Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 123 of 187
Found at i:37241959 original size:23 final size:22
Alignment explanation
Indices: 37241907--37241959 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
37241897 TCCTTGTCTT
*
37241907 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
37241929 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
37241952 TTTCTTTT
1 TTTCTTTT
37241960 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:37241973 original size:18 final size:18
Alignment explanation
Indices: 37241952--37241991 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37241942 CTTTCTTCAA
* * *
37241952 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
37241970 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
37241988 TTTC
1 TTTC
37241992 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:37248306 original size:40 final size:40
Alignment explanation
Indices: 37248257--37248381 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
37248247 AAGGGCACTG
* *
37248257 AAGTGTTTACAAGGGAAAAATTGTGCAAACAAGGACACCA
1 AAGTGTTTACAAGGGCACAATTGTGCAAACAAGGACACCA
* *
37248297 AAGTTTTTACAAGGGCACAATTGTGCAAACAGGGACACCA
1 AAGTGTTTACAAGGGCACAATTGTGCAAACAAGGACACCA
* *
37248337 AAGTGTTTACAGGGGCACAGTTGTGCAAAC-AGGAACACCA
1 AAGTGTTTACAAGGGCACAATTGTGCAAACAAGG-ACACCA
37248377 AAGTG
1 AAGTG
37248382 CAATCAAGGA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (40 bp):
AAGTGTTTACAAGGGCACAATTGTGCAAACAAGGACACCA
Found at i:37248409 original size:20 final size:20
Alignment explanation
Indices: 37248386--37248423 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37248376 AAAGTGCAAT
37248386 CAAGGACATCGAAGTGTATA
1 CAAGGACATCGAAGTGTATA
* *
37248406 CAAGGGCATCGAGGTGTA
1 CAAGGACATCGAAGTGTA
37248424 ATGAAGGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (20 bp):
CAAGGACATCGAAGTGTATA
Found at i:37251349 original size:18 final size:19
Alignment explanation
Indices: 37251304--37251352 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
37251294 GAATATTTAC
*
37251304 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
37251324 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
37251342 ATAAAAATAAA
1 ATAAAAATAAA
37251353 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:37252763 original size:23 final size:23
Alignment explanation
Indices: 37252737--37252789 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
37252727 TAATACATGT
37252737 TTTTAATATGTC-AAGCTACAACA
1 TTTTAATATGTCTAAGCT-CAACA
* *
37252760 TTTTAATGTGTCTTAAGCTGAACA
1 TTTTAATATGTC-TAAGCTCAACA
37252784 TTTTAA
1 TTTTAA
37252790 GTGCAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 10 0.38
25 5 0.19
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (23 bp):
TTTTAATATGTCTAAGCTCAACA
Found at i:37252937 original size:13 final size:13
Alignment explanation
Indices: 37252919--37252943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37252909 TCTAAAAGAA
37252919 AATTTATTTGTTG
1 AATTTATTTGTTG
37252932 AATTTATTTGTT
1 AATTTATTTGTT
37252944 CCAGGTACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
AATTTATTTGTTG
Found at i:37254266 original size:21 final size:21
Alignment explanation
Indices: 37254240--37254279 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37254230 ACGGGGTAAG
37254240 TTTTGAAAAAAAACAAAAAAA
1 TTTTGAAAAAAAACAAAAAAA
*
37254261 TTTTGAAAAAAATCAAAAA
1 TTTTGAAAAAAAACAAAAA
37254280 TATTCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
TTTTGAAAAAAAACAAAAAAA
Found at i:37255330 original size:18 final size:17
Alignment explanation
Indices: 37255262--37255346 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 17
37255252 AAAAAAATTC
*
37255262 AAAAAGAAACAGAGTGTG
1 AAAAAGAAAC-GAGAGTG
* * *
37255280 AGAAAGAAAAGAAAAGTG
1 AAAAAGAAACG-AGAGTG
** *
37255298 AAAAAGAGAGTGAGATTG
1 AAAAAGA-AACGAGAGTG
37255316 AAGAAAGAAACGAGAGTG
1 AA-AAAGAAACGAGAGTG
*
37255334 CAAAAGAAACGAG
1 AAAAAGAAACGAG
37255347 TGTTATGGAA
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
17 12 0.24
18 32 0.63
19 7 0.14
ACGTcount: A:0.58, C:0.05, G:0.29, T:0.08
Consensus pattern (17 bp):
AAAAAGAAACGAGAGTG
Found at i:37274381 original size:19 final size:19
Alignment explanation
Indices: 37274351--37274395 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
37274341 AAGCTCATTT
37274351 TTTAATTATTTAATATATTA
1 TTTAA-TATTTAATATATTA
37274371 TTTAATATTTAATATATTA
1 TTTAATATTTAATATATTA
*
37274390 TGTAAT
1 TTTAAT
37274396 TTACATCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAATATTTAATATATTA
Found at i:37277601 original size:22 final size:24
Alignment explanation
Indices: 37277558--37277601 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
37277548 TAACTAAGCT
37277558 TACTTACTTTTCTAGCTTAATTCA
1 TACTTACTTTTCTAGCTTAATTCA
37277582 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTAGCTTAATT
37277602 TCTTACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAGCTTAATTCA
Found at i:37277951 original size:12 final size:13
Alignment explanation
Indices: 37277934--37277963 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
37277924 TCCCCTTTTC
37277934 TTTTCTTCCCCT-
1 TTTTCTTCCCCTG
37277946 TTTTCTTCCCCTG
1 TTTTCTTCCCCTG
37277959 TTTTC
1 TTTTC
37277964 GTCTCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.37, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTCTTCCCCTG
Found at i:37278217 original size:5 final size:5
Alignment explanation
Indices: 37278198--37278259 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
37278188 TTAGTTTATT
37278198 TAATA T-ATAA TAATA TAATA TAATA TAATAA TTAATA TAATA -AA-A
1 TAATA TAAT-A TAATA TAATA TAATA TAAT-A -TAATA TAATA TAATA
*
37278243 TAAAA TAATA T-ATA TAA
1 TAATA TAATA TAATA TAA
37278260 AACATAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
3 1 0.02
4 10 0.20
5 30 0.61
6 4 0.08
7 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:37278236 original size:22 final size:21
Alignment explanation
Indices: 37278198--37278259 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
37278188 TTAGTTTATT
37278198 TAATAT-ATAATAATATAATA
1 TAATATAATAATAATATAATA
37278218 TAATATAATAATTAATATAATA
1 TAATATAATAA-TAATATAATA
* *
37278240 AAATAAAATAATATATATAA
1 TAATATAATAATA-ATATAA
37278260 AACATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.16
21 6 0.16
22 25 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATAATAATAATATAATA
Found at i:37278238 original size:30 final size:31
Alignment explanation
Indices: 37278202--37278259 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
37278192 TTTATTTAAT
* *
37278202 ATATAATAATATAATATAATATA-ATAATTA
1 ATATAATAAAATAAAATAATATATATAATTA
37278232 ATATAATAAAATAAAATAATATATATAA
1 ATATAATAAAATAAAATAATATATATAA
37278260 AACATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATAATAAAATAAAATAATATATATAATTA
Found at i:37278269 original size:22 final size:20
Alignment explanation
Indices: 37278206--37278269 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 20
37278196 TTTAATATAT
*
37278206 AATAATATAATATAATATAATA
1 AATAATATAATA-AAAATAA-A
*
37278228 ATTAATATAAT-AAAAT-AA
1 AATAATATAATAAAAATAAA
37278246 AATAATATATATAAAACATAAA
1 AATAATATA-ATAAAA-ATAAA
37278268 AA
1 AA
37278270 CCTAAGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 9 0.26
19 3 0.09
20 7 0.20
21 2 0.06
22 14 0.40
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATATAATAAAAATAAA
Found at i:37279256 original size:22 final size:22
Alignment explanation
Indices: 37279231--37279282 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
37279221 CCAAAATTAC
* *
37279231 ATTCAAATATACCAATTTGGTT
1 ATTCAAAAATACAAATTTGGTT
37279253 ATTCAAAAATACAAATTTGGTT
1 ATTCAAAAATACAAATTTGGTT
37279275 ATTCAAAA
1 ATTCAAAA
37279283 CACAACTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (22 bp):
ATTCAAAAATACAAATTTGGTT
Found at i:37279287 original size:21 final size:22
Alignment explanation
Indices: 37279244--37279287 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37279234 CAAATATACC
*
37279244 AATTTGGTTATTCAAAAATACA
1 AATTTGGTTATTCAAAAACACA
37279266 AATTTGGTTATTC-AAAACACA
1 AATTTGGTTATTCAAAAACACA
37279287 A
1 A
37279288 CTTCAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
AATTTGGTTATTCAAAAACACA
Found at i:37285597 original size:45 final size:45
Alignment explanation
Indices: 37285528--37285711 Score: 216
Period size: 45 Copynumber: 4.1 Consensus size: 45
37285518 TAGTGTACCG
* *
37285528 GGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCA
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCA
* * *
37285573 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCGCCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCA
* *
37285618 GGTA-CTATTAATTATGAAGGTGGTTGCTATGTGCTGATTCCACC-
1 GGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCA
* *
37285662 GAGTATCATTGACTAT-AAGAGTGG-TGCTATGTGTTGA-TCCACCA
1 G-GTATCATTGATTATAAAG-GTGGTTGCTATGTGCTGATTCCACCA
*
37285706 TGTATC
1 GGTATC
37285712 TGTTATTATT
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
43 11 0.09
44 17 0.14
45 94 0.76
46 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCA
Found at i:37285686 original size:90 final size:89
Alignment explanation
Indices: 37285525--37285699 Score: 246
Period size: 90 Copynumber: 2.0 Consensus size: 89
37285515 TACTAGTGTA
* * *
37285525 CCGGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCAGGTATCATTGATTATAA
1 CCGGGTACCATTAATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAGGTATCATTGACTATAA
*
37285590 AGGTGGTTGCTGTGTGCTGATTCCG
66 AGGTGG-TGCTATGTGCTGATTCCG
* *
37285615 CCGGGTACTATTAATTATGAAGGTGGTTGCTATGTGCTGATTCCACC-GAGTATCATTGACTAT-
1 CCGGGTACCATTAATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAG-GTATCATTGACTATA
*
37285678 AAGAGTGGTGCTATGTGTTGAT
65 AAG-GTGGTGCTATGTGCTGAT
37285700 CCACCATGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 16 0.21
90 60 0.79
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (89 bp):
CCGGGTACCATTAATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAGGTATCATTGACTATAA
AGGTGGTGCTATGTGCTGATTCCG
Found at i:37295103 original size:19 final size:19
Alignment explanation
Indices: 37295081--37295140 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
37295071 TATATATACT
37295081 AATATATAAAAATATATAA
1 AATATATAAAAATATATAA
37295100 AATAT-TAGAATATATATAATAA
1 AATATATA-AA-A-ATAT-ATAA
* *
37295122 AATAGAT-ATAATATATAA
1 AATATATAAAAATATATAA
37295140 A
1 A
37295141 TAAATTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
18 7 0.21
19 11 0.32
20 2 0.06
21 5 0.15
22 8 0.24
23 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AATATATAAAAATATATAA
Found at i:37295566 original size:13 final size:13
Alignment explanation
Indices: 37295548--37295575 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37295538 GTTATTCATA
37295548 ATTAATATGAATT
1 ATTAATATGAATT
37295561 ATTAATATGAATT
1 ATTAATATGAATT
37295574 AT
1 AT
37295576 AAACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:37295871 original size:17 final size:17
Alignment explanation
Indices: 37295849--37295887 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
37295839 CTGACTCCAT
*
37295849 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
37295866 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
37295883 TTTTA
1 TTTTA
37295888 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:37297401 original size:48 final size:47
Alignment explanation
Indices: 37297349--37297459 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
37297339 AGGTGGAAGA
37297349 ATGTGGCAGTATATCTACAAAAGTAGTGGCCTATCCACAAATGTT-ATT
1 ATGTGGCAGTATATCTACAAAAGTAGTGGCCTATCCAC--ATGTTGATT
* * * * * *
37297397 ATGTGGCAGTATATTTGCAAAAGTGGTGGCTTGTCCACATTTTGATT
1 ATGTGGCAGTATATCTACAAAAGTAGTGGCCTATCCACATGTTGATT
*
37297444 ATGTGGCAGTTTATCT
1 ATGTGGCAGTATATCT
37297460 GCATTACCGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 4 0.07
47 17 0.31
48 33 0.61
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (47 bp):
ATGTGGCAGTATATCTACAAAAGTAGTGGCCTATCCACATGTTGATT
Found at i:37298974 original size:26 final size:26
Alignment explanation
Indices: 37298938--37299020 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
37298928 CACGCCCGTA
*
37298938 CTGTGAAATGAGTATGCTCACATGAG
1 CTGTGAAATGAGTATGCTCACACGAG
* *
37298964 CTGTGAAATGAGTATGCTCATACGAT
1 CTGTGAAATGAGTATGCTCACACGAG
* ** *
37298990 CTGTGAAATGGGCCTGCTCACACGAC
1 CTGTGAAATGAGTATGCTCACACGAG
37299016 CTGTG
1 CTGTG
37299021 GGTTTGAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (26 bp):
CTGTGAAATGAGTATGCTCACACGAG
Found at i:37311706 original size:39 final size:39
Alignment explanation
Indices: 37311649--37311997 Score: 410
Period size: 39 Copynumber: 8.9 Consensus size: 39
37311639 CACGGCACAA
* * ** * **
37311649 AAGTGCTATCAGGAGTACTGAAGTGTAATAGGGGCATAT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
37311688 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* *
37311727 AAGTGCGATCAGGGGTACTGAAGTAAAATAGGGGCACGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* ** * * *
37311766 AAGTGCAATCAGGGGTACCAAAGTAAAATAGGGGCAAGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* *
37311805 AAGTGTGATCAGGGGTACTGAAGTACAACAGGGGCATGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* * * *
37311844 AAGTACGATTAGGGGTGCTGAAGTACAACAAGGGCACGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* ** * * *
37311883 AAGTGCGATCAGAGGTACCAAAATACAATAGGGGCTCGT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* *
37311922 AAGTGCGATCAGGGGTACTGTAGTACAACAGGGGCACAT
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
* **
37311961 AAGTGCGATCAGGGGTACCGAAGTATGACAGGGGCAC
1 AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCAC
37311998 CGAAGTATGA
Statistics
Matches: 262, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 262 1.00
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGT
Found at i:37312022 original size:19 final size:19
Alignment explanation
Indices: 37311970--37312016 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
37311960 TAAGTGCGAT
*
37311970 CAGGGGTACCGAAGTATGA
1 CAGGGGCACCGAAGTATGA
37311989 CAGGGGCACCGAAGTATGA
1 CAGGGGCACCGAAGTATGA
37312008 CAGGGGCAC
1 CAGGGGCAC
37312017 GTAAGTGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.38, T:0.11
Consensus pattern (19 bp):
CAGGGGCACCGAAGTATGA
Found at i:37312032 original size:39 final size:39
Alignment explanation
Indices: 37311989--37312068 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
37311979 CGAAGTATGA
** *
37311989 CAGGGGCACCGAAGTATGACAGGGGCACGTAAGTGCGAT
1 CAGGGGCACCGAAGTACAACAAGGGCACGTAAGTGCGAT
* * * *
37312028 CAGGGGTACCTAAGTACAATAAGGGCATGTAAGTGCGAT
1 CAGGGGCACCGAAGTACAACAAGGGCACGTAAGTGCGAT
37312067 CA
1 CA
37312069 AAGAGAGAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (39 bp):
CAGGGGCACCGAAGTACAACAAGGGCACGTAAGTGCGAT
Found at i:37312033 original size:117 final size:117
Alignment explanation
Indices: 37311675--37311997 Score: 459
Period size: 117 Copynumber: 2.8 Consensus size: 117
37311665 ACTGAAGTGT
37311675 AATAGGGGCATA-TAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAG
1 AATAGGGGCA-AGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAG
* * *
37311739 GGGTACTGAAGTAAAATAGGGGCACGTAAGTGCAATCAGGGGTACCAAAGTAA
65 GGGTACTGAAGTAAAACAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
* * * *
37311792 AATAGGGGCAAGTAAGTGTGATCAGGGGTACTGAAGTACAACAGGGGCATGTAAGTACGATTAGG
1 AATAGGGGCAAGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
* * * * *
37311857 GGTGCTGAAGTACAACAAGGGCACGTAAGTGCGATCAGAGGTACCAAAATAC
66 GGTACTGAAGTAAAACAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
** * *
37311909 AATAGGGGCTCGTAAGTGCGATCAGGGGTACTGTAGTACAACAGGGGCACATAAGTGCGATCAGG
1 AATAGGGGCAAGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
* **
37311974 GGTACCGAAGTATGACAGGGGCAC
66 GGTACTGAAGTAAAACAGGGGCAC
37311998 CGAAGTATGA
Statistics
Matches: 180, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
116 1 0.01
117 179 0.99
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.17
Consensus pattern (117 bp):
AATAGGGGCAAGTAAGTGCGATCAGGGGTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGG
GGTACTGAAGTAAAACAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTAC
Found at i:37317705 original size:50 final size:50
Alignment explanation
Indices: 37317628--37317807 Score: 216
Period size: 50 Copynumber: 3.6 Consensus size: 50
37317618 TTAAGGGAAT
*
37317628 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
* *
37317678 GTGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
** * * * * *
37317728 GAGGTCCCCCGTAAGACCATGTCTTGGACATGACATGGGCACCGATATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
** * *
37317778 GAAACATCCCATATAAGACCATATCTGGGA
1 G--AGGTCCCATGTAAGACCATGTCTGGGA
37317808 TATGACATTG
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
50 89 0.82
52 20 0.18
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAA
Found at i:37321073 original size:38 final size:38
Alignment explanation
Indices: 37320952--37321100 Score: 140
Period size: 38 Copynumber: 3.9 Consensus size: 38
37320942 TAAAGACATG
* * * * *
37320952 TATTAAAGACGTCTAAACTAGGACATATTTAAAACAT-A
1 TATTAAAGATGTTTAAATTATGACATAATTAAAAC-TCA
* * * * *
37320990 TATTTAAGATGTCCTAAACTATGACATAATTCAAAACCCT
1 TATTAAAGATGT-TTAAATTATGACATAATT-AAAACTCA
*
37321030 TATTAAAGATGTTTAGATTATGACATAATTAAAACTCA
1 TATTAAAGATGTTTAAATTATGACATAATTAAAACTCA
*
37321068 TATTAATA-ATGTTCAAATTATGACATAATTAAA
1 TATTAA-AGATGTTTAAATTATGACATAATTAAA
37321101 GACTTAAACT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 45 0.48
39 32 0.34
40 16 0.17
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (38 bp):
TATTAAAGATGTTTAAATTATGACATAATTAAAACTCA
Found at i:37323387 original size:38 final size:38
Alignment explanation
Indices: 37323340--37323416 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
37323330 GATAACTCCA
*
37323340 CAATCCCATATATTCCTCCTAAAATCACTCTAACACTC
1 CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
* *
37323378 CAATCCCATATTTTCTTCCTAAAATCACTCCAACACTC
1 CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
37323416 C
1 C
37323417 CCCACCACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.30
Consensus pattern (38 bp):
CAATCCCATATATTCCTCCTAAAATCACTCCAACACTC
Found at i:37325467 original size:41 final size:41
Alignment explanation
Indices: 37325406--37325523 Score: 182
Period size: 41 Copynumber: 2.9 Consensus size: 41
37325396 GCTCTGTGCT
37325406 TAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
1 TAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
* *
37325447 TAGTAGGCTTCATGCCGGTGTACCATATCAGACTTTATGCC
1 TAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
** * *
37325488 TAGCAGGCTTTGTGCCGGTGTATCATATCTGGCTTT
1 TAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTT
37325524 GTTCCTAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCC
Found at i:37325537 original size:41 final size:41
Alignment explanation
Indices: 37325410--37325544 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
37325400 TGTGCTTAGC
* *
37325410 AGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGT
1 AGGCTTTATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
* * *
37325451 AGGCTTCATGCCGGTGTACCATATCAGACTTTATGCCTAGC
1 AGGCTTTATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
* * * * * *
37325492 AGGCTTTGTGCCGGTGTATCATATCTGGCTTTGTTCCTAAA
1 AGGCTTTATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
37325533 AGGCTTTATGCC
1 AGGCTTTATGCC
37325545 AAGCTTCGTG
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (41 bp):
AGGCTTTATGCCGGTGTACCATATCAGGCTTTATGCCTAGA
Found at i:37325564 original size:53 final size:53
Alignment explanation
Indices: 37325494--37325597 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
37325484 TGCCTAGCAG
* *
37325494 GCTTTGTGCCGGTGTATCATATCTGGCTTTGTTCCTAAAAGGCTTTATGCCAA
1 GCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAAAGGCTTTATGCCAA
* * **
37325547 GCTTCGTGTCGGTGTATCATATTTGGCTTTGTCCCTCGAAGGCTTTATGCC
1 GCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAAAGGCTTTATGCC
37325598 GGTGTATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.38
Consensus pattern (53 bp):
GCTTCGTGCCGGTGTATCATATCTGGCTTTGTCCCTAAAAGGCTTTATGCCAA
Found at i:37335187 original size:72 final size:72
Alignment explanation
Indices: 37335066--37335241 Score: 253
Period size: 72 Copynumber: 2.4 Consensus size: 72
37335056 TCAGCTTAGA
* * * * * *
37335066 AAAAATGCATTAGCAGCCTCCTCTTTTAATGTCGTCCCAAGTCCCATGCACACATTAAATTTGGT
1 AAAAATGCAGTAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAAGTTGGT
*
37335131 AGCTTGG
66 AACTTGG
*
37335138 AAAGATGCAGTAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAAGTTGGT
1 AAAAATGCAGTAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAAGTTGGT
37335203 AACTTGG
66 AACTTGG
* *
37335210 AAAAATGTAGCAGCAACCTTTCTCTTTAAATG
1 AAAAATGCAGTAGCAACC-TTCTCTTTAAATG
37335242 TGGTCCATGT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 79 0.86
73 13 0.14
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (72 bp):
AAAAATGCAGTAGCAACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAAGTTGGT
AACTTGG
Found at i:37338442 original size:16 final size:15
Alignment explanation
Indices: 37338421--37338462 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
37338411 TGGATCACTT
37338421 TTTTTTTAATTTCGAA
1 TTTTTTTAATTTC-AA
*
37338437 TTTTTTT-ATCTCAA
1 TTTTTTTAATTTCAA
37338451 TTTTTTTGAATT
1 TTTTTTT-AATT
37338463 CTTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTTTTTAATTTCAA
Found at i:37338452 original size:14 final size:16
Alignment explanation
Indices: 37338421--37338457 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
37338411 TGGATCACTT
*
37338421 TTTTTTTAATTTCGAA
1 TTTTTTTAATCTCGAA
37338437 TTTTTTT-ATCTC-AA
1 TTTTTTTAATCTCGAA
37338451 TTTTTTT
1 TTTTTTT
37338458 GAATTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTTTAATCTCGAA
Found at i:37338476 original size:26 final size:25
Alignment explanation
Indices: 37338434--37338484 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
37338424 TTTTAATTTC
37338434 GAATTTTTTTATCTC-AATTTTTTT
1 GAATTTTTTTATCTCAAATTTTTTT
*
37338458 GAATTCTTTTTAATTTCAAATTTTTTT
1 GAATT-TTTTT-ATCTCAAATTTTTTT
37338485 TAAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 5 0.22
26 4 0.17
27 9 0.39
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (25 bp):
GAATTTTTTTATCTCAAATTTTTTT
Found at i:37338484 original size:17 final size:17
Alignment explanation
Indices: 37338459--37338494 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37338449 AATTTTTTTG
*
37338459 AATTCTTTTTAATTTCA
1 AATTCTTTTTAAATTCA
*
37338476 AATTTTTTTTAAATTCA
1 AATTCTTTTTAAATTCA
37338493 AA
1 AA
37338495 AATCTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTCTTTTTAAATTCA
Found at i:37339661 original size:72 final size:72
Alignment explanation
Indices: 37339565--37339728 Score: 240
Period size: 72 Copynumber: 2.3 Consensus size: 72
37339555 TTGCATCAGT
* *
37339565 AACCTCCTCTTTTAATGCCGTCCCAAGTCCCATGCACACATTAAATTCTA-CAGCTTGGAAAAAT
1 AACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTC-AGCAGCTTGGAAAAAT
* *
37339629 GTAGCAGC
65 GCAGCAAC
* *
37339637 AACCTTCTCTTTAAATGCCGTCCCAAGTCCCATTCACACATTAAATTCAGTAGCTTGGAAAAATG
1 AACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTCAGCAGCTTGGAAAAATG
37339702 CAGCAAC
66 CAGCAAC
*
37339709 AACGTTTCTCTTTAAATGCC
1 AAC-CTTCTCTTTAAATGCC
37339729 ATCCATGTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.01
72 67 0.81
73 15 0.18
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (72 bp):
AACCTTCTCTTTAAATGCCGTCCCAAGTCCCATGCACACATTAAATTCAGCAGCTTGGAAAAATG
CAGCAAC
Found at i:37344492 original size:33 final size:33
Alignment explanation
Indices: 37344455--37344530 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
37344445 ATAACCTGGT
37344455 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
*
37344488 TATGGTCTTATCATTAGAATGTCATAGCCCAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
37344521 TATGGTCTTA
1 TATGGTCTTA
37344531 CATATATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (33 bp):
TATGGTCTTATCATTAGAATGCCATAGCCCAGC
Found at i:37353740 original size:25 final size:24
Alignment explanation
Indices: 37353695--37353799 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 24
37353685 ATTGGGGTAT
*
37353695 CGATTCTCAGCTAGT-ATGAGCTTAC
1 CGATT-TCAGCTCGTGA-GAGCTTAC
*
37353720 CGACTTGCAGCTCGTGAGAGCTTAC
1 CGA-TTTCAGCTCGTGAGAGCTTAC
**
37353745 CGATTCTCATTTCGT-ATGAGCTTAC
1 CGATT-TCAGCTCGTGA-GAGCTTAC
* *
37353770 CAAATTTCAGCTCGTGAGAGCATAC
1 C-GATTTCAGCTCGTGAGAGCTTAC
*
37353795 AGATT
1 CGATT
37353800 CATAGCTCGT
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
24 6 0.10
25 50 0.79
26 7 0.11
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (24 bp):
CGATTTCAGCTCGTGAGAGCTTAC
Found at i:37353815 original size:50 final size:50
Alignment explanation
Indices: 37353696--37353815 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
37353686 TTGGGGTATC
* * * * *
37353696 GATTCTCAGCTAGTATGAGCTTACCGACTTGCAGCTCGTGAGAGCTTACC
1 GATTCTCAGCTCGTATGAGCTTACCAAATTGCAGCTCGTGAGAGCATACA
** *
37353746 GATTCTCATTTCGTATGAGCTTACCAAATTTCAGCTCGTGAGAGCATACA
1 GATTCTCAGCTCGTATGAGCTTACCAAATTGCAGCTCGTGAGAGCATACA
*
37353796 GATTCAT-AGCTCGTTTGAGC
1 GATTC-TCAGCTCGTATGAGC
37353816 ATACATACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 57 0.98
51 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (50 bp):
GATTCTCAGCTCGTATGAGCTTACCAAATTGCAGCTCGTGAGAGCATACA
Found at i:37355509 original size:49 final size:49
Alignment explanation
Indices: 37355437--37355564 Score: 186
Period size: 49 Copynumber: 2.6 Consensus size: 49
37355427 ACATGCCAAA
* * * *
37355437 GCCATGTCCCAGACAAGGTCTTACATGGGATGTTTCCTGTACTACT-AAT
1 GCCATATCCCAGATATGGTCTTACATGGGATATTTCCTGTACT-CTCAAT
* *
37355486 GCCATATCCCAGATATGGTCTTACCTGGGATATTTCCTGTACTGTCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATATTTCCTGTACTCTCAAT
37355535 GCCATATCCCAGATATGGTCTTACATGGGA
1 GCCATATCCCAGATATGGTCTTACATGGGA
37355565 GTTCCCATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 70 0.99
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACATGGGATATTTCCTGTACTCTCAAT
Found at i:37356833 original size:59 final size:59
Alignment explanation
Indices: 37356762--37356893 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 59
37356752 ATCACTTTAA
* * *
37356762 TATTAAATTAATATAATATTTA-TA-AAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAA-C
* *
37356820 TTATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAAC
1 -TATTAAAATAATATAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAAAC
37356881 TATT-AAATAATAT
1 TATTAAAATAATAT
37356894 TATTTTTGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 27 0.42
60 4 0.06
61 3 0.05
62 30 0.47
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (59 bp):
TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAAC
Found at i:37359769 original size:25 final size:25
Alignment explanation
Indices: 37359715--37359785 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
37359705 CCAATTAAAG
*
37359715 CTCGTAAGAGCTTATCGATTCTCAG
1 CTCGTAAGAGCTTATCGATTCTCAA
* * *
37359740 TTCGTATGAGCTTATTGATT-TACAA
1 CTCGTAAGAGCTTATCGATTCT-CAA
* * *
37359765 CTCGTGAGAGCATACCGATTC
1 CTCGTAAGAGCTTATCGATTC
37359786 ATAGCTCGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (25 bp):
CTCGTAAGAGCTTATCGATTCTCAA
Found at i:37362281 original size:27 final size:27
Alignment explanation
Indices: 37362011--37362282 Score: 276
Period size: 27 Copynumber: 10.1 Consensus size: 27
37362001 CAAACAGTGA
* *
37362011 CAGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
* * *
37362038 TAGTCATTTTACCCTACAGGAGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
37362065 CAGTCATTTTACCCTACGGGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
* * * * *
37362092 TAGTAATTTTACCCTACGAGAGTATCT
1 CAGTCATTTTACCCTACGGGGGTATTT
*
37362119 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTACGGGGGTATTT
* * **
37362146 CGGTCATTTTACCATATAGGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
* * *
37362173 TAGTCATTTTATCGTACGGGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
** * *
37362200 TGGTCACTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
* * * *
37362227 CAGTCATTTTATCTTATGAGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
* *
37362254 CGGTCATTTTATCCTACGGGGGTATTT
1 CAGTCATTTTACCCTACGGGGGTATTT
37362281 CA
1 CA
37362283 ACCCTTTATC
Statistics
Matches: 200, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.00
27 198 0.99
28 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGTCATTTTACCCTACGGGGGTATTT
Found at i:37362375 original size:10 final size:10
Alignment explanation
Indices: 37362360--37362387 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
37362350 ATAGTGTAAA
37362360 TGGGCCCAAG
1 TGGGCCCAAG
37362370 TGGGCCCAAG
1 TGGGCCCAAG
37362380 TGGGCCCA
1 TGGGCCCA
37362388 CACGCCTGTG
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:0.18, C:0.32, G:0.39, T:0.11
Consensus pattern (10 bp):
TGGGCCCAAG
Found at i:37367946 original size:54 final size:54
Alignment explanation
Indices: 37367864--37368140 Score: 279
Period size: 54 Copynumber: 5.1 Consensus size: 54
37367854 CAGAGAGGTT
* *
37367864 GTAAAATTACTGAAATA-CCCTGAAAGGGTGAAATTACCGAAATACCCTCGAAGG
1 GTAAAATTACTGAAATACCCCTG-AAGGGTAAAATGACCGAAATACCCTCGAAGG
** * * *
37367918 GTAAAATTACTGAAATACCATTGAAGGGTAAAATTACAGAAATACCCTCAAAGG
1 GTAAAATTACTGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGG
* * ** * * * *
37367972 GTAAAATTACTTAAATACCCTTGAAAAGTATAATGATCAAAATACACTCGAAGG
1 GTAAAATTACTGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGG
* * * *
37368026 GTAAAATTATTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTCGATGG
1 GTAAAATTACTGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGG
* * * ** * * *
37368080 GTAAAATGACCGTAACGCCCCTGTAGGGTAAAATGACCGTAATA-CCTCTATAGG
1 GTAAAATTACTGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGA-AGG
37368134 GTAAAAT
1 GTAAAAT
37368141 GATCGTAATG
Statistics
Matches: 181, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
53 5 0.03
54 173 0.96
55 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (54 bp):
GTAAAATTACTGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCGAAGG
Found at i:37368089 original size:27 final size:27
Alignment explanation
Indices: 37367864--37368086 Score: 252
Period size: 27 Copynumber: 8.3 Consensus size: 27
37367854 CAGAGAGGTT
37367864 GTAAAATTACTGAAATACCCT-GAAAGG
1 GTAAAATTACTGAAATACCCTCG-AAGG
* *
37367891 GTGAAATTACCGAAATACCCTCGAAGG
1 GTAAAATTACTGAAATACCCTCGAAGG
* *
37367918 GTAAAATTACTGAAATACCATTGAAGG
1 GTAAAATTACTGAAATACCCTCGAAGG
* *
37367945 GTAAAATTACAGAAATACCCTCAAAGG
1 GTAAAATTACTGAAATACCCTCGAAGG
* * **
37367972 GTAAAATTACTTAAATACCCTTGAAAA
1 GTAAAATTACTGAAATACCCTCGAAGG
* * * *
37367999 GTATAATGA-TCAAAATACACTCGAAGG
1 GTAAAATTACT-GAAATACCCTCGAAGG
* *
37368026 GTAAAATTATTGAAATACCCCCGAAGG
1 GTAAAATTACTGAAATACCCTCGAAGG
* *
37368053 GTAAAATGACTGAAATACCCTCGATGG
1 GTAAAATTACTGAAATACCCTCGAAGG
37368080 GTAAAAT
1 GTAAAAT
37368087 GACCGTAACG
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 158 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (27 bp):
GTAAAATTACTGAAATACCCTCGAAGG
Found at i:37368108 original size:27 final size:27
Alignment explanation
Indices: 37368078--37368170 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
37368068 TACCCTCGAT
*
37368078 GGGTAAAATGACCGTAACGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
37368105 GGGTAAAATGACCGTAATACCTCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
37368132 GGGTAAAATGATCGTAATGCCGCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
37368159 GGGTAAAATGAC
1 GGGTAAAATGAC
37368171 TATTTTGCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:37368141 original size:54 final size:54
Alignment explanation
Indices: 37368050--37368170 Score: 172
Period size: 54 Copynumber: 2.2 Consensus size: 54
37368040 ATACCCCCGA
*
37368050 AGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATGACCGTAACGCCCCTGT
1 AGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACCGTAACGCCCCTGT
* * * * *
37368104 AGGGTAAAATGACCGTAATA-CCTCTATAGGGTAAAATGATCGTAATGCCGCTGT
1 AGGGTAAAATGACCGAAATACCCTCGAT-GGGTAAAATGACCGTAACGCCCCTGT
37368158 AGGGTAAAATGAC
1 AGGGTAAAATGAC
37368171 TATTTTGCCC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 6 0.10
54 54 0.90
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACCGTAACGCCCCTGT
Found at i:37368255 original size:24 final size:24
Alignment explanation
Indices: 37368188--37368261 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
37368178 CCCCTCGGGG
* *
37368188 TTAAATGATTGATTTGTCTGAGAT
1 TTAAATGATTGATTTGTTTGTGAT
* *
37368212 GTAAATGACTGATTTGTTTGTGAT
1 TTAAATGATTGATTTGTTTGTGAT
*
37368236 TTAAATGATTGATTTATTTGTGAT
1 TTAAATGATTGATTTGTTTGTGAT
37368260 TT
1 TT
37368262 GTATGACTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (24 bp):
TTAAATGATTGATTTGTTTGTGAT
Found at i:37368267 original size:24 final size:24
Alignment explanation
Indices: 37368188--37368273 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
37368178 CCCCTCGGGG
* * * *
37368188 TTAAATGATTGATTTGTCTGAGAT
1 TTAAATGACTGATTTATTTGTGAT
* *
37368212 GTAAATGACTGATTTGTTTGTGAT
1 TTAAATGACTGATTTATTTGTGAT
*
37368236 TTAAATGATTGATTTATTTGTGAT
1 TTAAATGACTGATTTATTTGTGAT
**
37368260 TTGTATGACTGATT
1 TTAAATGACTGATT
37368274 CCGTGCATGG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (24 bp):
TTAAATGACTGATTTATTTGTGAT
Found at i:37368385 original size:27 final size:27
Alignment explanation
Indices: 37368345--37368401 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
37368335 AGTATTGCAT
37368345 TGGTGGCTCTGCCACA-ATCACTGTTAC
1 TGGTGGCTCTGCCACATAT-ACTGTTAC
37368372 TGGTGGCT-TGGCCACATATACTGTTAC
1 TGGTGGCTCT-GCCACATATACTGTTAC
37368399 TGG
1 TGG
37368402 CAACTTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.32
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATACTGTTAC
Found at i:37368427 original size:26 final size:26
Alignment explanation
Indices: 37368389--37368439 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
37368379 TTGGCCACAT
37368389 ATACTGTTACTGGCAACTTTGCTACA
1 ATACTGTTACTGGCAACTTTGCTACA
* *
37368415 ATACTGTTGCTGGCAGCTTTGCTAC
1 ATACTGTTACTGGCAACTTTGCTAC
37368440 GATGCTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAACTTTGCTACA
Found at i:37368454 original size:26 final size:26
Alignment explanation
Indices: 37368399--37368454 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
37368389 ATACTGTTAC
* *
37368399 TGGCAACTTTGCTACAATACTGTTGC
1 TGGCAACTTTGCTACAATACTATTGA
* * *
37368425 TGGCAGCTTTGCTACGATGCTATTGA
1 TGGCAACTTTGCTACAATACTATTGA
37368451 TGGC
1 TGGC
37368455 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (26 bp):
TGGCAACTTTGCTACAATACTATTGA
Found at i:37368493 original size:32 final size:32
Alignment explanation
Indices: 37368448--37368614 Score: 178
Period size: 32 Copynumber: 5.2 Consensus size: 32
37368438 ACGATGCTAT
*
37368448 TGATGGCTT-TGTGCCGATCATATTACCATTAC
1 TGATGG-TTGTGTGCCGATCATATTACTATTAC
* *
37368480 TGATGGTTGTGTGCTGATCATATTAACCATTAC
1 TGATGGTTGTGTGCCGATCATATT-ACTATTAC
* * * * *
37368513 TGATGGCTGTGTACTGATCATATCACTACTAC
1 TGATGGTTGTGTGCCGATCATATTACTATTAC
* *
37368545 T-AGTGGCTT-TATGCCGATCATACTACTATTAC
1 TGA-TGG-TTGTGTGCCGATCATATTACTATTAC
*
37368577 TGATGGTTGTGTGCCGATCATATTACTACTAC
1 TGATGGTTGTGTGCCGATCATATTACTATTAC
37368609 TGATGG
1 TGATGG
37368615 CTTTATGCCA
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.04
32 77 0.68
33 31 0.27
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (32 bp):
TGATGGTTGTGTGCCGATCATATTACTATTAC
Found at i:37368631 original size:32 final size:32
Alignment explanation
Indices: 37368448--37368648 Score: 167
Period size: 32 Copynumber: 6.3 Consensus size: 32
37368438 ACGATGCTAT
* * *
37368448 TGATGGCTTTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTATGCCGATCATATTACTACTAC
* * * *
37368480 TGATGG-TTGTGTGCTGATCATATTAACCATTAC
1 TGATGGCTT-TATGCCGATCATATT-ACTACTAC
* * * * *
37368513 TGATGGCTGTGTACTGATCATATCACTACTAC
1 TGATGGCTTTATGCCGATCATATTACTACTAC
* *
37368545 T-AGTGGCTTTATGCCGATCATACTACTATTAC
1 TGA-TGGCTTTATGCCGATCATATTACTACTAC
*
37368577 TGATGG-TTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTT-TATGCCGATCATATTACTACTAC
* * *
37368609 TGATGGCTTTATGCCAACCATATTACT-GTAC
1 TGATGGCTTTATGCCGATCATATTACTACTAC
*
37368640 TTATGGCTT
1 TGATGGCTT
37368649 GTAGCCATTC
Statistics
Matches: 141, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
31 16 0.11
32 94 0.67
33 30 0.21
34 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (32 bp):
TGATGGCTTTATGCCGATCATATTACTACTAC
Found at i:37381462 original size:51 final size:50
Alignment explanation
Indices: 37381281--37381463 Score: 219
Period size: 51 Copynumber: 3.6 Consensus size: 50
37381271 AAAGTGATGG
* * *
37381281 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA-GA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGG-ATGGTATGA
* * *
37381331 TCACATGTGTAGTACTATGTGCAGGCTAC--CATGCGTAGCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACAT--GTACCGGATGGTAT-GA
* * *
37381382 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGGT-ATGA
37381433 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
37381464 TGTGAACCGA
Statistics
Matches: 114, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 34 0.30
51 71 0.62
52 1 0.01
53 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGGTATGA
Found at i:37381530 original size:45 final size:45
Alignment explanation
Indices: 37381469--37381564 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
37381459 TACTATGTGA
* * *
37381469 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATAATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
37381514 ACCGGACATAATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATAATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
37381559 ACCGAA
1 ACCGAA
37381565 TATCTTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (45 bp):
ACCGAACATAATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37398263 original size:27 final size:27
Alignment explanation
Indices: 37398225--37398444 Score: 257
Period size: 27 Copynumber: 8.1 Consensus size: 27
37398215 AGGATAAAAT
* *
37398225 TACCCTCAAAGGTTAAAATGACCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
37398252 TACCCTCGAAGGGTAAAATGACCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* *
37398279 TACCCCCGAAGGGTAAAATGATCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* *
37398306 TACCC-CTGAAGAGTAAAATGACCAAAA
1 TACCCTC-GAAGGGTAAAATGACCGAAA
*
37398333 TACCCTTGAAGGGTAAAATGACCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* * *
37398360 TAGCCC-C-AGAGGGTAAAATAATCAAAA
1 TA-CCCTCGA-AGGGTAAAATGACCGAAA
*
37398387 TACCCTCGAAGGGTAAAATGATCGAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
* * **
37398414 TACCCCCAAAGGGTAAAATGACTAAAA
1 TACCCTCGAAGGGTAAAATGACCGAAA
37398441 TACC
1 TACC
37398445 TCATTGGGTA
Statistics
Matches: 166, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.03
27 157 0.95
28 4 0.02
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
TACCCTCGAAGGGTAAAATGACCGAAA
Found at i:37398360 original size:81 final size:81
Alignment explanation
Indices: 37398220--37398444 Score: 285
Period size: 81 Copynumber: 2.8 Consensus size: 81
37398210 CTCTAAGGAT
*
37398220 AAAATTACCCTCAAAG-GTTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC
1 AAAA-TACCCTCGAAGAG-TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC
*
37398284 CC-GAAGGGTAAAATGATC
64 CCAG-AGGGTAAAATAATC
* * * *
37398302 GAAATACCC-CTGAAGAGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACCGAAATAGCCC
1 AAAATACCCTC-GAAGAGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCC
37398366 CAGAGGGTAAAATAATC
65 CAGAGGGTAAAATAATC
* * * * **
37398383 AAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTAAAATACC
1 AAAATACCCTCGAAGAGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACC
37398445 TCATTGGGTA
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 116 0.94
82 6 0.05
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.16
Consensus pattern (81 bp):
AAAATACCCTCGAAGAGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCC
AGAGGGTAAAATAATC
Found at i:37398824 original size:28 final size:28
Alignment explanation
Indices: 37398780--37398867 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
37398770 TACTGCACTG
* **
37398780 CACTGTTACTGTATTGGTTTAAGACCCA
1 CACTGCTACTGTATTGGACTAAGACCCA
* * *
37398808 CACTGCTACTGTGTTGGACTAAGGCTCA
1 CACTGCTACTGTATTGGACTAAGACCCA
* * *
37398836 CACTGCTACTTTATTGGGCTAAGGCCCA
1 CACTGCTACTGTATTGGACTAAGACCCA
37398864 CACT
1 CACT
37398868 AATACTGCTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (28 bp):
CACTGCTACTGTATTGGACTAAGACCCA
Found at i:37401423 original size:29 final size:29
Alignment explanation
Indices: 37401386--37401458 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
37401376 TTAGATATTA
* *
37401386 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
*
37401415 TTAATTATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
37401444 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
37401459 ACTAATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:37408100 original size:29 final size:29
Alignment explanation
Indices: 37408063--37408135 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
37408053 TTAGATATTA
* *
37408063 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
*
37408092 TTAATTATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
37408121 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
37408136 ACTAATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:37413405 original size:14 final size:12
Alignment explanation
Indices: 37413379--37413403 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37413369 TAAGGTGTTG
37413379 TGTAATGGATTT
1 TGTAATGGATTT
37413391 TGTAATGGATTT
1 TGTAATGGATTT
37413403 T
1 T
37413404 TTAGGCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
TGTAATGGATTT
Found at i:37415717 original size:32 final size:32
Alignment explanation
Indices: 37415676--37415740 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37415666 ATACTGCGGA
37415676 TTTATTCACTCTCTGAGTTATTGAATATGGTT
1 TTTATTCACTCTCTGAGTTATTGAATATGGTT
37415708 TTTATTCACTCTCTGAGTTATTGAATATGGTT
1 TTTATTCACTCTCTGAGTTATTGAATATGGTT
37415740 T
1 T
37415741 CATGAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (32 bp):
TTTATTCACTCTCTGAGTTATTGAATATGGTT
Found at i:37420576 original size:9 final size:9
Alignment explanation
Indices: 37420562--37420594 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
37420552 TTTTTTTCCT
37420562 CAACCACCA
1 CAACCACCA
37420571 CAACCACCA
1 CAACCACCA
37420580 CAACCACCA
1 CAACCACCA
37420589 CAACCA
1 CAACCA
37420595 ACCCTTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.45, C:0.55, G:0.00, T:0.00
Consensus pattern (9 bp):
CAACCACCA
Found at i:37437788 original size:15 final size:15
Alignment explanation
Indices: 37437768--37437796 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37437758 AGCTCATTCC
37437768 ACATAGCTTGCTATT
1 ACATAGCTTGCTATT
37437783 ACATAGCTTGCTAT
1 ACATAGCTTGCTAT
37437797 CAAATTCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
ACATAGCTTGCTATT
Found at i:37442872 original size:12 final size:12
Alignment explanation
Indices: 37442857--37442891 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37442847 TTCACGAAAT
37442857 TTTTTTTTTGAA
1 TTTTTTTTTGAA
* *
37442869 TTTTTTTTCGAG
1 TTTTTTTTTGAA
37442881 TTTTTTTTTGA
1 TTTTTTTTTGA
37442892 GAAACTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:37443927 original size:21 final size:23
Alignment explanation
Indices: 37443882--37443928 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37443872 TCACCTGCAA
* *
37443882 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
37443905 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
37443926 TAA
1 TAA
37443929 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:37446668 original size:18 final size:18
Alignment explanation
Indices: 37446647--37446694 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
37446637 AAGTTGATGC
37446647 TGCAGAAGAAGAAGTTGT
1 TGCAGAAGAAGAAGTTGT
*
37446665 TGCAGAAGAGGAAGTTGT
1 TGCAGAAGAAGAAGTTGT
**
37446683 TGTTGAAGAAGA
1 TGCAGAAGAAGA
37446695 GAAAGTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (18 bp):
TGCAGAAGAAGAAGTTGT
Found at i:37446695 original size:21 final size:21
Alignment explanation
Indices: 37446660--37446702 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
37446650 AGAAGAAGAA
* *
37446660 GTTGTTGCAGAAGAGGAAGTT
1 GTTGTTGAAGAAGAGAAAGTT
37446681 GTTGTTGAAGAAGAGAAAGTT
1 GTTGTTGAAGAAGAGAAAGTT
37446702 G
1 G
37446703 CTGAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.28
Consensus pattern (21 bp):
GTTGTTGAAGAAGAGAAAGTT
Found at i:37452040 original size:12 final size:12
Alignment explanation
Indices: 37452020--37452059 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
37452010 AAAAAAAGGG
*
37452020 AAAAGAATTCAA
1 AAAAAAATTCAA
37452032 AAAAAAATTC-A
1 AAAAAAATTCAA
37452043 AAAAAAATTCAA
1 AAAAAAATTCAA
37452055 AAAAA
1 AAAAA
37452060 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:37452045 original size:11 final size:11
Alignment explanation
Indices: 37452020--37452081 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
37452010 AAAAAAAGGG
*
37452020 AAAAGAATTCAA
1 AAAAAAATTC-A
37452032 AAAAAAATTCA
1 AAAAAAATTCA
37452043 AAAAAAATTC-
1 AAAAAAATTCA
*
37452053 AAAAAAATTTA
1 AAAAAAATTCA
*
37452064 AAAAAAA-TCG
1 AAAAAAATTCA
37452074 AAAAAAAT
1 AAAAAAAT
37452082 AAAATTTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
10 17 0.39
11 18 0.41
12 9 0.20
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:37452056 original size:21 final size:21
Alignment explanation
Indices: 37452032--37452081 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
37452022 AAGAATTCAA
37452032 AAAAAAATTCAAAAAAAATTC-
1 AAAAAAATTCAAAAAAAA-TCG
*
37452053 AAAAAAATTTAAAAAAAATCG
1 AAAAAAATTCAAAAAAAATCG
37452074 AAAAAAAT
1 AAAAAAAT
37452082 AAAATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAAAATTCAAAAAAAATCG
Found at i:37452193 original size:22 final size:21
Alignment explanation
Indices: 37452151--37452193 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37452141 AGGAAATTCG
* *
37452151 AAAAAAAAAAGTTTTGGAATT
1 AAAAAAAAAAGTATTGAAATT
37452172 AAAAAAAAAAGTGATTGAAATT
1 AAAAAAAAAAGT-ATTGAAATT
37452194 CGTTTTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (21 bp):
AAAAAAAAAAGTATTGAAATT
Found at i:37453171 original size:17 final size:15
Alignment explanation
Indices: 37453151--37453189 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
37453141 GCGAGCGAGA
37453151 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
37453168 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
37453183 AAGATGA
1 AA-ATGA
37453190 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:37458133 original size:18 final size:17
Alignment explanation
Indices: 37458110--37458149 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
37458100 CTCTTTTTGC
37458110 TCTTTTTCATTCTCTCTT
1 TCTTTTTCATTCTCT-TT
*
37458128 TCTTTTTCATTTTCTTT
1 TCTTTTTCATTCTCTTT
37458145 TCTTT
1 TCTTT
37458150 CTTTTACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (17 bp):
TCTTTTTCATTCTCTTT
Found at i:37459868 original size:26 final size:26
Alignment explanation
Indices: 37459839--37459909 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
37459829 AACACACCAA
37459839 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
37459865 TATCGCAGCAAAGCTACAAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
**
37459891 TATCGCAATAAAGCTGCCA
1 TATCGCAGCAAAGCTGCCA
37459910 ATACAGTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:37463649 original size:23 final size:23
Alignment explanation
Indices: 37463614--37463725 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
37463604 CAGTTTTGGG
* *
37463614 TTTGTTACGAAATGGTAATGTGA
1 TTTGGTACGAAATGGTAATGCGA
* * *
37463637 TTTGGTTCAAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGCGA
* * *
37463660 TTTGGTACGAATTGGTAAGGTGA
1 TTTGGTACGAAATGGTAATGCGA
* *
37463683 TTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGCGA
*
37463706 TTTGGTACGAAATGTTAATG
1 TTTGGTACGAAATGGTAATG
37463726 GTTCAAAAAG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATGCGA
Found at i:37463676 original size:46 final size:46
Alignment explanation
Indices: 37463614--37463725 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
37463604 CAGTTTTGGG
*
37463614 TTTGTTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
* * *
37463660 TTTGGTACGAATTGGTAAGGTGATTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
*
37463706 TTTGGTACGAAATGTTAATG
1 TTTGGTACGAAATGGTAATG
37463726 GTTCAAAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (46 bp):
TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
Found at i:37474688 original size:103 final size:105
Alignment explanation
Indices: 37474345--37474717 Score: 664
Period size: 105 Copynumber: 3.6 Consensus size: 105
37474335 TTGTATATAA
37474345 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
**
37474410 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
37474450 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
*
37474515 TTTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCC
66 TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
37474555 GAGGGGTTGCTAAGTGCTGATTCCCTGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
37474619 TTTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
37474658 GAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCAGTGGTGGTGCTAAGTGCGGA-ATCCACCA
1 GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGC-GATATCCACCA
37474718 ATAACGGCTA
Statistics
Matches: 260, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
103 85 0.33
104 46 0.18
105 129 0.50
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (105 bp):
GAGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATC
TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37477754 original size:50 final size:49
Alignment explanation
Indices: 37477630--37477872 Score: 191
Period size: 50 Copynumber: 4.8 Consensus size: 49
37477620 GATAATAACA
* * * *
37477630 TGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGATGTTTCCTAT-GC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TTTCATATCGG
* * * *
37477679 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTTTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* ** * * *
37477729 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* * * * * * *
37477779 TGCCAACGCCATGTCCTAGACATGGTCTGACGTGGGACCTCTCATAACCTCAGTAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCAT-A--TC-G--G
*
37477835 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
37477873 CTCATTCCCT
Statistics
Matches: 154, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 38 0.25
50 81 0.53
53 2 0.01
54 1 0.01
56 32 0.21
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTTCATATCGG
Found at i:37494818 original size:10 final size:10
Alignment explanation
Indices: 37494803--37494864 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
37494793 TTTGAACCAT
*
37494803 TACCAATTCG
1 TACCAATTCA
*
37494813 TACCAAATACCA
1 TACC-AAT-TCA
*
37494825 TACCATTTCA
1 TACCAATTCA
37494835 TACCAATTCCA
1 TACCAATT-CA
* *
37494846 TACCATTTCG
1 TACCAATTCA
37494856 TACCAATTC
1 TACCAATTC
37494865 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:37494848 original size:21 final size:21
Alignment explanation
Indices: 37494803--37494865 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
37494793 TTTGAACCAT
* *
37494803 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
37494825 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
37494846 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
37494866 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:37502435 original size:22 final size:21
Alignment explanation
Indices: 37502402--37502444 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
37502392 TTTTAGGTCT
37502402 TTAGGAATTTATTTCTTTAGTAA
1 TTAGGAATTTATTT-TTT-GTAA
37502425 TTAGG-ATTTATTTTTTGTAA
1 TTAGGAATTTATTTTTTGTAA
37502445 AATAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 8 0.40
23 5 0.25
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (21 bp):
TTAGGAATTTATTTTTTGTAA
Found at i:37503239 original size:15 final size:15
Alignment explanation
Indices: 37503219--37503250 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37503209 CATGCTTAAA
*
37503219 AACAACAACAACGAC
1 AACAACAACAAAGAC
37503234 AACAACAACAAAGAC
1 AACAACAACAAAGAC
37503249 AA
1 AA
37503251 AGAAAGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.28, G:0.06, T:0.00
Consensus pattern (15 bp):
AACAACAACAAAGAC
Found at i:37507091 original size:59 final size:59
Alignment explanation
Indices: 37506993--37507209 Score: 253
Period size: 59 Copynumber: 3.7 Consensus size: 59
37506983 TTAATAGAGG
* * * * *
37506993 TCGCCACGAAGGCTTTCCCTTCAAGGA-TTTGCAGCAAAGGCATCATTTTCTTTTAGTAC
1 TCGCCACAAAGGCTTTCCTTTCAAAGATTTTACA-CAAAGGCATCCTTTTCTTTTAGTAC
* * *
37507052 TTGCCACAAAGGCTTTCCTATT-AAAGATTTTATATAAAGGCATCCTTTTCTTTTAGTAC
1 TCGCCACAAAGGCTTTCCT-TTCAAAGATTTTACACAAAGGCATCCTTTTCTTTTAGTAC
* * * *
37507111 TCACTACAAAGGCTTTCCTTTCAGAGATTTTACACAAAGGCATCCTTTTCTTTCAGTAC
1 TCGCCACAAAGGCTTTCCTTTCAAAGATTTTACACAAAGGCATCCTTTTCTTTTAGTAC
* *
37507170 TGGCCA-AACA-GCTTTCCTTTCAAAGATTTTCCACAAAGGC
1 TCGCCACAA-AGGCTTTCCTTTCAAAGATTTTACACAAAGGC
37507210 TTTCTTTTTG
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
58 32 0.24
59 96 0.72
60 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (59 bp):
TCGCCACAAAGGCTTTCCTTTCAAAGATTTTACACAAAGGCATCCTTTTCTTTTAGTAC
Found at i:37510888 original size:16 final size:16
Alignment explanation
Indices: 37510867--37510898 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37510857 GAAGGTTCTA
37510867 CAAATTCCCATAACTT
1 CAAATTCCCATAACTT
*
37510883 CAAATTGCCATAACTT
1 CAAATTCCCATAACTT
37510899 TAATGCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
CAAATTCCCATAACTT
Found at i:37513232 original size:26 final size:26
Alignment explanation
Indices: 37513197--37513279 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
37513187 GCCAACACAC
* *
37513197 CAATATCGCAGAAAAACTGCCAGTAA
1 CAATAACGCAGAAAAGCTGCCAGTAA
* * * *
37513223 TAATGACGCAGTAAAGCTGCCAATAA
1 CAATAACGCAGAAAAGCTGCCAGTAA
* *
37513249 CAGTAACGCAGCAAAGCTGCCAGTAA
1 CAATAACGCAGAAAAGCTGCCAGTAA
37513275 CAATA
1 CAATA
37513280 TATGTGGCAG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (26 bp):
CAATAACGCAGAAAAGCTGCCAGTAA
Found at i:37513428 original size:27 final size:26
Alignment explanation
Indices: 37513390--37513670 Score: 178
Period size: 27 Copynumber: 10.4 Consensus size: 26
37513380 TACTCAGTAA
37513390 CAGTCATTTTACCCTATGCGGGTATTT
1 CAGTCATTTTACCCT-TGCGGGTATTT
37513417 CAGTCATTTTACCCTTTAG-GGGTATTT
1 CAGTCATTTTACCC-TT-GCGGGTATTT
* *
37513444 CAATCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GCGGGTATTT
*
37513471 C-GATCATTTTACCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTT-GCGGGTATTT
* * *
37513498 TAGTCATTTTACCCAT-CAAAGGTATTT
1 CAGTCATTTTACCCTTGC--GGGTATTT
*
37513525 C-GATCATTTTACCCTT-CAGGGGCATTT
1 CAG-TCATTTTACCCTTGC--GGGTATTT
** * *
37513552 TGGTCATTTTACCATTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GCGGGTATTT
* * *
37513579 CAATCATTTTGCCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GCGGGTATTT
* * *
37513606 TAGTTATTTTA-CCTTTCAGGGGTATTT
1 CAGTCATTTTACCCTTGC--GGGTATTT
* ** *
37513633 CGGTCATTTTACCCTGTAAGGGTAATT
1 CAGTCATTTTACCCT-TGCGGGTATTT
*
37513660 CGGTCATTTTA
1 CAGTCATTTTA
37513671 TCCTATGGGG
Statistics
Matches: 205, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
26 8 0.04
27 189 0.92
28 7 0.03
29 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTACCCTTGCGGGTATTT
Found at i:37513478 original size:54 final size:54
Alignment explanation
Indices: 37513391--37513695 Score: 303
Period size: 54 Copynumber: 5.6 Consensus size: 54
37513381 ACTCAGTAAC
* *
37513391 AGTCATTTTACCCTAT-GCGGGTATTTC-AGTCATTTTACCCTTTAGGGGTATTTC
1 AGTCATTTTACCCT-TCGGGGGTATTTCGA-TCATTTTACCCTTTAGGGGTATTTT
* *
37513445 AATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCC-TTCGAGGGTATTTT
1 AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTAG-GGGTATTTT
* *** * *
37513499 AGTCATTTTACCCATCAAAGGTATTTCGATCATTTTACCCTTCAGGGGCATTTT
1 AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTT
* * * * **
37513553 GGTCATTTTACCATTCGGGGGTATTTCAATCATTTTGCCCTTCGGGGGTATTTT
1 AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTT
* * * * * * * *
37513607 AGTTATTTTACCTTTCAGGGGTATTTCGGTCATTTTACCCTGTAAGGGTAATTC
1 AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTT
* * *
37513661 GGTCATTTTATCCTAT-GGGGGTAATTCGATCATTT
1 AGTCATTTTACCCT-TCGGGGGTATTTCGATCATTT
37513696 ATTGACCTCG
Statistics
Matches: 204, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
53 4 0.02
54 196 0.96
55 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (54 bp):
AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTT
Found at i:37513531 original size:81 final size:81
Alignment explanation
Indices: 37513392--37513670 Score: 319
Period size: 81 Copynumber: 3.4 Consensus size: 81
37513382 CTCAGTAACA
* *
37513392 GTCATTTTACCCTAT-GCGGGTATTTCAGTCATTTTACCCTTTAGGGGTATTTCAATCATTTTAC
1 GTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTAC
*
37513456 CCTTCGGGGGTATTTCG
65 CCTTCAGGGGTATTTCG
* * * ** *
37513473 ATCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCATCAAAGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACC
* *
37513538 CTTCAGGGGCATTTTG
66 CTTCAGGGGTATTTCG
* * * * * * * *
37513554 GTCATTTTACCATTCGGGGGTATTTCAATCATTTTGCCCTTCGGGGGTATTTTAGTTATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACC
*
37513619 TTTCAGGGGTATTTCG
66 CTTCAGGGGTATTTCG
* * *
37513635 GTCATTTTACCCTGT-AAGGGTAATTCGGTCATTTTA
1 GTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTA
37513671 TCCTATGGGG
Statistics
Matches: 161, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 159 0.99
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACC
CTTCAGGGGTATTTCG
Found at i:37524930 original size:28 final size:28
Alignment explanation
Indices: 37524852--37524947 Score: 140
Period size: 28 Copynumber: 3.4 Consensus size: 28
37524842 TATTCAGTAG
* *
37524852 CAGT-ACAGTGTGGGCCTTAGCACATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
37524879 CAGTAACAGTCTGTGGGCCTTAGCCCAATA
1 CAGTAACAG--TGTGGGCCTTAGCCCAATA
37524909 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
37524937 CAGTAATCAGT
1 CAGTAA-CAGT
37524948 ACAATGCAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
27 4 0.06
28 29 0.46
29 4 0.06
30 26 0.41
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:37525097 original size:26 final size:25
Alignment explanation
Indices: 37525058--37525125 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
37525048 ATATCGCAAT
* * *
37525058 AAAGCTGCATGTAATAATGACGCATC
1 AAAGCTGCA-GTAACAATAACGCAGC
*
37525084 AAAGCTGCTAGTAACAGTAACGCAGC
1 AAAGCTGC-AGTAACAATAACGCAGC
37525110 AAAGCTGCCAGTAACA
1 AAAGCTG-CAGTAACA
37525126 GTATATGTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 34 0.94
27 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (25 bp):
AAAGCTGCAGTAACAATAACGCAGC
Found at i:37525126 original size:26 final size:26
Alignment explanation
Indices: 37525077--37525128 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
37525067 TGTAATAATG
* *
37525077 ACGCATCAAAGCTGCTAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
37525103 ACGCAGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
37525129 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.15
Consensus pattern (26 bp):
ACGCAGCAAAGCTGCCAGTAACAGTA
Found at i:37525323 original size:27 final size:27
Alignment explanation
Indices: 37525301--37525398 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
37525291 AAGGGTATAA
*
37525301 CAATCATTTTACCCTATAGGGGTATTT
1 CAATCATTTTACCCTTTAGGGGTATTT
* * *
37525328 TAGTCATTTTACCCTTTAGAGGTATTT
1 CAATCATTTTACCCTTTAGGGGTATTT
* *
37525355 CGATCATTTTA-TCTTTCAGGGGTATTT
1 CAATCATTTTACCCTTT-AGGGGTATTT
*
37525382 CGATCATTTTACCCTTT
1 CAATCATTTTACCCTTT
37525399 GATAGTATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (27 bp):
CAATCATTTTACCCTTTAGGGGTATTT
Found at i:37525361 original size:54 final size:54
Alignment explanation
Indices: 37525303--37525417 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
37525293 GGGTATAACA
*
37525303 ATCATTTTACCCTAT-AGGGGTATTTTAG-TCATTTTACCCTTTAGA-GGTATTTCG
1 ATCATTTTA-CCTATCAGGGGTA-TTTAGATCATTTTACCCTTT-GATAGTATTTCG
* * *
37525357 ATCATTTTATCTTTCAGGGGTATTTCGATCATTTTACCCTTTGATAGTATTTCG
1 ATCATTTTACCTATCAGGGGTATTTAGATCATTTTACCCTTTGATAGTATTTCG
*
37525411 GTCATTT
1 ATCATTT
37525418 AAATTTGACC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
53 9 0.17
54 44 0.83
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.47
Consensus pattern (54 bp):
ATCATTTTACCTATCAGGGGTATTTAGATCATTTTACCCTTTGATAGTATTTCG
Found at i:37525406 original size:27 final size:26
Alignment explanation
Indices: 37525303--37525417 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
37525293 GGGTATAACA
* * *
37525303 ATCATTTTACCCTATAGGGGTATTT-T
1 ATCATTTTACCCT-TTGAGGTATTTCG
37525329 AGTCATTTTACCCTTTAGAGGTATTTCG
1 A-TCATTTTACCCTTT-GAGGTATTTCG
* *
37525357 ATCATTTTA-TCTTTCAGGGGTATTTCG
1 ATCATTTTACCCTTT--GAGGTATTTCG
*
37525384 ATCATTTTACCCTTTGATAGTATTTCG
1 ATCATTTTACCCTTTGA-GGTATTTCG
*
37525411 GTCATTT
1 ATCATTT
37525418 AAATTTGACC
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
26 7 0.09
27 62 0.84
28 5 0.07
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.47
Consensus pattern (26 bp):
ATCATTTTACCCTTTGAGGTATTTCG
Found at i:37526007 original size:41 final size:41
Alignment explanation
Indices: 37525947--37526233 Score: 355
Period size: 41 Copynumber: 7.0 Consensus size: 41
37525937 AAAGTACATC
* *
37525947 CAGGGGTACCGAAGTACAAACAGGGGCACGTCTGTGCATTT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* * * *
37525988 CAAGGGTATCGAAGTACAAACAGGGGCACCTATGTGCATTT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* *
37526029 CAGGGGTATCGAAGTACAAACAGGGGCAGGTATGTGCAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* * * *
37526070 CAAGGGTACCAAAATACAAACAGGGGCATGTATGTGCAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* * * *
37526111 CAGGGGTACTGAAGTACAAATAAGGGCACGTATGTGTAATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* * *
37526152 TAGGGGTACCGAAGTTC-AACAGGGGCACGTATGTGCAATG
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
* *
37526192 CAGGGGTACCGAAGTGCAATA-A-GGGCACGTATGTGTAATT
1 CAGGGGTACCGAAGTACAA-ACAGGGGCACGTATGTGCAATT
37526232 CA
1 CA
37526234 TCATTATTCG
Statistics
Matches: 212, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
40 52 0.25
41 159 0.75
42 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (41 bp):
CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
Found at i:37526054 original size:20 final size:20
Alignment explanation
Indices: 37525991--37526054 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
37525981 TGCATTTCAA
37525991 GGGTATCGAAGTACAAACAG
1 GGGTATCGAAGTACAAACAG
* * * * * **
37526011 GGGCACCTATGTGCATTTCAG
1 GGGTATCGAAGTACA-AACAG
37526032 GGGTATCGAAGTACAAACAG
1 GGGTATCGAAGTACAAACAG
37526052 GGG
1 GGG
37526055 CAGGTATGTG
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (20 bp):
GGGTATCGAAGTACAAACAG
Found at i:37526197 original size:21 final size:20
Alignment explanation
Indices: 37526171--37526226 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
37526161 CGAAGTTCAA
37526171 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* *
37526191 GCAGGGGTACCG-AAGTGCAAT
1 -CAGGGGCA-CGTATGTGCAAT
*
37526212 -AAGGGCACGTATGTG
1 CAGGGGCACGTATGTG
37526227 TAATTCATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.07
19 9 0.32
21 15 0.54
22 2 0.07
ACGTcount: A:0.27, C:0.18, G:0.38, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:37533483 original size:20 final size:20
Alignment explanation
Indices: 37533460--37533560 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 20
37533450 AGGGTTACCA
*
37533460 AAGTATAAATAGGGGCACGT
1 AAGTACAAATAGGGGCACGT
* ** *
37533480 AAGTGCATTTAGGGGTACCG-
1 AAGTACAAATAGGGGCA-CGT
37533500 AAGTACAAATAGGGGCACGT
1 AAGTACAAATAGGGGCACGT
* *
37533520 ACA-TAC-AATCAAGGGTACCG-
1 A-AGTACAAAT-AGGGGCA-CGT
*
37533540 AAGTACAAACAGGGGCACGT
1 AAGTACAAATAGGGGCACGT
37533560 A
1 A
37533561 TGTGCATTCA
Statistics
Matches: 59, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
19 8 0.14
20 44 0.75
21 7 0.12
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AAGTACAAATAGGGGCACGT
Found at i:37533515 original size:40 final size:40
Alignment explanation
Indices: 37533446--37533570 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
37533436 ATACTATTTG
* * *
37533446 ATTCAGGGTTACCAAAGTATAAATAGGGGCACGTAAGTGC
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGC
* *
37533486 ATTTAGGGGTACCGAAGTACAAATAGGGGCACGTACA-TAC
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTA-AGTGC
* * * *
37533526 AATCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGC
37533566 ATTCA
1 ATTCA
37533571 ACAATAATTA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGC
Found at i:37539536 original size:23 final size:23
Alignment explanation
Indices: 37539504--37539615 Score: 134
Period size: 23 Copynumber: 4.9 Consensus size: 23
37539494 CTTGTTGAAC
*
37539504 CATTAACATTTCGTACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* *
37539527 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
37539550 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
37539573 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
37539596 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
37539616 CCCAAAACCG
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:37539580 original size:46 final size:46
Alignment explanation
Indices: 37539504--37539615 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
37539494 CTTGTTGAAC
* *
37539504 CATTAACATTTCGTACCAAATCATATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCATATTACCATTTCGAACCAAATCA
* * *
37539550 CCTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCATATTACCATTTCGAACCAAATCA
* *
37539596 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
37539616 CCCAAAACCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCATATTACCATTTCGAACCAAATCA
Found at i:37541562 original size:63 final size:63
Alignment explanation
Indices: 37541463--37541588 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
37541453 ATTGGCCTCG
37541463 ATCTCTAGGACCCCTATTCCTTTGACCTCATCGTCTCTCGCTTTGATTCGACGCTTGGTCACT
1 ATCTCTAGGACCCCTATTCCTTTGACCTCATCGTCTCTCGCTTTGATTCGACGCTTGGTCACT
37541526 ATCTCTAGGACCCCTATTCCTTTGACCTCATCGTCTCTCGCTTTGATTCGACGCTTGGTCACT
1 ATCTCTAGGACCCCTATTCCTTTGACCTCATCGTCTCTCGCTTTGATTCGACGCTTGGTCACT
37541589 TTCCACCTCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.14, C:0.33, G:0.16, T:0.37
Consensus pattern (63 bp):
ATCTCTAGGACCCCTATTCCTTTGACCTCATCGTCTCTCGCTTTGATTCGACGCTTGGTCACT
Found at i:37542285 original size:10 final size:10
Alignment explanation
Indices: 37542263--37542307 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
37542253 GACCGTATAC
37542263 ATTTTTTTC-
1 ATTTTTTTCG
*
37542272 -TTTTTTTCA
1 ATTTTTTTCG
37542281 ATTTTTTT-G
1 ATTTTTTTCG
37542290 ATTTTTTTCG
1 ATTTTTTTCG
37542300 ATTTTTTT
1 ATTTTTTT
37542308 TTCAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (10 bp):
ATTTTTTTCG
Found at i:37542288 original size:19 final size:19
Alignment explanation
Indices: 37542264--37542308 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
37542254 ACCGTATACA
*
37542264 TTTTTTTCTTTTTTTCAAT
1 TTTTTTTATTTTTTTCAAT
* *
37542283 TTTTTTGATTTTTTTCGAT
1 TTTTTTTATTTTTTTCAAT
37542302 TTTTTTT
1 TTTTTTT
37542309 TCAAATTTTT
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:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTTTTCAAT
Found at i:37542310 original size:12 final size:13
Alignment explanation
Indices: 37542291--37542324 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
37542281 ATTTTTTTGA
*
37542291 TTTTTTTC-GATT
1 TTTTTTTCAAATT
37542303 TTTTTTTCAAATT
1 TTTTTTTCAAATT
37542316 TTTTTTTCA
1 TTTTTTTCA
37542325 CGAGTCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTTTTCAAATT
Found at i:37543524 original size:32 final size:32
Alignment explanation
Indices: 37543464--37543539 Score: 113
Period size: 31 Copynumber: 2.4 Consensus size: 32
37543454 CATGTATTAG
*
37543464 TTTAGGACATA-TTTAAAACACTTGAAACTAA
1 TTTAGGACATATTTTAAAACACCTGAAACTAA
37543495 TTTAGGACATATTTTAAAAACACCT-AAACTAA
1 TTTAGGACATATTTT-AAAACACCTGAAACTAA
37543527 -TTAGGACATATTT
1 TTTAGGACATATTT
37543540 AATAATATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 24 0.57
32 10 0.24
33 8 0.19
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (32 bp):
TTTAGGACATATTTTAAAACACCTGAAACTAA
Found at i:37554142 original size:12 final size:12
Alignment explanation
Indices: 37554125--37554149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37554115 AATTCTTGGG
37554125 AAACTGTCTACC
1 AAACTGTCTACC
37554137 AAACTGTCTACC
1 AAACTGTCTACC
37554149 A
1 A
37554150 CGTCGTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AAACTGTCTACC
Found at i:37556678 original size:22 final size:22
Alignment explanation
Indices: 37556635--37556699 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
37556625 CCTTTTTGAA
*
37556635 CCATTTCCATTTTCGTACCAAAT
1 CCATTACCA-TTTCGTACCAAAT
**
37556658 CCATTACCATTTCGTTTCAAAT
1 CCATTACCATTTCGTACCAAAT
* * *
37556680 CCCTTACCGTTTCATACCAA
1 CCATTACCATTTCGTACCAA
37556700 TTCCCAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (22 bp):
CCATTACCATTTCGTACCAAAT
Found at i:37561566 original size:22 final size:22
Alignment explanation
Indices: 37561523--37561587 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
37561513 CCTTTTTGAA
*
37561523 CCATTTCCATTTTCGTACCAAAT
1 CCATTACCA-TTTCGTACCAAAT
**
37561546 CCATTACCATTTCGTTTCAAAT
1 CCATTACCATTTCGTACCAAAT
* * *
37561568 CCCTTACCGTTTCATACCAA
1 CCATTACCATTTCGTACCAA
37561588 TTCCCAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (22 bp):
CCATTACCATTTCGTACCAAAT
Found at i:37562484 original size:42 final size:42
Alignment explanation
Indices: 37562425--37562507 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
37562415 AAAATTCAAA
*
37562425 GGATAAGAACAAGAGTTCAAATGTTTGGATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
37562467 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
37562508 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:37567341 original size:18 final size:18
Alignment explanation
Indices: 37567296--37567348 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
37567286 CATTTTCATA
* *
37567296 CTCTTTCTTTTCTTTACT
1 CTCTTTATTTTCTTTTCT
*
37567314 CATC-TCATTTTCTTTTCT
1 C-TCTTTATTTTCTTTTCT
37567332 CTCTTTATTTTTCTTTT
1 CTCTTTA-TTTTCTTTT
37567349 TTTTTACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 2 0.07
18 15 0.54
19 11 0.39
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.68
Consensus pattern (18 bp):
CTCTTTATTTTCTTTTCT
Found at i:37569461 original size:20 final size:20
Alignment explanation
Indices: 37569433--37569483 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
37569423 TGGAATTTTA
37569433 GGTCAAATTTTTTTTTGATAG
1 GGTC-AATTTTTTTTTGATAG
37569454 GGTCAATTTTTTTTTGATAG
1 GGTCAATTTTTTTTTGATAG
*
37569474 CGTCCAATTT
1 GGT-CAATTT
37569484 CACCCGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (20 bp):
GGTCAATTTTTTTTTGATAG
Done.