
65 -ATTTTT-CAAAGTCGTGG
* *
12449851 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
*
12449916 A-CTTTCAAAGTCGTGG
65 ATTTTTCAAAGTCGTGG
* *
12449932 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
12449997 ATTTTTCCAAAGTCGTGG
65 ATTTTT-CAAAGTCGTGG
* * * *
12450015 TACCTCTGTTGAGAGGAGCAATTTACTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
12450075 TTCGACAAAA
Statistics
Matches: 355, Mismatches: 14, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
76 6 0.02
77 40 0.11
78 20 0.06
79 31 0.09
80 17 0.05
81 71 0.20
82 16 0.05
83 140 0.39
84 7 0.02
85 7 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (81 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
TTTTTCAAAGTCGTGG
Found at i:12450087 original size:1 final size:1
Alignment explanation
Indices: 12450081--12450232 Score: 169
Period size: 1 Copynumber: 152.0 Consensus size: 1
12450071 GAGCTTCGAC
* * *
12450081 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * ***
12450146 ACAAAAAAAAAAAAAAAACAAAAAAAACAAAAACAAAAAAACAAAAATTTAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** *
12450211 CAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
12450233 TGTTGAGTTG
Statistics
Matches: 126, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 126 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:12450153 original size:48 final size:46
Alignment explanation
Indices: 12450079--12450232 Score: 211
Period size: 48 Copynumber: 3.3 Consensus size: 46
12450069 AGGAGCTTCG
12450079 ACAAAAAAAAAAAA-AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
12450124 ACAAACAAAAAAAAACAAAAAAACAAAAAAAAAAAAAAAACAAAAAAA
1 ACAAA-AAAAAAAAACAAAAAAA-AAAAAAAAAAAAAAAAAAAAAAAA
*** *
12450172 ACAAAAACAAAAAAACAAAAATTTAAAAAAAAAAAAAAACAAAAAAA
1 ACAAAAA-AAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
12450219 TCAAAAAATAAAAA
1 ACAAAAAAAAAAAA
12450233 TGTTGAGTTG
Statistics
Matches: 99, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
45 5 0.05
46 15 0.15
47 38 0.38
48 41 0.41
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (46 bp):
ACAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:12450629 original size:11 final size:11
Alignment explanation
Indices: 12450607--12450645 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
12450597 ATTATCTAGA
12450607 TTTTTTTT--T
1 TTTTTTTTAAT
12450616 TTTTTTTTAAT
1 TTTTTTTTAAT
*
12450627 TTTATTTTAAT
1 TTTTTTTTAAT
12450638 TTTTTTTT
1 TTTTTTTT
12450646 GGAGAGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:12451080 original size:19 final size:20
Alignment explanation
Indices: 12451050--12451092 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
12451040 TGCCCAGTTT
12451050 CCGGCGAAGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
12451070 CCGGC-AAGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
12451089 CCGG
1 CCGG
12451093 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.37, C:0.33, G:0.26, T:0.05
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:12451127 original size:61 final size:63
Alignment explanation
Indices: 12451048--12451164 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 63
12451038 ACTGCCCAGT
* *
12451048 TTCCGGCGAAGAATCCCAGAAACCGGC-AAGAA-TCCCAGAAACCGGTGAAT-TTCCGGCCAAC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAA-AATTCCCAGAAACCGGTGAATCTTCCGGCCAAC
** * *
12451109 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAATTCCCAGAAACCGGTGAATCTTCC
12451165 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 25 0.53
62 18 0.38
63 4 0.09
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (63 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAATTCCCAGAAACCGGTGAATCTTCCGGCCAAC
Found at i:12451153 original size:20 final size:20
Alignment explanation
Indices: 12451110--12451154 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12451100 CCGGCCAACT
*
12451110 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
12451130 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
12451150 TCCGG
1 TCCGG
12451155 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:12451417 original size:14 final size:15
Alignment explanation
Indices: 12451398--12451439 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
12451388 CCGAGCCGAG
12451398 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
12451412 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
12451425 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
12451439 C
1 C
12451440 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:12451430 original size:13 final size:14
Alignment explanation
Indices: 12451398--12451434 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
12451388 CCGAGCCGAG
12451398 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
12451412 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
12451424 TCCGAGCCGTT
1 -CCGAGCCGTT
12451435 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:12451928 original size:151 final size:151
Alignment explanation
Indices: 12451543--12451994 Score: 755
Period size: 151 Copynumber: 3.0 Consensus size: 151
12451533 CTTGATTTTT
*
12451543 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAA-TAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
12451608 ATACTCCTTGAGGTGAGGAAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
65 ATACTCC-TGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
*
12451673 ATTTTCGATAATTAATTAATTGGATGA
129 A-TTTC--CAA-TAATTAATTGGATGA
* *
12451700 TTTTGATTTTTCTTTAATAATCCGACGACGGAGCCTCTGCAGGTGAAACAGTAGTTTTTCTTGCA
1 TTTTGTTTTTTCTTTAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCA
12451765 TACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
66 TACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
12451830 TTCCAATAATTAATTGGATGA
131 TTCCAATAATTAATTGGATGA
*
12451851 TTTTGTTTTTTCTTTAATAAATCTGACGACGGAGCC-CTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAAT-AATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
12451915 ATACTCCTGAGGTGAGGGAATTTTCTCAA-TTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
65 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
12451979 TTTCCAACAACTAATT
130 TTTCCAATAATTAATT
12451995 ACTTGGTAAA
Statistics
Matches: 284, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
150 49 0.17
151 88 0.31
152 18 0.06
154 4 0.01
155 57 0.20
156 53 0.19
157 15 0.05
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (151 bp):
TTTTGTTTTTTCTTTAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCA
TACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAAT
TTCCAATAATTAATTGGATGA
Found at i:12453223 original size:3 final size:3
Alignment explanation
Indices: 12453215--12453262 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
12453205 CCTTCTCTTT
12453215 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12453262 T
1 T
12453263 CATAAACAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12454793 original size:11 final size:10
Alignment explanation
Indices: 12454765--12454792 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
12454755 CCGAGAGCTC
12454765 TTTTTTTTCA
1 TTTTTTTTCA
12454775 TTTTTTTTCA
1 TTTTTTTTCA
12454785 TTTTTTTT
1 TTTTTTTT
12454793 TGCTACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:12457183 original size:23 final size:22
Alignment explanation
Indices: 12457143--12457185 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12457133 AGATTTTAGG
* *
12457143 AGCCAAAAATTAGTGAAAAGGT
1 AGCCAAAAAATAGGGAAAAGGT
12457165 AGCCAAAAACATAGGGAAAAG
1 AGCCAAAAA-ATAGGGAAAAG
12457186 CATATTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.12, G:0.23, T:0.12
Consensus pattern (22 bp):
AGCCAAAAAATAGGGAAAAGGT
Found at i:12458113 original size:27 final size:27
Alignment explanation
Indices: 12458059--12458114 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
12458049 AATATTTTTA
*
12458059 AAATTTTATCAAATTATTGGAATATTT
1 AAATTTTATCAAATTATTGGAAGATTT
*
12458086 AAATTTTATCAAATTATTGGAAGGTTT
1 AAATTTTATCAAATTATTGGAAGATTT
12458113 AA
1 AA
12458115 TGGTCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (27 bp):
AAATTTTATCAAATTATTGGAAGATTT
Found at i:12460209 original size:22 final size:23
Alignment explanation
Indices: 12460159--12460215 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
12460149 GCTATGTTTC
*
12460159 AATTTT-TTTTTAAATAGTTTCT
1 AATTTTATTTTTAAATAGATTCT
*
12460181 AACTTTATTTTT-AATAGGATT-T
1 AATTTTATTTTTAAATA-GATTCT
12460203 AATTTTATATTTT
1 AATTTTAT-TTTT
12460216 TTTATCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (23 bp):
AATTTTATTTTTAAATAGATTCT
Found at i:12477254 original size:20 final size:19
Alignment explanation
Indices: 12477231--12477286 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
12477221 AGTTCGAATA
12477231 TTTTATGAATTTAATTAAAT
1 TTTTATG-ATTTAATTAAAT
* *
12477251 TTTTATG-TTTAAATATAT
1 TTTTATGATTTAATTAAAT
*
12477269 TTTTATTATTTTAATTAA
1 TTTTATGA-TTTAATTAA
12477287 TAAAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATGATTTAATTAAAT
Found at i:12477463 original size:17 final size:18
Alignment explanation
Indices: 12477434--12477470 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
12477424 AATTTCGAAT
12477434 TTTAAATTTTGAATTGAA
1 TTTAAATTTTGAATTGAA
*
12477452 TTTAAA-TTTGAATTTAA
1 TTTAAATTTTGAATTGAA
12477469 TT
1 TT
12477471 ATATATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTAAATTTTGAATTGAA
Found at i:12481273 original size:15 final size:13
Alignment explanation
Indices: 12481245--12481270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12481235 TATTTCGTAA
12481245 AAAAATGATTTTT
1 AAAAATGATTTTT
12481258 AAAAATGATTTTT
1 AAAAATGATTTTT
12481271 TTATATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAAATGATTTTT
Found at i:12481331 original size:22 final size:22
Alignment explanation
Indices: 12481297--12481346 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12481287 TTTATTTGGT
*
12481297 AAAA-AATTAATTAATCAATGA
1 AAAATAATTAATTAATCAACGA
* * *
12481318 AATATAATTTATTAGTCAACGA
1 AAAATAATTAATTAATCAACGA
12481340 AAAATAA
1 AAAATAA
12481347 AGTTATTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATAATTAATTAATCAACGA
Found at i:12481906 original size:17 final size:18
Alignment explanation
Indices: 12481886--12481950 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 18
12481876 TTTTTACTAT
12481886 TTTAATAAT-TAATATTA
1 TTTAATAATATAATATTA
12481903 TTTAATATGATAATAATATTA
1 TTTAATA--AT-ATAATATTA
12481924 TTTTAATAATATGAATA-T-
1 -TTTAATAATAT-AATATTA
12481942 TTTAATAAT
1 TTTAATAAT
12481951 TTTTTAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
17 16 0.38
19 5 0.12
20 6 0.14
21 8 0.19
22 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTAATAATATAATATTA
Found at i:12481921 original size:21 final size:23
Alignment explanation
Indices: 12481890--12481931 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12481880 TACTATTTTA
12481890 ATAATTAATATTA-TTTAATATG
1 ATAATTAATATTATTTTAATATG
12481912 ATAA-TAATATTATTTTAATA
1 ATAATTAATATTATTTTAATA
12481932 ATATGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTAATATTATTTTAATATG
Found at i:12482171 original size:31 final size:30
Alignment explanation
Indices: 12482106--12482171 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
12482096 AATAGTATGA
* **
12482106 ATTTTTTTATTATTAATAATAAATATTATT
1 ATTTTTTTATTATTAATAATAAATAATACC
*
12482136 ATTTTTATTATTTTTAATTAATAAA-AATACC
1 ATTTTT-TTATTATTAA-TAATAAATAATACC
12482167 ATTTT
1 ATTTT
12482172 AAGATGAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 6 0.20
31 17 0.57
32 7 0.23
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTTTTTTATTATTAATAATAAATAATACC
Found at i:12482282 original size:14 final size:14
Alignment explanation
Indices: 12482259--12482297 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
12482249 AATATTTTAG
*
12482259 TATT-AAATATATT
1 TATTAAAATATAAT
12482272 TATTAAAATATAAT
1 TATTAAAATATAAT
12482286 TATTATAAATAT
1 TATTA-AAATAT
12482298 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTAAAATATAAT
Found at i:12482321 original size:30 final size:31
Alignment explanation
Indices: 12482273--12482331 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
12482263 AAATATATTT
*
12482273 ATTAAAATATAATTATTATA-AATATTAAAA
1 ATTAAAATATAATAATTATACAATATTAAAA
* *
12482303 ATTAATATTTAATAATTATATCAATATTA
1 ATTAAAATATAATAATTATA-CAATATTA
12482332 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
32 7 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
ATTAAAATATAATAATTATACAATATTAAAA
Found at i:12482840 original size:20 final size:21
Alignment explanation
Indices: 12482815--12482864 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
12482805 TTTTAATAGA
*
12482815 TTTTTTGTATGTATATTTT-T
1 TTTTTTGTATGCATATTTTCT
12482835 TTTTTT-TA-GCATATTTTCT
1 TTTTTTGTATGCATATTTTCT
12482854 TTATTTTGTAT
1 TT-TTTTGTAT
12482865 ATAAATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 10 0.40
21 2 0.08
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (21 bp):
TTTTTTGTATGCATATTTTCT
Found at i:12482866 original size:18 final size:17
Alignment explanation
Indices: 12482824--12482866 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
12482814 ATTTTTTGTA
*
12482824 TGTATATTTTTTTTTTT
1 TGTATATTTTTTTATTT
*
12482841 TAGCATATTTTCTTTATTT
1 T-GTATATTTT-TTTATTT
12482860 TGTATAT
1 TGTATAT
12482867 AAATAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.70
Consensus pattern (17 bp):
TGTATATTTTTTTATTT
Found at i:12483676 original size:20 final size:20
Alignment explanation
Indices: 12483639--12483677 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12483629 AGGATCTTTG
* **
12483639 AAAAAGAGAAAGTGAAAATA
1 AAAAAGAAAAAGAAAAAATA
12483659 AAAAAGAAAAAGAAAAAAT
1 AAAAAGAAAAAGAAAAAAT
12483678 GAAGAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAATA
Found at i:12484522 original size:18 final size:18
Alignment explanation
Indices: 12484484--12484521 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12484474 TTTTGAAAAC
12484484 TTTATTTGAAAAGATTTT
1 TTTATTTGAAAAGATTTT
12484502 TTTATTTGAAAAG-TTTT
1 TTTATTTGAAAAGATTTT
12484519 TTT
1 TTT
12484522 TTTAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTATTTGAAAAGATTTT
Done.