Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 421 of 425
Found at i:127864224 original size:2 final size:2
Alignment explanation
Indices: 127864217--127864241 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127864207 ATCCTAACTG
127864217 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
127864242 ATGAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127877014 original size:25 final size:25
Alignment explanation
Indices: 127876986--127877039 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
127876976 TACTAAAAAT
127876986 CACACTAATGAAAAGGAGAACATTC
1 CACACTAATGAAAAGGAGAACATTC
127877011 CACACTAATGAAAAGGAGAACATTC
1 CACACTAATGAAAAGGAGAACATTC
127877036 CACA
1 CACA
127877040 AATAATATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (25 bp):
CACACTAATGAAAAGGAGAACATTC
Found at i:127881554 original size:29 final size:31
Alignment explanation
Indices: 127881502--127881562 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
127881492 TTAATTTAAC
*
127881502 ATTATTTATAGAATTTTTAAAATTTTTGAAG
1 ATTATTTATAGAATTTTTAAAATTTTTCAAG
**
127881533 ATTATTT-T-GAATTTTTGTAATTTTTCAAG
1 ATTATTTATAGAATTTTTAAAATTTTTCAAG
127881562 A
1 A
127881563 GAGACTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 1 0.04
31 7 0.26
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (31 bp):
ATTATTTATAGAATTTTTAAAATTTTTCAAG
Found at i:127886353 original size:13 final size:13
Alignment explanation
Indices: 127886335--127886362 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
127886325 TATATATATA
127886335 AAAGAAACAAAAG
1 AAAGAAACAAAAG
127886348 AAAGAAACAAAAG
1 AAAGAAACAAAAG
127886361 AA
1 AA
127886363 TAAAAGGAGG
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:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:127887163 original size:2 final size:2
Alignment explanation
Indices: 127887146--127887185 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
127887136 TAAATTGAAT
* *
127887146 TA TA TA T- TA TA AA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127887186 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:127887190 original size:2 final size:2
Alignment explanation
Indices: 127887185--127887232 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
127887175 TATATATATA
* *
127887185 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TT
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
127887227 TG TG TG
1 TG TG TG
127887233 AATGAGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.00, G:0.46, T:0.52
Consensus pattern (2 bp):
TG
Found at i:127887406 original size:15 final size:15
Alignment explanation
Indices: 127887388--127887444 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
127887378 TATCTGTTTT
127887388 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
127887403 ATTGAAATTATTTTA
1 ATTGAATTTATATTG
127887418 ATTGAATTTATATTG
1 ATTGAATTTATATTG
127887433 ATTGAA-TTATAT
1 ATTGAATTTATAT
127887445 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:127887423 original size:30 final size:28
Alignment explanation
Indices: 127887384--127887442 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
127887374 TGAATATCTG
127887384 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
127887413 TTTTAATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
127887442 T
1 T
127887443 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:127887770 original size:23 final size:23
Alignment explanation
Indices: 127887744--127887818 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
127887734 AGGCACTTTA
127887744 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
127887767 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
127887788 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
127887809 TGTGTCGTAT
1 TGTGTCGTAT
127887819 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:127888001 original size:18 final size:19
Alignment explanation
Indices: 127887980--127888020 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
127887970 AATGAAATGA
127887980 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
127887998 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
127888017 GAAA
1 GAAA
127888021 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:127889206 original size:31 final size:32
Alignment explanation
Indices: 127889145--127889209 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
127889135 TAAATCCTTG
*
127889145 AATTTTTTTTGTTAAAATTAATTTTAAAATTT
1 AATTTTTTTTGTTAAAATTAATCTTAAAATTT
* *
127889177 AATTTTTTTT-TTCAATTTAATCCTT-AAATTT
1 AATTTTTTTTGTTAAAATTAAT-CTTAAAATTT
127889208 AA
1 AA
127889210 ATTCCATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (32 bp):
AATTTTTTTTGTTAAAATTAATCTTAAAATTT
Found at i:127892656 original size:19 final size:19
Alignment explanation
Indices: 127892632--127892669 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
127892622 GGAGAAAAGA
127892632 TGGATTCTCGATGATCCCC
1 TGGATTCTCGATGATCCCC
127892651 TGGATTCTCGATGATCCCC
1 TGGATTCTCGATGATCCCC
127892670 GAATAGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.21, T:0.32
Consensus pattern (19 bp):
TGGATTCTCGATGATCCCC
Found at i:127898403 original size:23 final size:26
Alignment explanation
Indices: 127898372--127898418 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
127898362 GGATTAGTTT
127898372 GATTGAAAAT-T-AAA-TAGATTATC
1 GATTGAAAATATGAAATTAGATTATC
*
127898395 GATTTAAAATATGAAATTAGATTA
1 GATTGAAAATATGAAATTAGATTA
127898419 GTTATTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 3 0.15
26 7 0.35
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (26 bp):
GATTGAAAATATGAAATTAGATTATC
Found at i:127901736 original size:15 final size:16
Alignment explanation
Indices: 127901716--127901754 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
127901706 AGATCGATAA
127901716 AAAAAGAAAAAAAC-G
1 AAAAAGAAAAAAACTG
127901731 AAAAAG--AAAAACTG
1 AAAAAGAAAAAAACTG
127901745 AAAAAGAAAA
1 AAAAAGAAAA
127901755 TAGAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.29
14 7 0.33
15 6 0.29
16 2 0.10
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAACTG
Found at i:127901740 original size:14 final size:15
Alignment explanation
Indices: 127901716--127901754 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
127901706 AGATCGATAA
127901716 AAAAAGAAAAAAAC-G
1 AAAAAG-AAAAAACTG
127901731 AAAAAG-AAAAACTG
1 AAAAAGAAAAAACTG
127901745 AAAAAGAAAA
1 AAAAAGAAAA
127901755 TAGAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 9 0.41
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAACTG
Found at i:127913392 original size:21 final size:21
Alignment explanation
Indices: 127913358--127913398 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
127913348 TTATAATCCT
*
127913358 ATTTTAAAAATATTTTTTATA
1 ATTTTAAAAATATTTATTATA
* *
127913379 ATTTTTAAACTATTTATTAT
1 ATTTTAAAAATATTTATTAT
127913399 CATGACATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAAAAATATTTATTATA
Found at i:127917221 original size:22 final size:20
Alignment explanation
Indices: 127917196--127917253 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
127917186 TAGTTTGTAA
127917196 ATAATATATTATTAGTATAATT
1 ATAATATATTATTAG-ATAA-T
*
127917218 ATAATATATTAAATTAGATTAT
1 ATAATATATT--ATTAGATAAT
127917240 ATAATTATATTATT
1 ATAA-TATATTATT
127917254 TCTAAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.09
22 15 0.47
23 9 0.28
24 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATAATATATTATTAGATAAT
Found at i:127917251 original size:13 final size:13
Alignment explanation
Indices: 127917205--127917252 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
127917195 AATAATATAT
127917205 TATTAGTATAATTA
1 TATTA-TATAATTA
*
127917219 TAATATATTAAATTA
1 TATTATA-T-AATTA
*
127917234 GATTATATAATTA
1 TATTATATAATTA
127917247 TATTAT
1 TATTAT
127917253 TTCTAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 6 0.21
15 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (13 bp):
TATTATATAATTA
Found at i:127917582 original size:30 final size:30
Alignment explanation
Indices: 127917522--127917583 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
127917512 ATTACAAAGT
* *
127917522 AGTCGTTAAACTATTAAAAGTTATTGTTTA
1 AGTCATTAAACTATTAAAAGTTATTATTTA
127917552 AGTCATTAAACTATTAAAAGTT-TTCATTTA
1 AGTCATTAAACTATTAAAAGTTATT-ATTTA
127917582 AG
1 AG
127917584 CCACTAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (30 bp):
AGTCATTAAACTATTAAAAGTTATTATTTA
Found at i:127919207 original size:39 final size:39
Alignment explanation
Indices: 127919164--127919298 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
127919154 ACCAATATGG
*
127919164 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
* * * *
127919203 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAATTGA
* * * * *
127919241 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATA-ATTGA
*
127919282 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
127919299 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
Found at i:127920839 original size:17 final size:17
Alignment explanation
Indices: 127920817--127920851 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
127920807 GAATGCTCTC
*
127920817 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
127920834 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
127920851 T
1 T
127920852 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:127920923 original size:13 final size:13
Alignment explanation
Indices: 127920883--127920916 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
127920873 ATATATATAT
* *
127920883 ATAATATTATTTA
1 ATAATAATAGTTA
127920896 ATAATAATAGTTA
1 ATAATAATAGTTA
127920909 ATAATAAT
1 ATAATAAT
127920917 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:127921853 original size:15 final size:15
Alignment explanation
Indices: 127921817--127921855 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
127921807 TTTTCCCTCA
*
127921817 TCTTTTATTCAAACT
1 TCTTTTATTTAAACT
*
127921832 T-TTTTATTTAAATT
1 TCTTTTATTTAAACT
127921846 TCTTTTATTT
1 TCTTTTATTT
127921856 TTCCTCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTTTATTTAAACT
Found at i:127922861 original size:27 final size:27
Alignment explanation
Indices: 127922831--127922887 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
127922821 CATGGTCCTC
127922831 CATCTCTTTCCCCATATCATTCACCAA
1 CATCTCTTTCCCCATATCATTCACCAA
127922858 CATCTCTTTCCCCATATCATTCACCAA
1 CATCTCTTTCCCCATATCATTCACCAA
127922885 CAT
1 CAT
127922888 TAGCACCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.33
Consensus pattern (27 bp):
CATCTCTTTCCCCATATCATTCACCAA
Found at i:127941808 original size:29 final size:29
Alignment explanation
Indices: 127941776--127941831 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
127941766 TCAAGATACT
*
127941776 TTTAATAATATTAA-AATTAAATTAATCAA
1 TTTAATAATA-AAATAATTAAATTAATCAA
*
127941805 TTTAATAATAAAATAATTAATTTAATC
1 TTTAATAATAAAATAATTAAATTAATC
127941832 CAATCCCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTAATAATAAAATAATTAAATTAATCAA
Found at i:127941809 original size:20 final size:19
Alignment explanation
Indices: 127941777--127941830 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
127941767 CAAGATACTT
127941777 TTAATAATATTAA-AATTAAA
1 TTAATAAT-TTAATAA-TAAA
127941797 TTAATCAATTTAATAATAAA
1 TTAAT-AATTTAATAATAAA
*
127941817 ATAATTAATTTAAT
1 TTAA-TAATTTAAT
127941831 CCAATCCCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATAATTTAATAATAAA
Found at i:127951131 original size:16 final size:16
Alignment explanation
Indices: 127951095--127951141 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
127951085 GCCTTATCAA
127951095 ATTAAATTATATTATT
1 ATTAAATTATATTATT
*
127951111 A-TAAATATTTATT-TT
1 ATTAAAT-TATATTATT
127951126 ATTAAATTATATTATT
1 ATTAAATTATATTATT
127951142 GCCTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAAATTATATTATT
Found at i:127954219 original size:8 final size:8
Alignment explanation
Indices: 127954206--127954232 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
127954196 CTGCAATGTT
127954206 TGTGTAAA
1 TGTGTAAA
127954214 TGTGTAAA
1 TGTGTAAA
127954222 TGTGTAAA
1 TGTGTAAA
127954230 TGT
1 TGT
127954233 TCTAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (8 bp):
TGTGTAAA
Found at i:127958308 original size:2 final size:2
Alignment explanation
Indices: 127958301--127958326 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
127958291 TGCCTGGTTA
127958301 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
127958327 ATATTTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:127960706 original size:21 final size:22
Alignment explanation
Indices: 127960672--127960716 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
127960662 TATGTTCTTA
127960672 TTAATTAGATTAAAGAGCAAAT
1 TTAATTAGATTAAAGAGCAAAT
127960694 TTAATTA-ATTAAAGAGCAAAT
1 TTAATTAGATTAAAGAGCAAAT
127960715 TT
1 TT
127960717 GTCATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (22 bp):
TTAATTAGATTAAAGAGCAAAT
Found at i:127965834 original size:16 final size:16
Alignment explanation
Indices: 127965813--127965843 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
127965803 TGTTTTACTA
127965813 TCATTTAATTATTATG
1 TCATTTAATTATTATG
127965829 TCATTTAATTATTAT
1 TCATTTAATTATTAT
127965844 ATTGCTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TCATTTAATTATTATG
Found at i:127971158 original size:28 final size:28
Alignment explanation
Indices: 127971104--127971158 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
127971094 TCTTCACAAA
* * *
127971104 TTTAAAATTTAATCTATATACTTTATTT
1 TTTAAAATTTAATCCATATAATCTATTT
* *
127971132 TTTAAAATTTAATCCCTTTAATCTATT
1 TTTAAAATTTAATCCATATAATCTATT
127971159 GTTAACTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAAAATTTAATCCATATAATCTATTT
Found at i:127971366 original size:15 final size:16
Alignment explanation
Indices: 127971348--127971378 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
127971338 ATTTGAAAAT
127971348 TAATTAA-AAATTTTA
1 TAATTAATAAATTTTA
127971363 TAATTAATAAATTTTA
1 TAATTAATAAATTTTA
127971379 ATATCTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTAATAAATTTTA
Found at i:127972370 original size:12 final size:12
Alignment explanation
Indices: 127972346--127972378 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
127972336 CATCCAGCTG
127972346 TCTTTTCTTTCTT
1 TCTTTT-TTTCTT
127972359 TCTTTTTTTCTT
1 TCTTTTTTTCTT
127972371 T-TTTTTTT
1 TCTTTTTTT
127972379 AATTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 7 0.35
13 6 0.30
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TCTTTTTTTCTT
Found at i:127979872 original size:51 final size:51
Alignment explanation
Indices: 127979796--127979898 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
127979786 TGCCAAAGCT
127979796 TATAACAACATGATCCTCAATAGCTGCGAGCCCTATAATACTAACAATGGA
1 TATAACAACATGATCCTCAATAGCTGCGAGCCCTATAATACTAACAATGGA
127979847 TATAACAACATGATCCTCAATAGCTGCGAGCCCTATAATACTAACAATGGA
1 TATAACAACATGATCCTCAATAGCTGCGAGCCCTATAATACTAACAATGGA
127979898 T
1 T
127979899 TTTAAAACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (51 bp):
TATAACAACATGATCCTCAATAGCTGCGAGCCCTATAATACTAACAATGGA
Found at i:127983361 original size:12 final size:12
Alignment explanation
Indices: 127983328--127983361 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
127983318 TGAAATAGTT
127983328 GGTGGTGGTGGC
1 GGTGGTGGTGGC
*
127983340 GGCGGTGGTGGC
1 GGTGGTGGTGGC
*
127983352 GGTGGCGGTG
1 GGTGGTGGTG
127983362 AAATAGGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.68, T:0.21
Consensus pattern (12 bp):
GGTGGTGGTGGC
Found at i:127989539 original size:86 final size:86
Alignment explanation
Indices: 127989417--127989593 Score: 311
Period size: 86 Copynumber: 2.1 Consensus size: 86
127989407 AACCCTTATG
* *
127989417 CATTAGATCAAAAAACAAAATGGTCATTTTATTAAAAATTTAACGTTATAAACTGTCTT-GACTA
1 CATTAGATCAAAAAACAAAATGATCATTTTATTAAAAATTTAACGTTATAAACTGACTTGGA-TA
127989481 ATAAAATAACCAAACAATTAAA
65 ATAAAATAACCAAACAATTAAA
127989503 CATTAGATCAAAAAACAAAATGATCATTTTATTAAAAATTTAACGTTATAAACTGACTTGGATAA
1 CATTAGATCAAAAAACAAAATGATCATTTTATTAAAAATTTAACGTTATAAACTGACTTGGATAA
*
127989568 TGAAATAACCAAACAATTAAA
66 TAAAATAACCAAACAATTAAA
127989589 CATTA
1 CATTA
127989594 CATGTCACGT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
86 85 0.98
87 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (86 bp):
CATTAGATCAAAAAACAAAATGATCATTTTATTAAAAATTTAACGTTATAAACTGACTTGGATAA
TAAAATAACCAAACAATTAAA
Found at i:128008361 original size:93 final size:93
Alignment explanation
Indices: 128008249--128008420 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128008239 CGCCCATAAG
* *
128008249 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128008314 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
128008342 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128008407 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
128008421 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:128008417 original size:46 final size:46
Alignment explanation
Indices: 128008242--128008417 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128008232 TGTAACCCGC
* * *
128008242 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
128008288 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
128008338 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
128008381 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
128008418 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:128015921 original size:93 final size:93
Alignment explanation
Indices: 128015809--128015980 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128015799 CGCCCATAAG
* *
128015809 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128015874 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
128015902 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128015967 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
128015981 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:128015977 original size:46 final size:46
Alignment explanation
Indices: 128015802--128015977 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128015792 TGTAACCCGC
* * *
128015802 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
128015848 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
128015898 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
128015941 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
128015978 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:128032081 original size:17 final size:17
Alignment explanation
Indices: 128032059--128032094 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
128032049 AGTCCCTCCC
128032059 AACCCTTAAAATAGAAG
1 AACCCTTAAAATAGAAG
128032076 AACCCTTAAAATAGAAG
1 AACCCTTAAAATAGAAG
128032093 AA
1 AA
128032095 TAAATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.17
Consensus pattern (17 bp):
AACCCTTAAAATAGAAG
Found at i:128033020 original size:17 final size:18
Alignment explanation
Indices: 128032998--128033035 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
128032988 ATTAAATTAA
*
128032998 AAAAAAATT-CCTAAATT
1 AAAAAAATTACCAAAATT
128033015 AAAAAAATTACCAAAATT
1 AAAAAAATTACCAAAATT
128033033 AAA
1 AAA
128033036 GATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAAATTACCAAAATT
Found at i:128033020 original size:18 final size:19
Alignment explanation
Indices: 128032990--128033035 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
128032980 GTTCAAGAAT
128032990 TAAATTAAAAAAAAATT-CC
1 TAAATT-AAAAAAAATTACC
128033009 TAAATT-AAAAAAATTACC
1 TAAATTAAAAAAAATTACC
*
128033027 AAAATTAAA
1 TAAATTAAA
128033036 GATTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 8 0.33
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAATTAAAAAAAATTACC
Found at i:128033545 original size:19 final size:20
Alignment explanation
Indices: 128033517--128033557 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
128033507 AAAAACACTT
* *
128033517 CATTTTGGCAT-TTTTCCAA
1 CATTTAGGCATATTTTCAAA
128033536 CATTTAGGCATATTTTCAAA
1 CATTTAGGCATATTTTCAAA
128033556 CA
1 CA
128033558 CTTAATATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
CATTTAGGCATATTTTCAAA
Found at i:128034866 original size:11 final size:12
Alignment explanation
Indices: 128034852--128034884 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
128034842 TATATATTTT
128034852 AAAATT-ATATA
1 AAAATTAATATA
128034863 AAAATTAATAT-
1 AAAATTAATATA
128034874 AAAATTAATAT
1 AAAATTAATAT
128034885 GGGCGGGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:128037526 original size:72 final size:72
Alignment explanation
Indices: 128037437--128037780 Score: 530
Period size: 72 Copynumber: 4.8 Consensus size: 72
128037427 GGTCACTGTC
* * * *
128037437 CCACCAG-TGACAGTCCCTCCAATAGTAAAACCA-CCAGTTACAGTCCCACCAGTGACTGTTCCT
1 CCACCAGTTGA-ACTCCCTCCGATTGCAAAACCACCCA-TTACAGTCCCACCAGTGACTGTTCCT
*
128037500 CCTGTGAAG
64 CCTGTAAAG
128037509 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
1 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
128037574 TGTAAAG
66 TGTAAAG
*
128037581 CCACCTGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
1 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
*
128037646 TGTGAAG
66 TGTAAAG
128037653 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
1 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
128037718 TGTAAAG
66 TGTAAAG
* * * * * * *
128037725 CCACCTGTTGATCTCCCTCCAATTGCTAAGCCACCCATTACGGTTCCACCAGTGAC
1 CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGAC
128037781 CATCCCTCCA
Statistics
Matches: 254, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
72 248 0.98
73 6 0.02
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.23
Consensus pattern (72 bp):
CCACCAGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCC
TGTAAAG
Found at i:128037637 original size:144 final size:145
Alignment explanation
Indices: 128037450--128038011 Score: 770
Period size: 144 Copynumber: 3.8 Consensus size: 145
128037440 CCAGTGACAG
* *
128037450 TCCCTCCAATAGTAAAACCA-CCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
1 TCCCTCCAATTGCAAAACCACCCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
*
128037514 AGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAA
66 AGTTGAACTCCCTCCAATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAA
128037579 AGCCACCTGTTGAAC
131 AGCCACCTGTTGAAC
*
128037594 TCCCTCCGATTGCAAAACCACCCA-TTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
1 TCCCTCCAATTGCAAAACCACCCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
*
128037658 AGTTGAACTCCCTCCGATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAA
66 AGTTGAACTCCCTCCAATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAA
*
128037723 AGCCACCTGTTGATC
131 AGCCACCTGTTGAAC
* * *
128037738 TCCCTCCAATTGCTAAGCCACCCATTACGGTTCCACCAGTGACCATCCCTCCAGTGACTGTTCCT
1 TCCCTCCAATTGCAAAACCACCC---A--GTT--A-CA--G----TCCCACCAGTGACTGTTCCT
* * * * *
128037803 CCTGTTAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCCATTACAGTTCCACCAGTGAC
52 CCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAAACCACCCATTACAGTCCCACCAGTGAC
* * *
128037868 TGTTCCTCCTGTGAAGCCACCAGTTGAGC
117 TGTTCCTCCTGTAAAGCCACCTGTTGAAC
*
128037897 TCCCTCCAATTGCAAAGCCACCCA-TTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
1 TCCCTCCAATTGCAAAACCACCCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
* * * * *
128037961 AGTTGACCTCCCTCCAATTGCAAAACCGCCCATCACAGTTCCTCCAGTGAC
66 AGTTGAACTCCCTCCAATTGCAAAACCACCCATTACAGTCCCACCAGTGAC
128038012 CCTCCCAGTC
Statistics
Matches: 376, Mismatches: 26, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
144 233 0.62
145 3 0.01
147 1 0.00
148 1 0.00
150 4 0.01
151 1 0.00
152 1 0.00
153 4 0.01
155 1 0.00
156 1 0.00
159 126 0.34
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.24
Consensus pattern (145 bp):
TCCCTCCAATTGCAAAACCACCCAGTTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACC
AGTTGAACTCCCTCCAATTGCAAAACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAA
AGCCACCTGTTGAAC
Found at i:128037846 original size:72 final size:72
Alignment explanation
Indices: 128037783--128038011 Score: 359
Period size: 72 Copynumber: 3.2 Consensus size: 72
128037773 CCAGTGACCA
* * * *
128037783 TCCCTCCAGTGACTGTTCCTCCTGTTAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
1 TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAGCCACCC
128037848 ATTACAG
66 ATTACAG
* *
128037855 TTCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAAGCCACCC
1 TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAGCCACCC
128037920 ATTACAG
66 ATTACAG
* *
128037927 TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCGCCC
1 TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAGCCACCC
*
128037992 ATCACAG
66 ATTACAG
* *
128037999 TTCCTCCAGTGAC
1 TCCCACCAGTGAC
128038012 CCTCCCAGTC
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.22, C:0.38, G:0.15, T:0.24
Consensus pattern (72 bp):
TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAGCCACCC
ATTACAG
Found at i:128037870 original size:231 final size:235
Alignment explanation
Indices: 128037552--128038191 Score: 874
Period size: 231 Copynumber: 2.7 Consensus size: 235
128037542 CCCATTACAG
* *
128037552 TCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGAACTCCCTCCGATTGCAAAACCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGAACTCCCTCCAATTGCAAAACCACCC
*
128037617 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCGATTGCAAA
66 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAA
* *
128037682 ACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAA
131 ACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAA
* * * *
128037747 TTGCTAAGCCACCCATTACGGTTCCACCAGTG-A-CC-A-
196 TTGCAAAACCACCCATCACAGTTCCACCAGTGCACCCTAC
* * *
128037783 TCCCTCCAGTGACTGTTCCTCCTGTTAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGAACTCCCTCCAATTGCAAAACCACCC
* *
128037848 ATTACAGTTCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAA
66 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAA
* *
128037913 GCCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAA
131 ACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAA
* *
128037978 TTGCAAAACCGCCCATCACAGTTCCTCCAGTGACCCTCCCAGTCCCTCCAGTTAC
196 TTGCAAAACCACCCATCACAGTTCCACCAGTG-------CA----C-CC---TAC
* *
128038033 TGTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCAC
1 --TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGAACTCCCTCCAATTGCAAAACCAC
* *
128038098 CCATCACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCA
64 CCATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCA
* * *
128038163 AAACCACCAATCACAGTCCCTCCAGTGAC
129 AAACCACCCATTACAGTCCCACCAGTGAC
128038192 CGTCCCAGTC
Statistics
Matches: 359, Mismatches: 29, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
231 209 0.58
239 1 0.00
245 2 0.01
249 1 0.00
252 146 0.41
ACGTcount: A:0.23, C:0.39, G:0.15, T:0.24
Consensus pattern (235 bp):
TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGAACTCCCTCCAATTGCAAAACCACCC
ATTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAA
ACCACCCATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAA
TTGCAAAACCACCCATCACAGTTCCACCAGTGCACCCTAC
Found at i:128037876 original size:87 final size:87
Alignment explanation
Indices: 128037696--128037867 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
128037686 CCCATTACAG
* *
128037696 TCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAATTGCTAAGCCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
*
128037761 ATTACGGTTCCACCAGTGACCA
66 ATTACAGTTCCACCAGTGACCA
*
128037783 TCCCTCCAGTGACTGTTCCTCCTGTTAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
128037848 ATTACAGTTCCACCAGTGAC
66 ATTACAGTTCCACCAGTGAC
128037868 TGTTCCTCCT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.22, C:0.38, G:0.15, T:0.26
Consensus pattern (87 bp):
TCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
ATTACAGTTCCACCAGTGACCA
Found at i:128037948 original size:159 final size:159
Alignment explanation
Indices: 128037624--128037939 Score: 515
Period size: 159 Copynumber: 2.0 Consensus size: 159
128037614 CCCATTACAG
* *
128037624 TCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCGATTGCAAAACCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAAACCACCC
* * *
128037689 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCTGTTGATCTCCCTCCAATTGCTAA
66 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGAGCTCCCTCCAATTGCAAA
* *
128037754 GCCACCCATTACGGTTCCACCAGTGACCA
131 GCCACCCATTACAGTCCCACCAGTGACCA
* * * *
128037783 TCCCTCCAGTGACTGTTCCTCCTGTTAAGCCACCTGTTGATCTCCCTCCAATTGCAAAGCCACCC
1 TCCCTCCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAAACCACCC
* *
128037848 ATTACAGTTCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAA
66 ATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGAGCTCCCTCCAATTGCAAA
128037913 GCCACCCATTACAGTCCCACCAGTGAC
131 GCCACCCATTACAGTCCCACCAGTGAC
128037940 TGTTCCTCCT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 144 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.24
Consensus pattern (159 bp):
TCCCTCCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAACTCCCTCCAATTGCAAAACCACCC
ATTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGAGCTCCCTCCAATTGCAAA
GCCACCCATTACAGTCCCACCAGTGACCA
Found at i:128038039 original size:15 final size:15
Alignment explanation
Indices: 128038019--128038056 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
128038009 GACCCTCCCA
*
128038019 GTCCCTCCAGTTACT
1 GTCCCTCCAGTGACT
128038034 GTCCCTCCAGTGACT
1 GTCCCTCCAGTGACT
*
128038049 GTTCCTCC
1 GTCCCTCC
128038057 TGTAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.42, G:0.16, T:0.32
Consensus pattern (15 bp):
GTCCCTCCAGTGACT
Found at i:128038053 original size:108 final size:108
Alignment explanation
Indices: 128037921--128038119 Score: 344
Period size: 108 Copynumber: 1.8 Consensus size: 108
128037911 AAGCCACCCA
*
128037921 TTACAGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
1 TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
* * *
128037986 CCGCCCATCACAGTTCCTCCAGTGACCCTCCCAGTCCCTCCAG
66 CCACCCATCACAGTCCCACCAGTGACCCTCCCAGTCCCTCCAG
* *
128038029 TTACTGTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
1 TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
128038094 CCACCCATCACAGTCCCACCAGTGAC
66 CCACCCATCACAGTCCCACCAGTGAC
128038120 TGTTCCTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.23
Consensus pattern (108 bp):
TTACAGTCCCACCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAA
CCACCCATCACAGTCCCACCAGTGACCCTCCCAGTCCCTCCAG
Found at i:128038067 original size:180 final size:180
Alignment explanation
Indices: 128037860--128038299 Score: 781
Period size: 180 Copynumber: 2.4 Consensus size: 180
128037850 TACAGTTCCA
* * * *
128037860 CCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGAGCTCCCTCCAATTGCAAAGCCACCCATTAC
1 CCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
*
128037925 AGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCGC
66 AGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCAC
* * *
128037990 CCATCACAGTTCCTCCAGTGACCCTCCCAGTCCCTCCAGTTACTGTCCCT
131 CAATCACAGTCCCTCCAGTGACCCTCCCAGTCCCTCCAGTAACTGTCCCT
128038040 CCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
1 CCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
128038105 AGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCAC
66 AGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCAC
*
128038170 CAATCACAGTCCCTCCAGTGACCGTCCCAGTCCCTCCAGTAACTGTCCCT
131 CAATCACAGTCCCTCCAGTGACCCTCCCAGTCCCTCCAGTAACTGTCCCT
* *
128038220 CCAGTGACTGTTCCTCCCGTAAAACCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
1 CCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
128038285 AGTCCCACCAGTGAC
66 AGTCCCACCAGTGAC
128038300 CGTCCCAGTC
Statistics
Matches: 249, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 249 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.22
Consensus pattern (180 bp):
CCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACCCATCAC
AGTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCAC
CAATCACAGTCCCTCCAGTGACCCTCCCAGTCCCTCCAGTAACTGTCCCT
Found at i:128038116 original size:72 final size:72
Alignment explanation
Indices: 128038034--128038191 Score: 289
Period size: 72 Copynumber: 2.2 Consensus size: 72
128038024 TCCAGTTACT
128038034 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
*
128038099 CATCACA
66 AATCACA
* *
128038106 GTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
128038171 AATCACA
66 AATCACA
128038178 GTCCCTCCAGTGAC
1 GTCCCTCCAGTGAC
128038192 CGTCCCAGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 82 1.00
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.22
Consensus pattern (72 bp):
GTCCCTCCAGTGACTGTTCCTCCTGTAAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
AATCACA
Found at i:128038202 original size:21 final size:21
Alignment explanation
Indices: 128038176--128038218 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
128038166 CCACCAATCA
*
128038176 CAGTCCCTCCAGTGACCGTCC
1 CAGTCCCTCCAGTAACCGTCC
*
128038197 CAGTCCCTCCAGTAACTGTCC
1 CAGTCCCTCCAGTAACCGTCC
128038218 C
1 C
128038219 TCCAGTGACT
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:0.16, C:0.47, G:0.16, T:0.21
Consensus pattern (21 bp):
CAGTCCCTCCAGTAACCGTCC
Found at i:128038219 original size:15 final size:15
Alignment explanation
Indices: 128038199--128038241 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
128038189 GACCGTCCCA
128038199 GTCCCTCCAGTAACT
1 GTCCCTCCAGTAACT
*
128038214 GTCCCTCCAGTGACT
1 GTCCCTCCAGTAACT
* *
128038229 GTTCCTCCCGTAA
1 GTCCCTCCAGTAA
128038242 AACCACCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.16, C:0.40, G:0.16, T:0.28
Consensus pattern (15 bp):
GTCCCTCCAGTAACT
Found at i:128038225 original size:108 final size:108
Alignment explanation
Indices: 128038106--128038334 Score: 368
Period size: 108 Copynumber: 2.1 Consensus size: 108
128038096 ACCCATCACA
* * * *
128038106 GTCCCACCAGTGACTGTTCCTCCTGTGAAGCCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCCGTAAAACCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
* *
128038171 AATCACAGTCCCTCCAGTGACCGTCCCAGTCCCTCCAGTAACT
66 AATCACAGTCCCACCAGTGACCGTCCCAGTCCCACCAGTAACT
128038214 GTCCCTCCAGTGACTGTTCCTCCCGTAAAACCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
1 GTCCCTCCAGTGACTGTTCCTCCCGTAAAACCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
* *
128038279 CATCACAGTCCCACCAGTGACCGTCCCAGTCCCACCAGTGACT
66 AATCACAGTCCCACCAGTGACCGTCCCAGTCCCACCAGTAACT
* *
128038322 GTTCCTCCTGTGA
1 GTCCCTCCAGTGA
128038335 AACCACCTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.23, C:0.41, G:0.15, T:0.21
Consensus pattern (108 bp):
GTCCCTCCAGTGACTGTTCCTCCCGTAAAACCACCAGTTGACCTCCCTCCAATTGCAAAACCACC
AATCACAGTCCCACCAGTGACCGTCCCAGTCCCACCAGTAACT
Found at i:128040610 original size:13 final size:13
Alignment explanation
Indices: 128040592--128040616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128040582 TTTACCATCG
128040592 ATTTACTTTACCA
1 ATTTACTTTACCA
128040605 ATTTACTTTACC
1 ATTTACTTTACC
128040617 CTGACGGATG
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:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTACTTTACCA
Found at i:128043077 original size:12 final size:12
Alignment explanation
Indices: 128043060--128043084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128043050 TAATACCTGC
128043060 AAAAACAAAAAA
1 AAAAACAAAAAA
128043072 AAAAACAAAAAA
1 AAAAACAAAAAA
128043084 A
1 A
128043085 TTAAGGGAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:128043276 original size:17 final size:18
Alignment explanation
Indices: 128043246--128043279 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
128043236 ATACTCCAGG
128043246 TATACATTTGAAAATATA
1 TATACATTTGAAAATATA
*
128043264 TATA-ATTTTAAAATAT
1 TATACATTTGAAAATAT
128043280 TAAAATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
TATACATTTGAAAATATA
Found at i:128045299 original size:16 final size:18
Alignment explanation
Indices: 128045256--128045301 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
128045246 ATATATTGTA
128045256 TTTTAAAATATTATTATT
1 TTTTAAAATATTATTATT
* * *
128045274 TTTGAATAAAAATATTATT
1 TTTTAA-AATATTATTATT
128045293 TTTTAAAAT
1 TTTTAAAAT
128045302 TAGCTGGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAAAATATTATTATT
Found at i:128057816 original size:18 final size:17
Alignment explanation
Indices: 128057783--128057830 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
128057773 AAATATATTG
*
128057783 TTTAACAATATTTTTAT
1 TTTAAAAATATTTTTAT
128057800 TTTAAAAATACTTTTTAT
1 TTTAAAAATA-TTTTTAT
* *
128057818 CTCAAAAATATTT
1 TTTAAAAATATTT
128057831 CTTAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAAAATATTTTTAT
Found at i:128067299 original size:12 final size:12
Alignment explanation
Indices: 128067282--128067307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
128067272 TACATATATG
128067282 TACACACATACA
1 TACACACATACA
128067294 TACACACATACA
1 TACACACATACA
128067306 TA
1 TA
128067308 TAGCTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (12 bp):
TACACACATACA
Found at i:128073109 original size:2 final size:2
Alignment explanation
Indices: 128073102--128073134 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
128073092 AATTAGTGCT
128073102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128073135 GCAAACTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:128074241 original size:18 final size:17
Alignment explanation
Indices: 128074220--128074253 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
128074210 ACAAATGATC
*
128074220 TCAAATTTCAAAATTCAT
1 TCAAAGTTC-AAATTCAT
128074238 TCAAAGTTCAAATTCA
1 TCAAAGTTCAAATTCA
128074254 GTGAGTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (17 bp):
TCAAAGTTCAAATTCAT
Found at i:128076720 original size:25 final size:26
Alignment explanation
Indices: 128076692--128076740 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
128076682 TTTAATATTA
*
128076692 TTTTCTATATTATCTTTTT-GTATCG
1 TTTTATATATTATCTTTTTCGTATCG
* *
128076717 TTTTATATTTTATTTTTTTCGTAT
1 TTTTATATATTATCTTTTTCGTAT
128076741 TATATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTATATATTATCTTTTTCGTATCG
Found at i:128081982 original size:43 final size:44
Alignment explanation
Indices: 128081921--128082019 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 44
128081911 ATCCTAATTG
* * *
128081921 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-
1 AGAAAATAGTTTCTTTATTCTAATAAACTACTAAAAAATAAAAT
*
128081964 AGAAAATAGTTTCTTTATTCTAGTAAACTACTAAAAAATAAAAT
1 AGAAAATAGTTTCTTTATTCTAATAAACTACTAAAAAATAAAAT
128082008 A-AAAATA-TTTCT
1 AGAAAATAGTTTCT
128082020 AGAATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 5 0.10
43 45 0.88
44 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (44 bp):
AGAAAATAGTTTCTTTATTCTAATAAACTACTAAAAAATAAAAT
Found at i:128082058 original size:19 final size:18
Alignment explanation
Indices: 128082036--128082075 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
128082026 TGAATAAAAC
128082036 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
128082055 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
128082073 TTA
1 TTA
128082076 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:128085098 original size:40 final size:39
Alignment explanation
Indices: 128085036--128085259 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 39
128085026 CGGATGATAA
* * *
128085036 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACT-ATT
*
128085076 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAT-T
* *
128085116 CCGGGCTAAGTTCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAT-T
** * * * *
128085156 CCGGGCTAAGTCCTAAAGGCGTTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATT
* * * * *
128085195 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAT-T
128085235 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
128085260 AGCTAGTGGT
Statistics
Matches: 159, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 33 0.21
40 123 0.77
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATT
Found at i:128085291 original size:79 final size:79
Alignment explanation
Indices: 128085076--128085292 Score: 240
Period size: 79 Copynumber: 2.7 Consensus size: 79
128085066 GTGGCTAATT
* * *
128085076 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTTCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TATTATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
128085141 TGCGAGCTACTATAT
65 TGCAAGCTACCATAA
** * * *
128085156 CCGGGCTAAGTCCTAAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TATTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
128085220 TGCAAGTTACCATAA
65 TGCAAGCTACCATAA
* * * **
128085235 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGTTATATCC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ATTATATCCGGGCTAAGTCCCGAAGG
128085293 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
78 1 0.01
79 77 0.68
80 35 0.31
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
GCAAGCTACCATAA
Found at i:128090040 original size:43 final size:44
Alignment explanation
Indices: 128089979--128090071 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
128089969 TCCTAATTGG
128089979 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
128090022 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
128090066 -AAAATA
1 GAAAATA
128090072 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:128090131 original size:18 final size:19
Alignment explanation
Indices: 128090085--128090132 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
128090075 CTAGAATATG
*
128090085 AATAAAACTTATCTACCCA
1 AATAAAATTTATCTACCCA
*
128090104 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCCA
128090123 AAT-AAATTTA
1 AATAAAATTTA
128090133 AAATATATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAATTTATCTACCCA
Found at i:128096849 original size:31 final size:29
Alignment explanation
Indices: 128096804--128096864 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
128096794 ACTCAAATTT
* *
128096804 TAAAAAAATTAATAATATAATGATTTAAA
1 TAAAAAAATTAATAATATAAGGACTTAAA
*
128096833 TAAAAAAATTTAAATAATTTAAGGACTTAAA
1 TAAAAAAA-TT-AATAATATAAGGACTTAAA
128096864 T
1 T
128096865 CAATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 2 0.07
31 17 0.63
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAAAAAATTAATAATATAAGGACTTAAA
Found at i:128100013 original size:183 final size:183
Alignment explanation
Indices: 128099705--128100305 Score: 1148
Period size: 183 Copynumber: 3.3 Consensus size: 183
128099695 CTGAAATTCC
128099705 CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
1 CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
128099770 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
66 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
128099835 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
131 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
*
128099888 CAACAAAGAAAAATCAATCACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
1 CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
128099953 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
66 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
128100018 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
131 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
*
128100071 CAACAAAGAAAAATCAATCACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
1 CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
128100136 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
66 TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
128100201 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
131 AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
* * * *
128100254 CAACAAAGAACAATCAATAACCTGAAACTACCCAAAGATCATACAAAGCTCC
1 CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCC
128100306 ATAAAATTTC
Statistics
Matches: 412, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 412 1.00
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.19
Consensus pattern (183 bp):
CAACAAAGAAAAATCAATAACCTAAAACTACCCAAAGAACATATAAAGCTCCTTCAAGGATTTAA
TCCAATTCTCAAATCATATATTCAAAGCTAACCCTAAGCTAAAACAAAAAGAACCCGTAGCTCAA
AATCAAAACCATGTCTCCTCAGTGAGACATAACATCAAACACATCAACTACAA
Found at i:128101085 original size:2 final size:2
Alignment explanation
Indices: 128101080--128101107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
128101070 TTTTTTCTTT
128101080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
128101108 ATTTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:128103852 original size:63 final size:63
Alignment explanation
Indices: 128103778--128103903 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
128103768 ATTTAACCTT
128103778 AAAAAAAATTTATTAATATTCATTTTTCTAAAATATAATTTAAAAATAAAATAAAAAAATCTC
1 AAAAAAAATTTATTAATATTCATTTTTCTAAAATATAATTTAAAAATAAAATAAAAAAATCTC
128103841 AAAAAAAATTTATTAATATTCATTTTTCTAAAATATAATTTAAAAATAAAATAAAAAAATCTC
1 AAAAAAAATTTATTAATATTCATTTTTCTAAAATATAATTTAAAAATAAAATAAAAAAATCTC
128103904 CCAAGGAAAA
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:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (63 bp):
AAAAAAAATTTATTAATATTCATTTTTCTAAAATATAATTTAAAAATAAAATAAAAAAATCTC
Found at i:128105480 original size:11 final size:11
Alignment explanation
Indices: 128105464--128105488 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
128105454 ATTAAATTGA
128105464 TTAAATTAATT
1 TTAAATTAATT
128105475 TTAAATTAATT
1 TTAAATTAATT
128105486 TTA
1 TTA
128105489 TTAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAAATTAATT
Found at i:128106747 original size:13 final size:13
Alignment explanation
Indices: 128106729--128106756 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
128106719 TAGACTCATA
128106729 AACCAATTGAATC
1 AACCAATTGAATC
128106742 AACCAATTGAATC
1 AACCAATTGAATC
128106755 AA
1 AA
128106757 TTAAACTAAT
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:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AACCAATTGAATC
Found at i:128109467 original size:17 final size:17
Alignment explanation
Indices: 128109427--128109474 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
128109417 TGAAAATTTT
128109427 AAGTTATTTAGA-TTTA
1 AAGTTATTTAGAGTTTA
* *
128109443 GA-TTATTTCGAGTTTA
1 AAGTTATTTAGAGTTTA
*
128109459 AAGTTATTTTGAGTTT
1 AAGTTATTTAGAGTTT
128109475 TGGTTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 12 0.46
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (17 bp):
AAGTTATTTAGAGTTTA
Found at i:128113372 original size:17 final size:19
Alignment explanation
Indices: 128113331--128113372 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
128113321 AAAAATAGTT
*
128113331 ATATTAAAAATTTAAAATA
1 ATATTAAAAATATAAAATA
128113350 AT-TTAAAAA-ATAAAA-A
1 ATATTAAAAATATAAAATA
128113366 ATATTAA
1 ATATTAA
128113373 TATTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.43
18 7 0.33
19 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATTAAAAATATAAAATA
Found at i:128116810 original size:179 final size:179
Alignment explanation
Indices: 128116491--128116818 Score: 392
Period size: 179 Copynumber: 1.8 Consensus size: 179
128116481 TTTCTTACTA
* *
128116491 GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTGAAAAGCCGGGATATT
1 GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTAAAAAGCCGGGAGATT
* * * * ** **
128116556 CCAACAAAAATGAGATGAGATCAACTCCGGGGTTTCATGAAATCACCTATTCTAGACGTATGCAG
66 CCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAACCAG
* *
128116621 TGGGAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
131 TAGAAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
* * * *
128116670 GAAATCATCTATTCTAAACATATTCAATGGGAAGCAACTATCA-TCTTAGCTAAAAAGCTGGGAG
1 GAAATCACCTATTCTAAACATATGC-ATGGCAAGCAACT-TCACT-TTAGCTAAAAAGCCGGGAG
** * * * * *
128116734 ATTCTGACAAAAATGA-ATCA-TTCGATTCCTGGATTTCACGAAATTACCTATTCTAAACACAAC
63 ATTCCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAAC
*
128116797 CTGTAGAAAGCAACTATCATCT
128 CAGTAGAAAGCAACTATCATCT
128116819 AAAAAGCTGG
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
179 73 0.60
180 16 0.13
181 33 0.27
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (179 bp):
GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTAAAAAGCCGGGAGATT
CCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAACCAG
TAGAAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
Found at i:128117804 original size:185 final size:184
Alignment explanation
Indices: 128117484--128118020 Score: 685
Period size: 182 Copynumber: 2.9 Consensus size: 184
128117474 CATACAAAAT
* * * *
128117484 GATCTTCCAAATAGATAGAAAAAACTTTCAAAAAATAAAGCATACT-AGTATTGGACACGTACCC
1 GATCTTCCAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCACT-TTGGACATGTACCC
* * * *** ** * ** *
128117548 ATATCCAGTACTTACCCAAGTCGGAGTAATATATTAATT-AGT-TATAATTAGACCCTAAAAGGA
65 GTAGCCGGTACTTACATGAGTCCAAGTAACATGCTAATTAATTATATAATTAGACCCTAAAAGGA
* * * * *
128117611 CGGTCTCTTCATAAACATACAAATTAAAGGCACATATATATAGATAGATATAGATAC
130 CAGTCTCTTCATAAACATACAAATTAAAGGCACATATATATACATACAGAT--ACAC
* *
128117668 GATCCTT-CAAATAGATAGAAAAACCTTT-GAAAAATAAAGCATACTCACTTTGGACATGTACCC
1 GAT-CTTCCAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCACTTTGGACATGTACCC
* * *
128117731 GTAGCCGGTCCTTATATGAGTCCAAGTAACATG-TCAATTAATTATATAATTAGACCCTAAAAAG
65 GTAGCCGGTACTTACATGAGTCCAAGTAACATGCT-AATTAATTATATAATTAGACCCTAAAAGG
* * *
128117795 ACAGTCTCTTCATAAACATACAAATTAAAGGCAC--ACACACACATACAGATACAC
129 ACAGTCTCTTCATAAACATACAAATTAAAGGCACATATATATACATACAGATACAC
*
128117849 GATCTTCCAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCGCTTTGGACATGTACCCG
1 GATCTTCCAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCACTTTGGACATGTACCCG
*
128117914 TAGCCGGTACTTACATGAGTCCGAGTAACATGCTAATTAATTATATAATTAGACCCTAAAAGGAC
66 TAGCCGGTACTTACATGAGTCCAAGTAACATGCTAATTAATTATATAATTAGACCCTAAAAGGAC
*
128117979 AGTCTCTTCATAAACAGACAAATTAAAGGCACATATATATAC
131 AGTCTCTTCATAAACATACAAATTAAAGGCACATATATATAC
128118021 CAAAGGATCA
Statistics
Matches: 306, Mismatches: 37, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
180 3 0.01
181 25 0.08
182 126 0.41
183 65 0.21
184 32 0.10
185 55 0.18
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (184 bp):
GATCTTCCAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCACTTTGGACATGTACCCG
TAGCCGGTACTTACATGAGTCCAAGTAACATGCTAATTAATTATATAATTAGACCCTAAAAGGAC
AGTCTCTTCATAAACATACAAATTAAAGGCACATATATATACATACAGATACAC
Found at i:128118232 original size:244 final size:244
Alignment explanation
Indices: 128117856--128118528 Score: 1109
Period size: 244 Copynumber: 2.8 Consensus size: 244
128117846 CACGATCTTC
* * * * * ***
128117856 CAAATAGATAAAAAAAACTTTCGAAAAATAAAGCATACTCGCT-TTGGACATGTACCCGTAGCCG
1 CAAATAGAT-AGAAAAACTTTCGAAAAATAGAGCATATTCG-TATTAGACACGTACCCGTATTTG
* * * ** *
128117920 GTACTTACATGAGTCC-GAGTAACATGCTAATTAATTATATAATTAGACCCTAAAAGGAC-AGTC
64 GTACATACCTGAGTCCAAAGTAACATATTAATTAA-T-TATAATTAGACCCTAAAAAGACAAGTC
* *
128117983 TCTTCATAAACAGACAAATTAAAGGCACATATATATACCAAAGGATCATTAACAATTATCTGTTC
127 TCTTCATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACAATTATCTGTTC
128118048 TTCATTTTCCATCAAGTATTGTGCCCAAAACCCATGTTCGATATATGATCATT
192 TTCATTTTCCATCAAGTATTGTGCCCAAAACCCATGTTCGATATATGATCATT
128118101 CAAATAGATAGAAAAACTTTCGAAAAATAGAGCATATTCGTATTAGACACGTACCCGTATTTGGT
1 CAAATAGATAGAAAAACTTTCGAAAAATAGAGCATATTCGTATTAGACACGTACCCGTATTTGGT
*
128118166 ACATACCTGAATCCAAAGTAACATATTAATTAATTATAATTAGACCCTAAAAAGACAAGTCTCTT
66 ACATACCTGAGTCCAAAGTAACATATTAATTAATTATAATTAGACCCTAAAAAGACAAGTCTCTT
128118231 CATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACAATTATCTGTTCTTCA
131 CATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACAATTATCTGTTCTTCA
* *
128118296 TTTTCCATCAAGTATTGTGCCCAAAACCGATGTTCGATATATGATCCTT
196 TTTTCCATCAAGTATTGTGCCCAAAACCCATGTTCGATATATGATCATT
128118345 CAAATAGATAGAAAAACTTTCGAAAAATAGAGCATATTCGTATTAGACACGTACCCGTATTTGGT
1 CAAATAGATAGAAAAACTTTCGAAAAATAGAGCATATTCGTATTAGACACGTACCCGTATTTGGT
128118410 ACATACCTGAGTCCAAAGTAACATATTAATTAATTATAATTAGACCCTAAAAAGACAAGTCTCTT
66 ACATACCTGAGTCCAAAGTAACATATTAATTAATTATAATTAGACCCTAAAAAGACAAGTCTCTT
*
128118475 CATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACCATTA
131 CATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACAATTA
128118529 ATACCCATGC
Statistics
Matches: 404, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
243 22 0.05
244 358 0.89
245 24 0.06
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (244 bp):
CAAATAGATAGAAAAACTTTCGAAAAATAGAGCATATTCGTATTAGACACGTACCCGTATTTGGT
ACATACCTGAGTCCAAAGTAACATATTAATTAATTATAATTAGACCCTAAAAAGACAAGTCTCTT
CATAAACATACAAATTAAAGGCACATATATATACCAAAGGATCATAAACAATTATCTGTTCTTCA
TTTTCCATCAAGTATTGTGCCCAAAACCCATGTTCGATATATGATCATT
Found at i:128122156 original size:11 final size:10
Alignment explanation
Indices: 128122136--128122160 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
128122126 TAAAATTCGT
128122136 AAAAATAAAA
1 AAAAATAAAA
128122146 AAAAATAAAA
1 AAAAATAAAA
128122156 AAAAA
1 AAAAA
128122161 GTGGGAGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:128129476 original size:23 final size:23
Alignment explanation
Indices: 128129445--128129528 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
128129435 TTATAAATCG
128129445 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
128129467 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
128129493 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
128129515 AAATTAATATTAAT
1 AAA-TATTATTAAT
128129529 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:128129536 original size:26 final size:26
Alignment explanation
Indices: 128129449--128129537 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
128129439 AAATCGAAAT
128129449 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
128129472 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
128129495 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
128129521 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
128129538 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:128130261 original size:18 final size:18
Alignment explanation
Indices: 128130238--128130273 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
128130228 AAATTTACTC
128130238 TTTTTTTTAAGTAAAATA
1 TTTTTTTTAAGTAAAATA
128130256 TTTTTTTTAAGTAAAATA
1 TTTTTTTTAAGTAAAATA
128130274 AAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTTTTTAAGTAAAATA
Found at i:128133226 original size:23 final size:22
Alignment explanation
Indices: 128133187--128133231 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
128133177 TATTAAAACG
* * *
128133187 ATAAAATTATATTTTTACTTTC
1 ATAAAAATATATATTTAATTTC
128133209 ATAAAAATATATAATTTAATTTC
1 ATAAAAATATAT-ATTTAATTTC
128133232 TGCCCCTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAAATATATATTTAATTTC
Found at i:128138122 original size:88 final size:83
Alignment explanation
Indices: 128137961--128138126 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 83
128137951 TAAAAAACTG
* * * *
128137961 TCAAACTTTTTTAAAAAAATTAAGCCTCTAATTTTTTTCACTTAATTAGGATCTTGAACTTTTAA
1 TCAAACTTTTTTAAAAAAATTAAGCCTCTAATTTTTTTCACTCAATTAGGATCTTAAACTATCAA
128138026 AATGCATCAAAAAAGCCT
66 AATGCATCAAAAAAGCCT
* *
128138044 TCAAACTTTTTTAAAAAAAATAACTAAG-CTCCTACTTTTTTTTCACTCAATT-GGGTACTTAAA
1 TCAAACTTTTTT-AAAAAAAT---TAAGCCT-CTA-ATTTTTTTCACTCAATTAGGAT-CTTAAA
128138107 CTATCAAAATGCATCAAAAA
59 CTATCAAAATGCATCAAAAA
128138127 GGCCCTTTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
83 12 0.17
84 8 0.11
86 2 0.03
87 10 0.14
88 38 0.54
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (83 bp):
TCAAACTTTTTTAAAAAAATTAAGCCTCTAATTTTTTTCACTCAATTAGGATCTTAAACTATCAA
AATGCATCAAAAAAGCCT
Found at i:128138285 original size:21 final size:21
Alignment explanation
Indices: 128138261--128138304 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
128138251 ATGTTTTAAT
**
128138261 AAAAATATTAAAAATTAGAAA
1 AAAAATAGAAAAAATTAGAAA
*
128138282 AAAAATAGAAAAAATTATAAA
1 AAAAATAGAAAAAATTAGAAA
128138303 AA
1 AA
128138305 TAGTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATAGAAAAAATTAGAAA
Found at i:128138318 original size:19 final size:19
Alignment explanation
Indices: 128138259--128138324 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
128138249 TTATGTTTTA
* *
128138259 ATAAAAATATTAAAAATTAGA
1 ATAAAAATAGTAAAAATT--T
* *
128138280 AAAAAAATAG-AAAAAATT
1 ATAAAAATAGTAAAAATTT
128138298 ATAAAAATAGTAAAAATTT
1 ATAAAAATAGTAAAAATTT
128138317 ATAAAAAT
1 ATAAAAAT
128138325 TATCATACCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 9 0.24
19 15 0.39
20 6 0.16
21 8 0.21
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAAATAGTAAAAATTT
Found at i:128138536 original size:20 final size:20
Alignment explanation
Indices: 128138513--128138582 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
128138503 TTTGATGCAA
128138513 TTTATAATTTTTTTACTATT
1 TTTATAATTTTTTTACTATT
** *
128138533 TTTATAA-AATTTTACAATTT
1 TTTATAATTTTTTTACTA-TT
*
128138553 TTTATGACTTTTTTTA-TA-T
1 TTTAT-AATTTTTTTACTATT
128138572 TTTATAATTTT
1 TTTATAATTTT
128138583 AATAAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 5 0.13
19 13 0.33
20 14 0.36
21 2 0.05
22 5 0.13
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTATAATTTTTTTACTATT
Found at i:128138543 original size:29 final size:29
Alignment explanation
Indices: 128138511--128138582 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
128138501 TTTTTGATGC
128138511 AATTTATAATTTTTT-T-ACTATTTTTATAA
1 AATTTATAATTTTTTATGACT-TTTTT-TAA
* *
128138540 AATTTTACAATTTTTTATGACTTTTTTTAT
1 AA-TTTATAATTTTTTATGACTTTTTTTAA
*
128138570 ATTTTATAATTTT
1 AATTTATAATTTT
128138583 AATAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 12 0.33
30 15 0.42
31 6 0.17
32 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (29 bp):
AATTTATAATTTTTTATGACTTTTTTTAA
Found at i:128138640 original size:29 final size:28
Alignment explanation
Indices: 128138563--128138643 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
128138553 TTTATGACTT
* *
128138563 TTTTTATA-TTTTATAATTTTAATAAAA
1 TTTTAATACTTTTATAATTTTATTAAAA
* *
128138590 TTTTAATATTTTTATATTTTTTATTAAAA
1 TTTTAATACTTTTATA-ATTTTATTAAAA
128138619 -TTTAATAACTTTTATAACTTTTATT
1 TTTTAAT-ACTTTTATAA-TTTTATT
128138644 GATTTCTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.16
28 13 0.29
29 25 0.56
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTAATACTTTTATAATTTTATTAAAA
Found at i:128138912 original size:77 final size:77
Alignment explanation
Indices: 128138767--128138912 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 77
128138757 TAACAGTCGA
* ** **
128138767 AGGGCTTTTTTGATGTATTTTAAAAGTTCAAATACCCAATTGCATAAAAAAATGGCTTAATTGTT
1 AGGGCTTTTTTGATGTATTTTAAAAGTTCAAATACCCAATTGCATAAAAAAATAGCAGAATTAAT
128138832 TTTTTTAATTTG
66 TTTTTTAATTTG
* *
128138844 AGGGTCTTTTTT-ATGTATTTTAAAAGTTTAAATACCCAATTG-AGTAAAAAAAATAG-AGATTT
1 AGGG-CTTTTTTGATGTATTTTAAAAGTTCAAATACCCAATTGCA-T-AAAAAAATAGCAGAATT
128138906 AATTTTT
63 AATTTTT
128138913 CTTTTTGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 1 0.02
77 42 0.71
78 16 0.27
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.43
Consensus pattern (77 bp):
AGGGCTTTTTTGATGTATTTTAAAAGTTCAAATACCCAATTGCATAAAAAAATAGCAGAATTAAT
TTTTTTAATTTG
Found at i:128142698 original size:186 final size:186
Alignment explanation
Indices: 128142371--128143029 Score: 634
Period size: 186 Copynumber: 3.4 Consensus size: 186
128142361 TTAAAAAAAA
* * *
128142371 TTTCATTTCGAGA-TCTTAGTTAAGCTTATCGTAGGATTTGATTTTCATTTCTTTATCGGCCGAA
1 TTTCATTTCGA-ACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTT-TATAT-GG-CGGA
* * * *
128142435 TCTTCAGTTATTTATT-TATTTTTGAAATTTTCACTTCGAACACTTAGTTAAGCCTATCGTAGCA
62 TCTTCA--AATTT-TTCT-TTTTT--AATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCA
128142499 TTTGACTTTCATTTCTTTACATGGCGGATCTTCAAATTTTTTTATTTCTTTGCTTTTTTTTTTAA
121 TTTGA-TTTCATTTCTTTACATGGCGGATCTTCAAATTTTTTTATTTCTTTGCTTTTTTTTTTAA
128142564 AT
185 AT
* *
128142566 TTTTATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCA-TTTATATGGCGGATCAT
1 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTTTATATGGCGGATCTT
* *
128142630 CAAATTTTTCTTTCTTAATTTTCATTTCGAACTCTTAGTTGAGCTTATCGTAGCATTTGATTTTC
66 CAAATTTTTCTTTTTTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGA-TTTC
* * * *
128142695 ATTTCTTTATATGTCGGATCTTCAATTTTTTTTTATTTCTCTCTTTCTTTTTTTTTTTGAAAT
130 ATTTCTTTACATGGCGGATCTTCAA-ATTTTTTTA-TT-TCT-TTGC-TTTTTTTTTT-AAAT
* * * * *
128142758 TTTCACTTCGAACACTTACTTAAGCTTATCGAAGCATTTAATTTTCATTTCTTAATATGGCGGAT
1 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCA-TT-TT-ATATGGCGGAT
* * *
128142823 CTTCAAATTTTTGTTTCTCTGTTTGTTTTTTCATTTTCATTTTGAACTCTTAGTTTAGCTTATCG
63 CTTCAAA----T-TTT-TC------TTTTTTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCG
* * * *
128142888 TAGCAGTTGATTTCATTTCTTTACATGGCGCATCTTCAAA--TTTTTGTTTCTCTG--TTTTTTT
116 TAGCATTTGATTTCATTTCTTTACATGGCGGATCTTCAAATTTTTTTATTTCTTTGCTTTTTTTT
*
128142949 TT-CAT
181 TTAAAT
* * * **
128142954 TTTCATTTTGAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCACAT
1 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCA--T-TTTATATGGCGGAT
128143018 CTTCAAATTTTT
63 CTTCAAATTTTT
128143030 GTTTCTCTGT
Statistics
Matches: 392, Mismatches: 46, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
186 67 0.17
187 8 0.02
188 8 0.02
189 9 0.02
190 6 0.02
191 19 0.05
192 47 0.12
193 4 0.01
194 4 0.01
195 65 0.17
196 57 0.15
197 1 0.00
198 9 0.02
200 1 0.00
201 4 0.01
202 5 0.01
203 2 0.01
204 5 0.01
207 26 0.07
208 45 0.11
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (186 bp):
TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTTTATATGGCGGATCTT
CAAATTTTTCTTTTTTAATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTCA
TTTCTTTACATGGCGGATCTTCAAATTTTTTTATTTCTTTGCTTTTTTTTTTAAAT
Found at i:128142993 original size:97 final size:98
Alignment explanation
Indices: 128142756--128143107 Score: 478
Period size: 97 Copynumber: 3.6 Consensus size: 98
128142746 TTTTTTTGAA
* * * * * * * * *
128142756 ATTTTCACTTCGAACACTTACTTAAGCTTATCGAAGCATTTAATTTTCATTTCTTAATATGGCGG
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
128142821 ATCTTCAAATTTTTGTTTCTCTGTTTGTTTTTTC
66 ATCTTCAAATTTTTGTTTCTCTGTTT-TTTTTTC
* *
128142855 ATTTTCATTTTGAACTCTTAGTTTAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCGC
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
128142919 ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
66 ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
* *
128142952 ATTTTCATTTTGAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCAC
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
128143016 ATCTTCAAATTTTTGTTTCTCTGTTATTTTTTTCC
66 ATCTTCAAATTTTTGTTTCTCTGTT-TTTTTTT-C
* * *
128143051 A-TTTCGAAGTTCGAACTATCT-GTTAAGCTTATCGTAGCATTTGATTTTCATTTCTTT
1 ATTTTC--ATTTCGAACTCT-TAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTT
128143108 GTTTTTTTAA
Statistics
Matches: 230, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
97 94 0.41
98 55 0.24
99 37 0.16
100 31 0.13
101 13 0.06
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (98 bp):
ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
Found at i:128150968 original size:8 final size:8
Alignment explanation
Indices: 128150955--128150984 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
128150945 AAAATCTTCA
128150955 AAAAAAAG
1 AAAAAAAG
128150963 AAAAAAAG
1 AAAAAAAG
128150971 AAAAAAAG
1 AAAAAAAG
128150979 AAAAAA
1 AAAAAA
128150985 TCGAGATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:128154195 original size:44 final size:44
Alignment explanation
Indices: 128154145--128154276 Score: 210
Period size: 44 Copynumber: 3.0 Consensus size: 44
128154135 TACAAAAAAC
128154145 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* *
128154189 TAAATCCACAAGAATTAGTAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* * * *
128154233 TAAATTCACAAGGACTAATATCAGAATTTGACCATTTTAAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
128154277 AGAAAGAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 80 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (44 bp):
TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
Found at i:128158092 original size:16 final size:15
Alignment explanation
Indices: 128158073--128158109 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
128158063 TAAAATTTTA
128158073 AAATTAAAAAATATAG
1 AAATTAAAAAATAT-G
128158089 AAATT-AAAAATATG
1 AAATTAAAAAATATG
128158103 AAATTAA
1 AAATTAA
128158110 CTTAGAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 9 0.45
16 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAATATG
Found at i:128158097 original size:14 final size:14
Alignment explanation
Indices: 128158073--128158109 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
128158063 TAAAATTTTA
128158073 AAATTAAAAAATATAG
1 AAATT-AAAAATAT-G
128158089 AAATTAAAAATATG
1 AAATTAAAAATATG
128158103 AAATTAA
1 AAATTAA
128158110 CTTAGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AAATTAAAAATATG
Found at i:128165245 original size:51 final size:51
Alignment explanation
Indices: 128165190--128165297 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
128165180 GTCCTTAAAG
* * * *
128165190 TTTACAAATTCTATCAATTTGGT-ATTAATTTAACAAATTTAGCCC-CAAACA
1 TTTACAAACTCTACCAATTTGGTCA-TAATTTAACAAACTTAACCCGC-AACA
* **
128165241 TTTACACACTCTACCAATTTGGTCATGGTTTAACAAACTTAACCCGCAACA
1 TTTACAAACTCTACCAATTTGGTCATAATTTAACAAACTTAACCCGCAACA
128165292 TTTACA
1 TTTACA
128165298 CATTTTGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (51 bp):
TTTACAAACTCTACCAATTTGGTCATAATTTAACAAACTTAACCCGCAACA
Found at i:128174241 original size:98 final size:94
Alignment explanation
Indices: 128173971--128174253 Score: 326
Period size: 98 Copynumber: 3.0 Consensus size: 94
128173961 AAAATAAATA
**
128173971 AATAA-AAAAACGAGTTAAAAGTGATGAAATGAAACAA--TTTTTTTGGTTAAATTATGATTTTG
1 AATAAGAAAAACGAGTTAAAAGTGAT-AAACAAAACAAGTTTTTTTTGGTTAAATTATGATTTTG
*
128174033 GTCCCTCAACTATGCTC---TTGGATGTAT
65 GTCCCTCAACTATGCTCAATTTGGATTTAT
* * * * *
128174060 AATAAGAAAAACAAGTGAAAAGTGATGAACTAAACAAGTTTTTTTTGTGTTAAATTATGGTTTTG
1 AATAAGAAAAACGAGTTAAAAGTGATAAACAAAACAAGTTTTTTTTG-GTTAAATTATGATTTTG
* *
128174125 GTCCTTCTACTATGCTCAAATTTGGATTTAT
65 GTCCCTCAACTATGCTC-AATTTGGATTTAT
* *
128174156 AATAAGAAAAACGAGTTAAAAGTGATAAAACAAAAGAAAGTTTTTCTTTGGTTAAATTCTGATTT
1 AATAAGAAAAACGAGTTAAAAGTGAT-AAACAAAA-CAAGTTTTT-TTTGGTTAAATTATGATTT
* *
128174221 TGGTCCCACAACTATTCTCAAGTTTGGAATTTA
63 TGGTCCCTCAACTATGCTCAA-TTTGG-ATTTA
128174254 ACATCTGTAT
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
89 13 0.08
90 18 0.11
91 8 0.05
92 31 0.19
96 33 0.20
97 8 0.05
98 41 0.25
99 9 0.06
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (94 bp):
AATAAGAAAAACGAGTTAAAAGTGATAAACAAAACAAGTTTTTTTTGGTTAAATTATGATTTTGG
TCCCTCAACTATGCTCAATTTGGATTTAT
Found at i:128184842 original size:63 final size:63
Alignment explanation
Indices: 128184768--128184894 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
128184758 TCCCAACCCC
*
128184768 TATATCATATTCTATTATAAGGCAAACTATACCCGAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
* * *
128184831 TATATTATATTCTATTATGAGGCAAACTATACTCAAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
128184894 T
1 T
128184895 CTAGTCATTC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (63 bp):
TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
Found at i:128185369 original size:5 final size:5
Alignment explanation
Indices: 128185359--128185418 Score: 102
Period size: 5 Copynumber: 12.0 Consensus size: 5
128185349 TAGTTAACCC
*
128185359 TGTAT TGTAT TGTAT TATAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
1 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
*
128185409 TGTGT TGTAT
1 TGTAT TGTAT
128185419 GGTTTGACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGTAT
Found at i:128185932 original size:14 final size:12
Alignment explanation
Indices: 128185901--128185938 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
128185891 TCTATTTTAT
128185901 GTCTCAAGACAA
1 GTCTCAAGACAA
128185913 -TCTCAAGACTAAA
1 GTCTCAAGAC--AA
128185926 GTCTCAAGACAA
1 GTCTCAAGACAA
128185938 G
1 G
128185939 CCTCCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 2 0.09
14 9 0.39
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (12 bp):
GTCTCAAGACAA
Found at i:128186740 original size:2 final size:2
Alignment explanation
Indices: 128186733--128186769 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
128186723 ATCCACTAGA
128186733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128186770 CATACACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:128188801 original size:15 final size:15
Alignment explanation
Indices: 128188767--128188809 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
128188757 AATTGGATTG
128188767 ATTT-AATTTAAATA
1 ATTTAAATTTAAATA
*
128188781 ATTTTAAATTTTAATA
1 A-TTTAAATTTAAATA
128188797 ATTTAAATTTAAA
1 ATTTAAATTTAAA
128188810 CTTGCTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.56
16 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAAATTTAAATA
Found at i:128191761 original size:22 final size:23
Alignment explanation
Indices: 128191736--128191784 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
128191726 AAATCAAACC
128191736 AAAACAGCAA-AA-TACACAAAAA
1 AAAACAGCAATAATTA-ACAAAAA
*
128191758 AAAATAGCAATAATTTAACAAAAA
1 AAAACAGCAATAA-TTAACAAAAA
128191782 AAA
1 AAA
128191785 TTATAATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 9 0.39
23 2 0.09
24 10 0.43
25 2 0.09
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAACAGCAATAATTAACAAAAA
Found at i:128192842 original size:2 final size:2
Alignment explanation
Indices: 128192835--128192863 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
128192825 TTTTAATCCC
128192835 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128192864 TGGTTATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:128195978 original size:46 final size:46
Alignment explanation
Indices: 128195928--128196103 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128195918 TGGTTGAGCA
128195928 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
128195974 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
128196019 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
128196067 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
128196104 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:128196084 original size:93 final size:93
Alignment explanation
Indices: 128195925--128196096 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128195915 GGATGGTTGA
* *
128195925 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
128195990 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
128196018 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
128196083 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
128196097 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:128203546 original size:46 final size:46
Alignment explanation
Indices: 128203496--128203671 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128203486 TGGTTGAGCA
128203496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
128203542 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
128203587 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
128203635 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
128203672 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:128203652 original size:93 final size:93
Alignment explanation
Indices: 128203493--128203664 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128203483 GGATGGTTGA
* *
128203493 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
128203558 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
128203586 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
128203651 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
128203665 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:128208362 original size:20 final size:19
Alignment explanation
Indices: 128208321--128208362 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
128208311 TTAATTAAAT
*
128208321 AAATTATTAAAAATACATA
1 AAATTATTAAAAATACAAA
*
128208340 AAATTATTTAAAAATAGAAA
1 AAATTA-TTAAAAATACAAA
128208360 AAA
1 AAA
128208363 ACCAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATTATTAAAAATACAAA
Found at i:128209809 original size:16 final size:17
Alignment explanation
Indices: 128209773--128209814 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
128209763 CAATAATATG
*
128209773 TTTAATATTATTTAAAA
1 TTTATTATTATTTAAAA
128209790 -TTATTATT-TTTAAAA
1 TTTATTATTATTTAAAA
128209805 TTTATTATTA
1 TTTATTATTA
128209815 AATAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTATTATTTAAAA
Found at i:128213202 original size:25 final size:24
Alignment explanation
Indices: 128213147--128213204 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
128213137 ATATATATGT
*
128213147 ATATAATACTAAGTAATAATAATA
1 ATATAATACCAAGTAATAATAATA
*
128213171 ATAATAATACCATGCTAATAAATAA-A
1 AT-ATAATACCAAG-TAAT-AATAATA
128213197 ATATAATA
1 ATATAATA
128213205 ATGATAGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 7 0.24
27 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAATACCAAGTAATAATAATA
Found at i:128213281 original size:18 final size:18
Alignment explanation
Indices: 128213250--128213290 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
128213240 TATTAAGACT
*
128213250 AAAA-TAAAATAATGAGA-
1 AAAAGTAAAAAAATG-GAC
128213267 AAAAGTAAAAAAATGGAC
1 AAAAGTAAAAAAATGGAC
128213285 AAAAGT
1 AAAAGT
128213291 GAATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAGTAAAAAAATGGAC
Done.