Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 31 of 127
Found at i:6473716 original size:457 final size:457
Alignment explanation
Indices: 6472862--6473769 Score: 1672
Period size: 457 Copynumber: 2.0 Consensus size: 457
6472852 ATTAATGATA
6472862 AGTGTTTGATAACTGTTAGAAGAAGGTCTTCATTTTCTATCTCTTCTGAGAGTGTGTTCTTAATT
1 AGTGTTTGATAACTGTTAGAAGAAGGTCTTCATTTTCTATCTCTTCTGAGAGTGTGTTCTTAATT
6472927 GGTGATTGTTTGTCTTTGAATTCGTTTTACAATAAATCTTAGTCATGGATGCCCATCATTCTACC
66 GGTGATTGTTTGTCTTTGAATTCGTTTTACAATAAATCTTAGTCATGGATGCCCATCATTCTACC
6472992 GATGGAAGTAGTTTGTATTTTGGGTTCACTGTAATAAGTTGATATGGTATTGATTTTAGGATTCT
131 GATGGAAGTAGTTTGTATTTTGGGTTCACTGTAATAAGTTGATATGGTATTGATTTTAGGATTCT
* *
6473057 TTTGCTATGCGTCTTGAGCACTTGGTCATGCCTTTTATTCAGACCGGCCAAGGATATCTGAACTA
196 TTTGCTATGCGTCTTGAGCACTTGGTCATGCCTTTTATTAAGACCAGCCAAGGATATCTGAACTA
*
6473122 TGTTTTGTGCCGACGAAAATGTAGTAGTGATAGATAACGTGTTGTTAGTGACAGAATTCTATGAA
261 TGTTTTGTGCCGACAAAAATGTAGTAGTGATAGATAACGTGTTGTTAGTGACAGAATTCTATGAA
* * *
6473187 TTTGAGTGATTAGCGATCACCTTTGAATGTAAACTCTTATGTGTTATCTTTTTCTTTCCTAGATT
326 TTTGAGTGATTAGCGATCACCTTTGAATGTAAAATCTCATGTGTTAGCTTTTTCTTTCCTAGATT
*
6473252 AAAACACATTTTGGTATTAGCGAATGGTGACCTACTCACATTCCTAAAGCAATACATTGCACTTG
391 AAAACACATTTTGGTATTAGCGAATGGCGACCTACTCACATTCCTAAAGCAATACATTGCACTTG
6473317 GT
456 GT
*
6473319 AGTGTTTGATAACTGTTGGAAGAAGGTCTTCATTTTCTATCTCTTCTGAGAGTGTGTTCTTAATT
1 AGTGTTTGATAACTGTTAGAAGAAGGTCTTCATTTTCTATCTCTTCTGAGAGTGTGTTCTTAATT
6473384 GGTGATTGTTTGTCTTTGAATTCGTTTTACAATAAATCTTAGTCATGGATGCCCATCATTCTACC
66 GGTGATTGTTTGTCTTTGAATTCGTTTTACAATAAATCTTAGTCATGGATGCCCATCATTCTACC
* *
6473449 GATGGAAGTAGTTTGTATTTTGGGTTCACTGTAATCAGTTGATATGGTCTTGATTTTAGGATTCT
131 GATGGAAGTAGTTTGTATTTTGGGTTCACTGTAATAAGTTGATATGGTATTGATTTTAGGATTCT
* * *
6473514 TTTGCTATGCGTCTTGAGCACTTGGTCATGCCTTTTTTTAAGACCAGCCAAGGTTATCTGAACTC
196 TTTGCTATGCGTCTTGAGCACTTGGTCATGCCTTTTATTAAGACCAGCCAAGGATATCTGAACTA
6473579 TGTTTTGTGCCGACAAAAATGTAGTAGTGATAGATAACGTGTTGTTAGTGACAGAATTCTATGAA
261 TGTTTTGTGCCGACAAAAATGTAGTAGTGATAGATAACGTGTTGTTAGTGACAGAATTCTATGAA
*
6473644 TTTGAGTGATTAGTGATCACCTTTGAATGTAAAATCTCATGTGTTAGCTTTTTCTTTCCTAGATT
326 TTTGAGTGATTAGCGATCACCTTTGAATGTAAAATCTCATGTGTTAGCTTTTTCTTTCCTAGATT
* *
6473709 AAAACACATTTTGGTATTAGTGAATGGCGACCTATTCACATTCCTAAAGCAATACATTGCA
391 AAAACACATTTTGGTATTAGCGAATGGCGACCTACTCACATTCCTAAAGCAATACATTGCA
6473770 TTTTTGTTTC
Statistics
Matches: 435, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
457 435 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (457 bp):
AGTGTTTGATAACTGTTAGAAGAAGGTCTTCATTTTCTATCTCTTCTGAGAGTGTGTTCTTAATT
GGTGATTGTTTGTCTTTGAATTCGTTTTACAATAAATCTTAGTCATGGATGCCCATCATTCTACC
GATGGAAGTAGTTTGTATTTTGGGTTCACTGTAATAAGTTGATATGGTATTGATTTTAGGATTCT
TTTGCTATGCGTCTTGAGCACTTGGTCATGCCTTTTATTAAGACCAGCCAAGGATATCTGAACTA
TGTTTTGTGCCGACAAAAATGTAGTAGTGATAGATAACGTGTTGTTAGTGACAGAATTCTATGAA
TTTGAGTGATTAGCGATCACCTTTGAATGTAAAATCTCATGTGTTAGCTTTTTCTTTCCTAGATT
AAAACACATTTTGGTATTAGCGAATGGCGACCTACTCACATTCCTAAAGCAATACATTGCACTTG
GT
Found at i:6477372 original size:23 final size:22
Alignment explanation
Indices: 6477338--6477381 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
6477328 TTATTTAATT
6477338 AAAAAATAAAAAGAATAAAATA
1 AAAAAATAAAAAGAATAAAATA
*
6477360 AAAAAAGTGAAAAGAATAAAAT
1 AAAAAA-TAAAAAGAATAAAAT
6477382 TGATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAAAATAAAAAGAATAAAATA
Found at i:6477934 original size:18 final size:18
Alignment explanation
Indices: 6477904--6477946 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
6477894 CTTTATTAAT
*
6477904 AAAAAATAGAGAA-AAAA
1 AAAAAATAAAGAAGAAAA
6477921 AAAACAATAAAGAAGAAAA
1 AAAA-AATAAAGAAGAAAA
6477940 ATAAAAA
1 A-AAAAA
6477947 ATACATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 7 0.32
20 3 0.14
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAAAATAAAGAAGAAAA
Found at i:6477958 original size:24 final size:24
Alignment explanation
Indices: 6477917--6477962 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
6477907 AAATAGAGAA
6477917 AAAAAAAACAATAAAGAAGAAAAAT
1 AAAAAAAACAATAAAGAA-AAAAAT
* *
6477942 AAAAAATAC-ATAGAGAAAAAA
1 AAAAAAAACAATAAAGAAAAAA
6477963 GAAAAAGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAAAAACAATAAAGAAAAAAAT
Found at i:6477961 original size:22 final size:20
Alignment explanation
Indices: 6477904--6477968 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
6477894 CTTTATTAAT
6477904 AAAA-AATAGAGAAAAAAAA
1 AAAATAATAGAGAAAAAAAA
*
6477923 AACAATAA-AGAAGAAAAATAA
1 AA-AATAATAG-AGAAAAAAAA
6477944 AAAATACATAGAGAAAAAAGAA
1 AAAATA-ATAGAGAAAAAA-AA
6477966 AAA
1 AAA
6477969 GAAGGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 2 0.05
20 8 0.21
21 21 0.55
22 7 0.18
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (20 bp):
AAAATAATAGAGAAAAAAAA
Found at i:6477961 original size:38 final size:38
Alignment explanation
Indices: 6477901--6477978 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
6477891 TAACTTTATT
*
6477901 AATAAAAAATAGAGAAAAAAAAAACAATAAAGAA-GAAA
1 AATAAAAAATACAGAAAAAAAAAACAA-AAAGAAGGAAA
* * * *
6477939 AATAAAAAATACATAGAGAAAAAAGAAAAAGAAGGAAA
1 AATAAAAAATACAGAAAAAAAAAACAAAAAGAAGGAAA
6477977 AA
1 AA
6477979 GAAAGATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 6 0.18
38 28 0.82
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (38 bp):
AATAAAAAATACAGAAAAAAAAAACAAAAAGAAGGAAA
Found at i:6483869 original size:21 final size:19
Alignment explanation
Indices: 6483828--6483875 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
6483818 GGGTCTCGTA
**
6483828 TAAAAAAATTTTATATTAT
1 TAAAAAAATTTTATAAAAT
6483847 TAAAAAAATTTTATAAAAAAT
1 TAAAAAAATTTTAT--AAAAT
6483868 TAAAAAAA
1 TAAAAAAA
6483876 AAAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAAATTTTATAAAAT
Found at i:6484005 original size:19 final size:18
Alignment explanation
Indices: 6483959--6484005 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6483949 AAATATATAA
6483959 AAAAAAT-AAAAAATTTT
1 AAAAAATAAAAAAATTTT
* **
6483976 AACAAGCAAAAAAAGTTTT
1 AAAAAATAAAAAAA-TTTT
6483995 AAAAAATAAAA
1 AAAAAATAAAA
6484006 TAAAAGTTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 12 0.55
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAAAATAAAAAAATTTT
Found at i:6484905 original size:12 final size:13
Alignment explanation
Indices: 6484888--6484915 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6484878 TTTTTAATAC
6484888 AAAAAATTAACAA
1 AAAAAATTAACAA
6484901 AAAAAATTAACAA
1 AAAAAATTAACAA
6484914 AA
1 AA
6484916 GGATCATTTT
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:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATTAACAA
Found at i:6485973 original size:29 final size:27
Alignment explanation
Indices: 6485920--6485982 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 27
6485910 TTTTTAATGT
* *
6485920 AATATTATTTAATAAATTTATAATTTA
1 AATATTATTTAAAAAATTTAAAATTTA
6485947 AATATTATATTAAAAAATTTTAAAATTTA
1 AATATTAT-TTAAAAAA-TTTAAAATTTA
6485976 AATATTA
1 AATATTA
6485983 CACTAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 17 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AATATTATTTAAAAAATTTAAAATTTA
Found at i:6487311 original size:16 final size:16
Alignment explanation
Indices: 6487290--6487324 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6487280 CCAACATGTA
6487290 TAAGCAACTTGACATC
1 TAAGCAACTTGACATC
*
6487306 TAAGCAGCTTGACATC
1 TAAGCAACTTGACATC
6487322 TAA
1 TAA
6487325 ATAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (16 bp):
TAAGCAACTTGACATC
Found at i:6494176 original size:20 final size:21
Alignment explanation
Indices: 6494131--6494177 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
6494121 ATGCGAGTAG
* *
6494131 ATATCATTCAAATATAATATT
1 ATATCATGCAAATATAATATA
*
6494152 A-ATCATGC-AATATCATATA
1 ATATCATGCAAATATAATATA
6494171 ATATCAT
1 ATATCAT
6494178 ATCATGCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 10 0.45
20 11 0.50
21 1 0.05
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATCATGCAAATATAATATA
Found at i:6494186 original size:25 final size:24
Alignment explanation
Indices: 6494142--6494188 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
6494132 TATCATTCAA
*
6494142 ATATAATATTAATCATGCAATATC
1 ATATAATATCAATCATGCAATATC
6494166 ATATAATATCATATCATGCAATA
1 ATATAATATCA-ATCATGCAATA
6494189 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATAATATCAATCATGCAATATC
Found at i:6494327 original size:20 final size:20
Alignment explanation
Indices: 6494250--6494320 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
6494240 CACAAATAAA
*
6494250 TAAATAAATAATCATGCAAT
1 TAAATATATAATCATGCAAT
*
6494270 TAAATATATAATCATACAAT
1 TAAATATATAATCATGCAAT
6494290 T-AATAT-TAAATCATGCAAT
1 TAAATATAT-AATCATGCAAT
6494309 TAAATATATAAT
1 TAAATATATAAT
6494321 TGTGCAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 27 0.60
21 1 0.02
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (20 bp):
TAAATATATAATCATGCAAT
Found at i:6494333 original size:39 final size:41
Alignment explanation
Indices: 6494235--6494351 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 41
6494225 ATAATCATAC
* *
6494235 AATCACACAAATAAATAAATAAATAATCATGCAATTAAATATAT
1 AATCATACAAAT-AAT-AATATA-AATCATGCAATTAAATATAT
*
6494279 AATCATACAATTAAT-AT-TAAATCATGCAATTAAATATAT
1 AATCATACAAATAATAATATAAATCATGCAATTAAATATAT
** *
6494318 AATTGTGCAAATAATAATACATAAATCATGCAAT
1 AATCATACAAATAATAAT--ATAAATCATGCAAT
6494352 CATGTAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
39 31 0.50
40 3 0.05
41 2 0.03
43 16 0.26
44 10 0.16
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (41 bp):
AATCATACAAATAATAATATAAATCATGCAATTAAATATAT
Found at i:6494434 original size:20 final size:20
Alignment explanation
Indices: 6494411--6494452 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6494401 AATCATGAAA
* *
6494411 ATAAACATGTAATTAAATAT
1 ATAAACATGCAAATAAATAT
*
6494431 ATAATCATGCAAATAAATAT
1 ATAAACATGCAAATAAATAT
6494451 AT
1 AT
6494453 TAATAATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAT
Found at i:6494458 original size:24 final size:24
Alignment explanation
Indices: 6494431--6494525 Score: 108
Period size: 24 Copynumber: 4.0 Consensus size: 24
6494421 AATTAAATAT
6494431 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
6494455 ATAATCATGC-AATCAAAT-TA--A
1 ATAATCATGCAAAT-AAATATATTA
* *
6494476 ATGTAATTATACAAATAAATATATTA
1 A--TAATCATGCAAATAAATATATTA
*
6494502 ATAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
6494526 GGCAAATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.03
23 16 0.27
24 39 0.66
26 2 0.03
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:6494548 original size:16 final size:16
Alignment explanation
Indices: 6494505--6494568 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 16
6494495 TATATTAATA
*
6494505 ATCATGCAAACAAATAT
1 ATCATGCAAATAAAT-T
* *
6494522 ATTAGGCAAATAAATT
1 ATCATGCAAATAAATT
6494538 ATCATGCAAATATAATATT
1 ATCATGC-AA-ATAA-ATT
6494557 AGTCATGCAAAT
1 A-TCATGCAAAT
6494569 TCATACAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 6 0.16
17 14 0.37
18 6 0.16
19 6 0.16
20 6 0.16
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (16 bp):
ATCATGCAAATAAATT
Found at i:6494564 original size:20 final size:18
Alignment explanation
Indices: 6494531--6494568 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
6494521 TATTAGGCAA
6494531 ATAAATTATCATGCAAAT
1 ATAAATTATCATGCAAAT
6494549 ATAATATTAGTCATGCAAAT
1 ATAA-ATTA-TCATGCAAAT
6494569 TCATACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAAATTATCATGCAAAT
Found at i:6495058 original size:3 final size:3
Alignment explanation
Indices: 6495052--6495096 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
6495042 AATGTCACTG
* *
6495052 TTA TTA TTA TTA TTA CTA -TA TGA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6495097 TTCCTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6495159 original size:3 final size:3
Alignment explanation
Indices: 6495153--6495188 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6495143 TATTAATGAC
*
6495153 ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6495189 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6495163 original size:18 final size:19
Alignment explanation
Indices: 6495140--6495183 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
6495130 TATAATATAG
6495140 TATTATTAATGA-CATTAT
1 TATTATTAATGAGCATTAT
* *
6495158 TATTATT-ATTAGTATTAT
1 TATTATTAATGAGCATTAT
6495176 TATTATTA
1 TATTATTA
6495184 TTATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATTAATGAGCATTAT
Found at i:6495219 original size:15 final size:16
Alignment explanation
Indices: 6495194--6495232 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
6495184 TTATTTTAAT
6495194 TTTTTTGTTCTT-TTTC
1 TTTTTT-TTCTTCTTTC
6495210 TTTTTTTTCTTCTTTC
1 TTTTTTTTCTTCTTTC
6495226 TTTTTTT
1 TTTTTTT
6495233 GTTTTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTTCTTTC
Found at i:6495629 original size:21 final size:21
Alignment explanation
Indices: 6495586--6495636 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6495576 ATAAGGATTC
*
6495586 TGAGAGTAATCTGAGCAAATT
1 TGAGAGAAATCTGAGCAAATT
*
6495607 TGAGAGAAATCT-AGGAAAGTT
1 TGAGAGAAATCTGAGCAAA-TT
6495628 TGA-AGAAAT
1 TGAGAGAAAT
6495637 TTGGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (21 bp):
TGAGAGAAATCTGAGCAAATT
Found at i:6496014 original size:19 final size:18
Alignment explanation
Indices: 6495985--6496031 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
6495975 AATCGCAAGT
*
6495985 TTTTTATTTTTTATTTTA
1 TTTTTATTTTTGATTTTA
6496003 TTTTTATATTTTGATTTTA
1 TTTTTAT-TTTTGATTTTA
6496022 -TTTTATTTTT
1 TTTTTATTTTT
6496032 AACCCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 13 0.48
19 10 0.37
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTATTTTTGATTTTA
Found at i:6497103 original size:115 final size:115
Alignment explanation
Indices: 6496939--6497168 Score: 417
Period size: 115 Copynumber: 2.0 Consensus size: 115
6496929 TTTATCTTGC
*
6496939 TTAATTATTTATTATTATTTCTTTTTCATTGTTTATACCTACTTAATTATTAATTTATTTTGTTC
1 TTAATTATTTATTATTATTTCTTTTTCATTGTTTATACCTACTTAATTATTAATTTATTTTATTC
*
6497004 TTTTCCCAACTGATACATGCTTGTTAATTATTTATTGTATA-ATATCTAT
66 TTTTCCCAACTGATACATGCTTGTTAATTATTTATCGTATATATATCTAT
*
6497053 TTAATTATTTATTATTTATTTCTTTTTCATTGTTTATACCTGCTTAATTATTAATTTATTTTATT
1 TTAATTATTTATTA-TTATTTCTTTTTCATTGTTTATACCTACTTAATTATTAATTTATTTTATT
6497118 CTTTTCCCAACTGATACATGCTTGTTAATTATTTATCGTATATATATCTAT
65 CTTTTCCCAACTGATACATGCTTGTTAATTATTTATCGTATATATATCTAT
6497169 CATTCATTTG
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
114 14 0.13
115 89 0.80
116 8 0.07
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (115 bp):
TTAATTATTTATTATTATTTCTTTTTCATTGTTTATACCTACTTAATTATTAATTTATTTTATTC
TTTTCCCAACTGATACATGCTTGTTAATTATTTATCGTATATATATCTAT
Found at i:6499598 original size:12 final size:13
Alignment explanation
Indices: 6499571--6499611 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
6499561 TAATTTTATT
6499571 AATATAATATATAAA
1 AATA-AATA-ATAAA
6499586 AATAAA-AAT-AA
1 AATAAATAATAAA
6499597 AATAAATAATAAA
1 AATAAATAATAAA
6499610 AA
1 AA
6499612 ATATGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.33
12 5 0.21
13 5 0.21
14 2 0.08
15 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:6501789 original size:30 final size:27
Alignment explanation
Indices: 6501755--6501821 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 27
6501745 ATTTTTTTAT
6501755 TTATATTATATATTATATAAAAATTATGTA
1 TTATATT-TATATTATATAAAAA-TATG-A
*
6501785 TTATAATTTATGTTATATAAAAATATGA
1 TTAT-ATTTATATTATATAAAAATATGA
6501813 TCTATATTT
1 T-TATATTT
6501822 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 6 0.18
29 7 0.21
30 18 0.53
31 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (27 bp):
TTATATTTATATTATATAAAAATATGA
Found at i:6509995 original size:1 final size:1
Alignment explanation
Indices: 6509991--6510015 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6509981 TTTAAGAAGG
6509991 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6510016 CTTGTGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6510904 original size:1 final size:1
Alignment explanation
Indices: 6510898--6510925 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6510888 TTCATTTAAG
6510898 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
6510926 AAAATTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6513617 original size:7 final size:7
Alignment explanation
Indices: 6513605--6513640 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6513595 TGTTTTGTTA
6513605 TGTACAT
1 TGTACAT
6513612 TGTACAT
1 TGTACAT
*
6513619 TGCACAT
1 TGTACAT
6513626 TGTACAT
1 TGTACAT
6513633 TG-ACAT
1 TGTACAT
6513639 TG
1 TG
6513641 ATAGACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (7 bp):
TGTACAT
Found at i:6513936 original size:13 final size:13
Alignment explanation
Indices: 6513918--6513947 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6513908 TTTATATCAT
6513918 TAAAAAATTTTTA
1 TAAAAAATTTTTA
6513931 TAAAAAATTTTTA
1 TAAAAAATTTTTA
6513944 -AAAA
1 TAAAA
6513948 GAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAAATTTTTA
Found at i:6514099 original size:22 final size:22
Alignment explanation
Indices: 6514073--6514115 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6514063 AACAAGCAAA
6514073 AAAAGTTTAAAAA-AAATAAAAT
1 AAAAG-TTAAAAAGAAATAAAAT
*
6514095 AAAAGTTAAAAAGGAATAAAA
1 AAAAGTTAAAAAGAAATAAAA
6514116 AAACGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (22 bp):
AAAAGTTAAAAAGAAATAAAAT
Found at i:6514254 original size:27 final size:28
Alignment explanation
Indices: 6514187--6514254 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
6514177 TTTAAAAATT
* * *
6514187 AAAATAAAAATATTTATAAATATTTTAAA
1 AAAATAAAAA-AATTATAAATAATCTAAA
*
6514216 AAGAA-GAAAAAATTA-AAATAATCTAAA
1 AA-AATAAAAAAATTATAAATAATCTAAA
6514243 AAAATAAAAAAA
1 AAAATAAAAAAA
6514255 AAGCAAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.06
27 18 0.56
28 4 0.12
29 6 0.19
30 2 0.06
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAATAAAAAAATTATAAATAATCTAAA
Found at i:6515552 original size:13 final size:15
Alignment explanation
Indices: 6515536--6515565 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6515526 TTTTTAATAC
6515536 AAAAA-ATTAACAAA
1 AAAAATATTAACAAA
6515550 AAAAATATTAACAAA
1 AAAAATATTAACAAA
6515565 A
1 A
6515566 GGATCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATATTAACAAA
Found at i:6516174 original size:17 final size:18
Alignment explanation
Indices: 6516148--6516182 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6516138 ATCATTATTC
6516148 AATATAATTTTAT-TTAT
1 AATATAATTTTATCTTAT
*
6516165 AATATTATTTTATCTTAT
1 AATATAATTTTATCTTAT
6516183 CTTATTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
AATATAATTTTATCTTAT
Found at i:6516587 original size:27 final size:29
Alignment explanation
Indices: 6516557--6516619 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
6516547 TTTTAAATAT
* *
6516557 AATATTAT-TTAATAAA-TTTATAATTCA
1 AATATTATATTAAAAAATTTTAAAATTCA
*
6516584 AATATTATATTAAAAAATTTTAAAATTTA
1 AATATTATATTAAAAAATTTTAAAATTCA
6516613 AATATTA
1 AATATTA
6516620 CAGTAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 8 0.26
28 7 0.23
29 16 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATTATATTAAAAAATTTTAAAATTCA
Found at i:6522135 original size:462 final size:462
Alignment explanation
Indices: 6521271--6522210 Score: 1747
Period size: 462 Copynumber: 2.0 Consensus size: 462
6521261 TTGCAACTTC
6521271 ACAGGGTTAGTGCCATCTACGTTGGGTAATCTCCCCAATCTCCAGTTTCTGGATCTTGGACGCAA
1 ACAGGGTTAGTGCCATCTACGTTGGGTAATCTCCCCAATCTCCAGTTTCTGGATCTTGGACGCAA
*
6521336 TTTTTTTAGCGGTAAGTTACTGTCAATCGGAAACCTTATTTCCTTGGAATATTTTTCCTGTTTTT
66 TTGTTTTAGCGGTAAGTTACTGTCAATCGGAAACCTTATTTCCTTGGAATATTTTTCCTGTTTTT
*
6521401 TTGGTACATTATTTTCTACTTGAAGGTTCTTAATTGCTACTTCACAGGTTTAGTGCCATCAACTC
131 TTGGTACATTATTTTCTACTTGAAGGTTCTTAATTGCTACTTCACAGGTTCAGTGCCATCAACTC
* * *
6521466 TGGGTAATCTCACCAAGCTCTATCATATGGATCTTCAAAAAAATTATTTTACAGGTGAGCTACCT
196 TGGGTAATCTCACCAAGATCTATAATATGGATCTTCAAAAAAATAATTTTACAGGTGAGCTACCT
* * *
6521531 GACTCAATTGTAAACCTTATTTCTTTGGAATATTTTTACATTCGTTATTGCAAATTCGCAGGATT
261 GACTCAATTGTAAACCTTATTTCTTTAGAATATTTGTACATTCGTTATTGCAAATTCACAGGATT
*
6521596 AGTTCCAGCTATGCTGGGTAATCTCGCCAAGCTCATGGTTTTGGATCTTGGAAGTAATCTTTTTA
326 AGTTCCAGCTATGCTGGGTAATCTCACCAAGCTCATGGTTTTGGATCTTGGAAGTAATCTTTTTA
*
6521661 AAGGTGAGTTACTTGTCTTAATTGGAAAATCATTATTTCTTTCAAATTATTGAAGTTAGGCATTG
391 AAGGGGAGTTACTTGTCTTAATTGGAAAATCATTATTTCTTTCAAATTATTGAAGTTAGGCATTG
6521726 CATTTCA
456 CATTTCA
*
6521733 ACAGGGTTAGTGCCATCTACGTTGGGTAATCTCCCCAATCTCCAGTTTTTGGATCTTGGACGCAA
1 ACAGGGTTAGTGCCATCTACGTTGGGTAATCTCCCCAATCTCCAGTTTCTGGATCTTGGACGCAA
*
6521798 TTGTTTTAGGGGTAAGTTACTGTCAATCGGAAACCTTATTTCCTTGGAATATTTTTCCTGTTTTT
66 TTGTTTTAGCGGTAAGTTACTGTCAATCGGAAACCTTATTTCCTTGGAATATTTTTCCTGTTTTT
6521863 TTGGTACATTATTTTCTACTTGAAGGTTCTTAATTGCTACTTCACAGGTTCAGTGCCATCAACTC
131 TTGGTACATTATTTTCTACTTGAAGGTTCTTAATTGCTACTTCACAGGTTCAGTGCCATCAACTC
6521928 TGGGTAATCTCACCAAGATCTATAATATGGATCTTCAAAAAAATAATTTTACAGGTGAGCTACCT
196 TGGGTAATCTCACCAAGATCTATAATATGGATCTTCAAAAAAATAATTTTACAGGTGAGCTACCT
6521993 GACTCAATTGTAAACCTTATTTCTTTAGAATATTTGTACATTCGTTATTGCAAATTCACAGGATT
261 GACTCAATTGTAAACCTTATTTCTTTAGAATATTTGTACATTCGTTATTGCAAATTCACAGGATT
6522058 AGTTCCAGCTATGCTGGGTAATCTCACCAAGCTCATGGTTTTGGATCTTGGAAGTAATCTTTTTA
326 AGTTCCAGCTATGCTGGGTAATCTCACCAAGCTCATGGTTTTGGATCTTGGAAGTAATCTTTTTA
*
6522123 GAGGGGAGTTACTTGTCTTAATTGGAAAATCATTATTTCTTTCAAATTATTGAAGTTAGGCATTG
391 AAGGGGAGTTACTTGTCTTAATTGGAAAATCATTATTTCTTTCAAATTATTGAAGTTAGGCATTG
6522188 CATTTCA
456 CATTTCA
*
6522195 A-AAGGTTAGTGCCATC
1 ACAGGGTTAGTGCCATC
6522211 AAGCTTAAAT
Statistics
Matches: 464, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
461 14 0.03
462 450 0.97
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (462 bp):
ACAGGGTTAGTGCCATCTACGTTGGGTAATCTCCCCAATCTCCAGTTTCTGGATCTTGGACGCAA
TTGTTTTAGCGGTAAGTTACTGTCAATCGGAAACCTTATTTCCTTGGAATATTTTTCCTGTTTTT
TTGGTACATTATTTTCTACTTGAAGGTTCTTAATTGCTACTTCACAGGTTCAGTGCCATCAACTC
TGGGTAATCTCACCAAGATCTATAATATGGATCTTCAAAAAAATAATTTTACAGGTGAGCTACCT
GACTCAATTGTAAACCTTATTTCTTTAGAATATTTGTACATTCGTTATTGCAAATTCACAGGATT
AGTTCCAGCTATGCTGGGTAATCTCACCAAGCTCATGGTTTTGGATCTTGGAAGTAATCTTTTTA
AAGGGGAGTTACTTGTCTTAATTGGAAAATCATTATTTCTTTCAAATTATTGAAGTTAGGCATTG
CATTTCA
Found at i:6527396 original size:13 final size:13
Alignment explanation
Indices: 6527380--6527404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6527370 ATTTTCACGT
6527380 TTCTTTTTTTTTA
1 TTCTTTTTTTTTA
6527393 TTCTTTTTTTTT
1 TTCTTTTTTTTT
6527405 TTTGCATGAG
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:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTA
Found at i:6532461 original size:2 final size:2
Alignment explanation
Indices: 6532454--6532480 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6532444 GTCAGTGCTG
6532454 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 A
6532481 CATGATTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6534399 original size:6 final size:6
Alignment explanation
Indices: 6534388--6534414 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6534378 GGAATTAAGG
6534388 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
6534415 AAGGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:6534417 original size:20 final size:20
Alignment explanation
Indices: 6534392--6534443 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6534382 TTAAGGAAAG
6534392 AAAAAGAAAAAGAAAAAGAA
1 AAAAAGAAAAAGAAAAAGAA
* * * *
6534412 AAAAAGGAAAATAAGAATAA
1 AAAAAGAAAAAGAAAAAGAA
6534432 AAAAAGTAAAAA
1 AAAAAG-AAAAA
6534444 ATAAAAGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAGAA
Found at i:6535143 original size:23 final size:23
Alignment explanation
Indices: 6535104--6535157 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
6535094 TGCTTATTTG
6535104 TTTATTT-ATATAGATTATGTTTT
1 TTTATTTCATATAGATTAT-TTTT
*
6535127 TTTATTTCATA-ATATTATTTTT
1 TTTATTTCATATAGATTATTTTT
* *
6535149 ATAATTTCA
1 TTTATTTCA
6535158 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.41
23 13 0.48
24 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTATTTCATATAGATTATTTTT
Found at i:6537333 original size:9 final size:9
Alignment explanation
Indices: 6537317--6537351 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6537307 TAAATATAAA
6537317 AAATATGTT
1 AAATATGTT
*
6537326 AAACATGTT
1 AAATATGTT
*
6537335 AAATATATT
1 AAATATGTT
6537344 AAATATGT
1 AAATATGT
6537352 ATTTGTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (9 bp):
AAATATGTT
Found at i:6538281 original size:26 final size:25
Alignment explanation
Indices: 6538252--6538300 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
6538242 ATTAATTAGA
* *
6538252 ATTAATATATTTTTATTAAAAAATAT
1 ATTAATACATATTTA-TAAAAAATAT
6538278 ATTAATACATATTTATAAAAAAT
1 ATTAATACATATTTATAAAAAAT
6538301 TACCTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTAATACATATTTATAAAAAATAT
Found at i:6538547 original size:15 final size:15
Alignment explanation
Indices: 6538529--6538558 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6538519 TTATTCATTG
*
6538529 ACATCTCTAATATCA
1 ACATCCCTAATATCA
6538544 ACATCCCTAATATCA
1 ACATCCCTAATATCA
6538559 TGGAAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
ACATCCCTAATATCA
Found at i:6543492 original size:26 final size:26
Alignment explanation
Indices: 6543454--6543503 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6543444 GTCTAGGTAA
6543454 AAGTATCCCTTGATCTATAGTGGTGG
1 AAGTATCCCTTGATCTATAGTGGTGG
*
6543480 AAGTATCCTTTGATCTATAGTGGT
1 AAGTATCCCTTGATCTATAGTGGT
6543504 AAATAGTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (26 bp):
AAGTATCCCTTGATCTATAGTGGTGG
Found at i:6544159 original size:6 final size:6
Alignment explanation
Indices: 6544150--6544184 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
6544140 ATCTAAGTCT
*
6544150 AAATTA AAATTA AAATTA AAACTAA AAATTA AAAT
1 AAATTA AAATTA AAATTA AAA-TTA AAATTA AAAT
6544185 CAAGGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATTA
Found at i:6544179 original size:13 final size:12
Alignment explanation
Indices: 6544150--6544184 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6544140 ATCTAAGTCT
*
6544150 AAATTAAAATTA
1 AAATTAAAATAA
6544162 AAATTAAAACTAA
1 AAATTAAAA-TAA
6544175 AAATTAAAAT
1 AAATTAAAAT
6544185 CAAGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATTAAAATAA
Found at i:6550057 original size:4 final size:4
Alignment explanation
Indices: 6550038--6550073 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
6550028 AAAGGAATAA
* *
6550038 AAAT AAAC AAAC AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
6550074 GCAAACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:6551475 original size:101 final size:101
Alignment explanation
Indices: 6551200--6551631 Score: 446
Period size: 107 Copynumber: 4.2 Consensus size: 101
6551190 TTTATGAAAT
* *
6551200 TTATTTTAAAAAAATTCATTAAG-CCTTTTAATAG-TTGGATAAGATCTAATTCAATATTTAAAT
1 TTATTTTAAAAAAATTCATTAAGTCC-TTTAATAGTTTGG-TAAGATTTAATTCAAGATTTAAAT
* * * ** *
6551263 CCCCCAATAGTTTGGTAGGATTAAAAATTTTATTATTA
64 TCTCCAATAGTTTGATAAAATTAAAAATTTTACTATTA
* * * * *
6551301 TT-TTTTAGCAAAAAAATTCATTAAGTCCTTCAATAATTTGGTAAGACTTAATTTAATATTTAAA
1 TTATTTT---AAAAAAATTCATTAAGTCCTTTAATAGTTTGGTAAGATTTAATTCAAGATTTAAA
***
6551365 TTCTCCAATAGTTTGATAGGGTTAAAAATTTTACTATTA
63 TTCTCCAATAGTTTGATAAAATTAAAAATTTTACTATTA
* *
6551404 TTATGTTT-AAAAAATCCATTAAGTCCTTTAATAGTTTGGTAATATTTAATTCAAGATTTAAATT
1 TTAT-TTTAAAAAAATTCATTAAGTCCTTTAATAGTTTGGTAAGATTTAATTCAAGATTTAAATT
* * * *
6551468 TTTCAATAGTTTGGTAAAATTGAAATTTTTACTTTTACTATTA
65 CTCCAATAGTTTGATAAAATT-AAA-----AATTTTACTATTA
* *
6551511 TTATGTTT-AAAAAATCCATTAAGTCCTTTAATAGTTTGGTAAAATTTAATTCAAGATTTAAAAT
1 TTAT-TTTAAAAAAATTCATTAAGTCCTTTAATAGTTTGGTAAGATTTAATTCAAGATTT-AAAT
* *
6551575 T-TTCAATAGTTTGATAAAATTAAAATTTTTACTATTA
64 TCTCCAATAGTTTGATAAAATTAAAAATTTTACTATTA
*
6551612 TT-TTTTCAAAAAATTCATTA
1 TTATTTTAAAAAAATTCATTA
6551632 TAAAATTTTC
Statistics
Matches: 288, Mismatches: 28, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
99 3 0.01
100 17 0.06
101 80 0.28
102 3 0.01
103 78 0.27
104 7 0.02
105 3 0.01
106 3 0.01
107 89 0.31
108 5 0.02
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (101 bp):
TTATTTTAAAAAAATTCATTAAGTCCTTTAATAGTTTGGTAAGATTTAATTCAAGATTTAAATTC
TCCAATAGTTTGATAAAATTAAAAATTTTACTATTA
Found at i:6551759 original size:16 final size:15
Alignment explanation
Indices: 6551738--6551778 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
6551728 TATTTTAAAC
6551738 ATAAATAAAAAATGAT
1 ATAAATAAAAAAT-AT
*
6551754 ATAAATGAATAAATAT
1 ATAAAT-AAAAAATAT
6551770 ATAAATAAA
1 ATAAATAAA
6551779 CAAAATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
ATAAATAAAAAATAT
Found at i:6552316 original size:15 final size:15
Alignment explanation
Indices: 6552278--6552320 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6552268 TCATCAAATT
* *
6552278 TGTGATTTTATTTTT
1 TGTGATTTGATTTTC
*
6552293 TATGA-TTGATTTTC
1 TGTGATTTGATTTTC
6552307 TGTGATTTGATTTT
1 TGTGATTTGATTTT
6552321 GTATGAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.65
Consensus pattern (15 bp):
TGTGATTTGATTTTC
Found at i:6552488 original size:12 final size:12
Alignment explanation
Indices: 6552473--6552561 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 12
6552463 AAATAGACCA
6552473 CAAAATTAAAAT
1 CAAAATTAAAAT
** *
6552485 CAAAGCTAAATT
1 CAAAATTAAAAT
*
6552497 AAAAAATCT-AAAT
1 -CAAAAT-TAAAAT
*
6552510 CTAAATTAAAAT
1 CAAAATTAAAAT
* *
6552522 TAAAACTAAAACT
1 CAAAATTAAAA-T
* *
6552535 AAAAATTAAAGT
1 CAAAATTAAAAT
*
6552547 CAAGATTAAAAT
1 CAAAATTAAAAT
6552559 CAA
1 CAA
6552562 CTGAAATCAA
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
11 1 0.02
12 38 0.69
13 15 0.27
14 1 0.02
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (12 bp):
CAAAATTAAAAT
Found at i:6552497 original size:17 final size:17
Alignment explanation
Indices: 6552475--6552531 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
6552465 ATAGACCACA
*
6552475 AAATTAAAATCAAAGCT
1 AAATTAAAATCAAAACT
*
6552492 AAATTAAAAAATCTAAATCT
1 AAATT--AAAATC-AAAACT
*
6552512 AAATTAAAATTAAAACT
1 AAATTAAAATCAAAACT
6552529 AAA
1 AAA
6552532 ACTAAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.38
18 5 0.15
19 6 0.18
20 10 0.29
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTAAAATCAAAACT
Found at i:6552504 original size:19 final size:20
Alignment explanation
Indices: 6552480--6552520 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6552470 CCACAAAATT
6552480 AAAATC-AAAGCTAAATTAA
1 AAAATCTAAAGCTAAATTAA
*
6552499 AAAATCTAAATCTAAATTAA
1 AAAATCTAAAGCTAAATTAA
6552519 AA
1 AA
6552521 TTAAAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAATCTAAAGCTAAATTAA
Found at i:6552516 original size:37 final size:36
Alignment explanation
Indices: 6552475--6552561 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
6552465 ATAGACCACA
* *
6552475 AAATTAAAATCAAAGCT-AAATTAAAAAATCTAAA-TC
1 AAATTAAAATCAAAACTAAAACT-AAAAAT-TAAAGTC
*
6552511 TAAATTAAAATTAAAACTAAAACTAAAAATTAAAGTC
1 -AAATTAAAATCAAAACTAAAACTAAAAATTAAAGTC
6552548 AAGATTAAAATCAA
1 AA-ATTAAAATCAA
6552562 CTGAAATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
36 6 0.14
37 33 0.77
38 4 0.09
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.25
Consensus pattern (36 bp):
AAATTAAAATCAAAACTAAAACTAAAAATTAAAGTC
Found at i:6552870 original size:2 final size:2
Alignment explanation
Indices: 6552865--6552901 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6552855 AGTGTGTGTG
6552865 TA TA 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 TA TA T
6552902 TGTTTGTTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6553073 original size:23 final size:23
Alignment explanation
Indices: 6553046--6553124 Score: 61
Period size: 27 Copynumber: 3.2 Consensus size: 23
6553036 ACCCTTCATT
6553046 TTAATTTTTTTTTCCTTCTTTAC
1 TTAATTTTTTTTTCCTTCTTTAC
* *
6553069 TTAATTGTTTTTCTCACATT-TTTTC
1 TTAATT-TTTTTTTC-C-TTCTTTAC
*
6553094 TTATATTCTTTTGTTTTTCTTCTTTAC
1 TTA-A-T-TTTT-TTTTCCTTCTTTAC
6553121 TTAA
1 TTAA
6553125 AATTTTCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
23 6 0.14
24 7 0.16
25 8 0.19
26 6 0.14
27 12 0.28
28 4 0.09
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (23 bp):
TTAATTTTTTTTTCCTTCTTTAC
Found at i:6553928 original size:2 final size:2
Alignment explanation
Indices: 6553921--6553950 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6553911 ACATACATAC
6553921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6553951 GTTCCCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6554463 original size:2 final size:2
Alignment explanation
Indices: 6554456--6554481 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6554446 GAAATTACCC
6554456 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6554482 CCCATGCAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6555234 original size:2 final size:2
Alignment explanation
Indices: 6555227--6555260 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
6555217 GGATAAACAC
*
6555227 AG AG AG AG AG AG AG AG AG AG AA AG AG A- AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6555261 TGCATTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6561634 original size:16 final size:16
Alignment explanation
Indices: 6561592--6561634 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6561582 TATTCAATTC
*
6561592 ATTATTTAATTTTAAA
1 ATTATTTAAATTTAAA
6561608 ATT-TTTAAAATTTAAA
1 ATTATTT-AAATTTAAA
*
6561624 CTTATTTAAAT
1 ATTATTTAAAT
6561635 CTTTCAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTAAATTTAAA
Found at i:6565378 original size:16 final size:16
Alignment explanation
Indices: 6565357--6565388 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6565347 TTTTGAACAA
6565357 GAGTGGGAAACTATGC
1 GAGTGGGAAACTATGC
6565373 GAGTGGGAAACTATGC
1 GAGTGGGAAACTATGC
6565389 ATGACAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.38, T:0.19
Consensus pattern (16 bp):
GAGTGGGAAACTATGC
Found at i:6566480 original size:1 final size:1
Alignment explanation
Indices: 6566474--6566501 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6566464 CTAAATCCTC
6566474 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
6566502 CCGTCGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6567060 original size:46 final size:47
Alignment explanation
Indices: 6567001--6567091 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 47
6566991 ATCAATCGAA
* * * *
6567001 ATTAATTTAGTAATCGATTGATTAATCAAATTAAATTGA-TCAATTG
1 ATTAATTCAGTAATCAATCGATTAATCAAATTAAATCGATTCAATTG
6567047 ATTAATTCAGTAATCAATCGATTAATCAAATTAAATCGATTCAAT
1 ATTAATTCAGTAATCAATCGATTAATCAAATTAAATCGATTCAAT
6567092 CAGTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 35 0.88
47 5 0.12
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (47 bp):
ATTAATTCAGTAATCAATCGATTAATCAAATTAAATCGATTCAATTG
Found at i:6567133 original size:79 final size:79
Alignment explanation
Indices: 6567048--6567208 Score: 268
Period size: 79 Copynumber: 2.0 Consensus size: 79
6567038 GATCAATTGA
* * *
6567048 TTAATTCAGTAATCAATCGATTAATCAAATTAAATCGATTCAATCAGTTAATTTAATTAAAATTT
1 TTAATTCAATAATCAATCGATTAACCAAATTAAATCGATTCAATCAGTTAATTTAATTAAAATTG
6567113 AATTATAAACACAT
66 AATTATAAACACAT
* *
6567127 TTAATTCAATAATCGATCGATTAACCAAATTAAATTGATTCAATCAGTTAATTTAATTAAAATTG
1 TTAATTCAATAATCAATCGATTAACCAAATTAAATCGATTCAATCAGTTAATTTAATTAAAATTG
*
6567192 AATTATAAACACCT
66 AATTATAAACACAT
6567206 TTA
1 TTA
6567209 TTTGGAATAG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.38
Consensus pattern (79 bp):
TTAATTCAATAATCAATCGATTAACCAAATTAAATCGATTCAATCAGTTAATTTAATTAAAATTG
AATTATAAACACAT
Found at i:6569856 original size:10 final size:11
Alignment explanation
Indices: 6569819--6569859 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
6569809 CCTTTTTTTT
6569819 TAATAAAATAA
1 TAATAAAATAA
*
6569830 AAATAAAATAA
1 TAATAAAATAA
*
6569841 TAATAAAA-AT
1 TAATAAAATAA
6569851 TAATAAAAT
1 TAATAAAAT
6569860 TTCTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:6575597 original size:35 final size:35
Alignment explanation
Indices: 6575557--6575643 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
6575547 TATTTTTTTA
*
6575557 AAAAGATATTTGCATTTCATGTGCATCATTTTAAG
1 AAAAGATATTTGTATTTCATGTGCATCATTTTAAG
* * *
6575592 AAAAGACATTTTTATTTCATGTGCATCATTTTAGG
1 AAAAGATATTTGTATTTCATGTGCATCATTTTAAG
6575627 AAAAGATATTTGTATTT
1 AAAAGATATTTGTATTT
6575644 GCATCCTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (35 bp):
AAAAGATATTTGTATTTCATGTGCATCATTTTAAG
Found at i:6575671 original size:33 final size:34
Alignment explanation
Indices: 6575557--6575671 Score: 117
Period size: 35 Copynumber: 3.4 Consensus size: 34
6575547 TATTTTTTTA
* *
6575557 AAAAGATATTTGCATTTCATGTGCATCATTTTAAG
1 AAAAGACATTTGTATTTCA-GTGCATCATTTTAAG
* *
6575592 AAAAGACATTTTTATTTCATGTGCATCATTTTAGG
1 AAAAGACATTTGTATTTCA-GTGCATCATTTTAAG
* * *
6575627 AAAAGATATTTGTATTTGCA-T-CCTTATTTTAAG
1 AAAAGACATTTGTATTT-CAGTGCATCATTTTAAG
*
6575660 AGAAGACATTTG
1 AAAAGACATTTG
6575672 CATCATAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 19 0.28
34 1 0.01
35 46 0.68
36 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (34 bp):
AAAAGACATTTGTATTTCAGTGCATCATTTTAAG
Found at i:6576128 original size:42 final size:41
Alignment explanation
Indices: 6576071--6576209 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 41
6576061 TATTTTTTCG
* *
6576071 GTGGTGATATCCGAGTATTAAGATTTTAATTGCATATTCTTA
1 GTGGTGATATTCGAGTATTAA-ATTTTAATTGCATTTTCTTA
* * *
6576113 GTGGTGATATTCGAGT-GTAAATTTTGAATTTACATTTTTTTA
1 GTGGTGATATTCGAGTATTAAATTTT-AA-TTGCATTTTCTTA
* * *
6576155 GTGGTGATA-TCTGAATATTAAAGCTTGAATTGCATTTTC-T-
1 GTGGTGATATTC-GAGTATTAAA-TTTTAATTGCATTTTCTTA
6576195 -TGGTGATATTCGAGT
1 GTGGTGATATTCGAGT
6576210 TTTCTTTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
39 11 0.14
40 7 0.09
41 8 0.10
42 45 0.57
43 6 0.08
44 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.45
Consensus pattern (41 bp):
GTGGTGATATTCGAGTATTAAATTTTAATTGCATTTTCTTA
Found at i:6576316 original size:48 final size:47
Alignment explanation
Indices: 6576252--6576462 Score: 114
Period size: 48 Copynumber: 4.4 Consensus size: 47
6576242 ATTTTCTTGG
* * *
6576252 TGGTGATATCCAAGTTTACAGTTTGAATTTACATTTGTATTCTTTCGA
1 TGGTGATATTCGAGTTTAAAGTTTGAATTTACATTTGTATT-TTTCGA
*** * ** *
6576300 TGGTGATATTCGAGTTTTTTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCGG
1 TGGTGATATTCGAG---TTTAAAGT-TTGA-AT----TTACATTTGTATTTT-TCGA
* * *
6576357 TGGTGATATCCGAGTTTAAAGTTTGAATTTACATTTGCATTCTCTC-A
1 TGGTGATATTCGAGTTTAAAGTTTGAATTTACATTTGTATT-TTTCGA
*
6576404 GTGGTGATA-TCGAGTATTAAAGCTTGAA-TTACA----T-TTTTTCGA
1 -TGGTGATATTCGAGT-TTAAAGTTTGAATTTACATTTGTATTTTTCGA
6576446 TGGTGATATTCGAGTTT
1 TGGTGATATTCGAGTTT
6576463 CCTTCGATGG
Statistics
Matches: 126, Mismatches: 22, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
41 13 0.10
42 9 0.07
47 10 0.08
48 43 0.34
49 1 0.01
51 6 0.05
52 5 0.04
53 5 0.04
54 5 0.04
56 2 0.02
57 27 0.21
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (47 bp):
TGGTGATATTCGAGTTTAAAGTTTGAATTTACATTTGTATTTTTCGA
Found at i:6576333 original size:105 final size:105
Alignment explanation
Indices: 6576195--6576418 Score: 319
Period size: 105 Copynumber: 2.1 Consensus size: 105
6576185 TGCATTTTCT
* * *
6576195 TGGTGATATTCGAGTTTTCTTTGGTGACAATATCCGAAGTCATTTGCATTTTCTTGGTGGTGATA
1 TGGTGATATTCGAGTTTTCTTTGGTGACAATATCCAAAGACATTTGCATTTTCTCGGTGGTGATA
* * *
6576260 TCCAAGTTTACAGTTTGAATTTACATTTGTATTCTTTC-G
66 TCCAAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAG
** *
6576299 ATGGTGATATTCGAGTTTT-TTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCGGTGGTGA
1 -TGGTGATATTCGAGTTTTCTTT-GGTGACAATATCCAAAGACATTTGCATTTTCTCGGTGGTGA
*
6576363 TATCCGAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAG
64 TATCCAAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAG
6576405 TGGTGATA-TCGAGT
1 TGGTGATATTCGAGT
6576419 ATTAAAGCTT
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
104 9 0.08
105 97 0.91
106 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.43
Consensus pattern (105 bp):
TGGTGATATTCGAGTTTTCTTTGGTGACAATATCCAAAGACATTTGCATTTTCTCGGTGGTGATA
TCCAAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAG
Found at i:6576439 original size:47 final size:48
Alignment explanation
Indices: 6576339--6576439 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
6576329 ATATCCAAAG
* * * *
6576339 ACATTTGTATTTTCTCGGTGGTGATATCCGAGTTTAAAGTTTGAATTT
1 ACATTTGCATTCTCTCAGTGGTGATATCCGAGTTTAAAGCTTGAATTT
6576387 ACATTTGCATTCTCTCAGTGGTGATAT-CGAGTATTAAAGCTTGAA-TT
1 ACATTTGCATTCTCTCAGTGGTGATATCCGAGT-TTAAAGCTTGAATTT
6576434 ACATTT
1 ACATTT
6576440 TTTCGATGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
47 13 0.27
48 35 0.73
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (48 bp):
ACATTTGCATTCTCTCAGTGGTGATATCCGAGTTTAAAGCTTGAATTT
Found at i:6576482 original size:251 final size:243
Alignment explanation
Indices: 6576113--6576565 Score: 593
Period size: 251 Copynumber: 1.8 Consensus size: 243
6576103 CATATTCTTA
* *
6576113 GTGGTGATATTCGAGTGTAAATTTTGAATTTACATTTTTTTAGTGGTGATATCTGAATATTAAAG
1 GTGGTGATATCCGAGTGTAAAGTTTGAATTTACATTTTTTTAGTGGTGATATCTGAATATTAAAG
* * * * * *
6576178 CTTGAATTGCATTTTCTTGGTGATATTCGAGTTTTCTTTGGTGACAATATCCGAAGTCATTTGCA
66 CTTGAATTACATTTTCATGGTGATATTCGAGTTTCCTTCGATGACAATATCCGAAGACATTTGCA
* *** * * * *
6576243 TTTTCTTGGTGGTGATATCCAAGTTTACAGTTTGAATTTACATTTGTATTCTTTCGATGGTGATA
131 TCTTCCCAGTAGTGATATCCAAGTTTAAAGTTTAAATTTACATTTGTATTCTCTCGATGGTGATA
*
6576308 TTCGAGTTTTTTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCG
196 TCCGAGTTTTTTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCG
* *
6576356 GTGGTGATATCCGAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAGTGGTGATATC-GAGTA
1 GTGGTGATATCCGAGTGTAAAGTTTGAATTTACATTT---TT-T-T-AGTGGTGATATCTGAATA
* *
6576420 TTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTTCCTTCGATGGCGATATCCGAAG
60 TTAAAGCTTGAATTACA--TTTTC-ATGGTGATATTCGAGTTTCCTTCGATGACAATATCCGAAG
** *
6576485 ACATTTGCATCTTCCCAGTAGTGATATCTGAGTTTAAAGTTTAAATTTGCATTTGTATTCTCTCG
122 ACATTTGCATCTTCCCAGTAGTGATATCCAAGTTTAAAGTTTAAATTTACATTTGTATTCTCTCG
*
6576550 GTGGTGATATCCGAGT
187 ATGGTGATATCCGAGT
6576566 ATTAAAGCTT
Statistics
Matches: 176, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
243 34 0.19
246 2 0.01
247 1 0.01
248 21 0.12
249 12 0.07
250 5 0.03
251 101 0.57
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (243 bp):
GTGGTGATATCCGAGTGTAAAGTTTGAATTTACATTTTTTTAGTGGTGATATCTGAATATTAAAG
CTTGAATTACATTTTCATGGTGATATTCGAGTTTCCTTCGATGACAATATCCGAAGACATTTGCA
TCTTCCCAGTAGTGATATCCAAGTTTAAAGTTTAAATTTACATTTGTATTCTCTCGATGGTGATA
TCCGAGTTTTTTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCG
Found at i:6576486 original size:146 final size:147
Alignment explanation
Indices: 6576294--6576607 Score: 468
Period size: 146 Copynumber: 2.1 Consensus size: 147
6576284 ATTTGTATTC
** * * * * * * *
6576294 TTTCGATGGTGATATTCGAGTTTTTTTCGGTGATGATATCCAAAGACATTTGTATTTTCTCGGTG
1 TTTCGATGGTGATATTCGAGTTTCCTTCGATGACGATATCCAAAGACATTTGCATCTTCCCAGTA
*
6576359 GTGATATCCGAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCAGTGGTGATAT-CGAGTATTA
66 GTGATATCCGAGTTTAAAGTTTAAATTTACATTTGCATTCTCTCAGTGGTGATATCCGAGTATTA
6576423 AAGCTTGAATTACATTT
131 AAGCTTGAATTACATTT
* *
6576440 TTTCGATGGTGATATTCGAGTTTCCTTCGATGGCGATATCCGAAGACATTTGCATCTTCCCAGTA
1 TTTCGATGGTGATATTCGAGTTTCCTTCGATGACGATATCCAAAGACATTTGCATCTTCCCAGTA
* * * *
6576505 GTGATATCTGAGTTTAAAGTTTAAATTTGCATTTGTATTCTCTCGGTGGTGATATCCGAGTATTA
66 GTGATATCCGAGTTTAAAGTTTAAATTTACATTTGCATTCTCTCAGTGGTGATATCCGAGTATTA
6576570 AAGCTTGAATTACATTT
131 AAGCTTGAATTACATTT
*
6576587 TTTCGATGGTGATATCCGAGT
1 TTTCGATGGTGATATTCGAGT
6576608 ATTAAGATTT
Statistics
Matches: 150, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
146 104 0.69
147 46 0.31
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (147 bp):
TTTCGATGGTGATATTCGAGTTTCCTTCGATGACGATATCCAAAGACATTTGCATCTTCCCAGTA
GTGATATCCGAGTTTAAAGTTTAAATTTACATTTGCATTCTCTCAGTGGTGATATCCGAGTATTA
AAGCTTGAATTACATTT
Found at i:6576571 original size:42 final size:42
Alignment explanation
Indices: 6576545--6576732 Score: 220
Period size: 42 Copynumber: 4.5 Consensus size: 42
6576535 ATTTGTATTC
* *
6576545 TCTCGGTGGTGATATCCGAGTATTAAAGCTTGAATTACATTT
1 TCTCGATGGTGATATCCGAGTATTAAAGTTTGAATTACATTT
* *
6576587 TTTCGATGGTGATATCCGAGTATT-AAGATTTGAATTACATAT
1 TCTCGATGGTGATATCCGAGTATTAAAG-TTTGAATTACATTT
*
6576629 TCTCGATGGTGATATCCGAGT-TTAAATTTTGAATTTACATTT
1 TCTCGATGGTGATATCCGAGTATTAAAGTTTGAA-TTACATTT
* ** **
6576671 TTTCGATGGTGATAT-CGAGTATTAAAACTTGAATTGTATTT
1 TCTCGATGGTGATATCCGAGTATTAAAGTTTGAATTACATTT
* * *
6576712 TCTTGATGGTGCTATTCGAGT
1 TCTCGATGGTGATATCCGAGT
6576733 TTCCTCCAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
41 34 0.27
42 92 0.73
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (42 bp):
TCTCGATGGTGATATCCGAGTATTAAAGTTTGAATTACATTT
Found at i:6576720 original size:83 final size:83
Alignment explanation
Indices: 6576537--6576734 Score: 263
Period size: 83 Copynumber: 2.4 Consensus size: 83
6576527 AAATTTGCAT
* *
6576537 TTGTATTCTCTCGGTGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGATAT
1 TTGTATTTTCTCGATGGTGATATCCGAGT-TTAAAGCTTGAATTACATTTTTTCGATGGTGATAT
* *
6576602 CCGAGTATTAAGATTTGAA
65 CCGAGTATTAAAACTTGAA
** * **
6576621 TTACATATTCTCGATGGTGATATCCGAGTTTAAATTTTGAATTTACATTTTTTCGATGGTGATAT
1 TTGTATTTTCTCGATGGTGATATCCGAGTTTAAAGCTTGAA-TTACATTTTTTCGATGGTGATAT
6576686 -CGAGTATTAAAACTTGAA
65 CCGAGTATTAAAACTTGAA
* * *
6576704 TTGTATTTTCTTGATGGTGCTATTCGAGTTT
1 TTGTATTTTCTCGATGGTGATATCCGAGTTT
6576735 CCTCCAGTGG
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
83 51 0.52
84 47 0.48
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (83 bp):
TTGTATTTTCTCGATGGTGATATCCGAGTTTAAAGCTTGAATTACATTTTTTCGATGGTGATATC
CGAGTATTAAAACTTGAA
Found at i:6576863 original size:105 final size:105
Alignment explanation
Indices: 6576712--6576924 Score: 286
Period size: 105 Copynumber: 2.0 Consensus size: 105
6576702 AATTGTATTT
* * * * * *
6576712 TCTTGATGGTGCTATTCGAGTTTCCTCCAGTGGTAATATTCGAAGTCATTTGCATCTTCTC-AGT
1 TCTTGATGGTGATATTCAAGTTTCCTCCAGTGATAATATCCAAAGTCATTTGCATATTCTCGA-T
6576776 GGTGATATGC-AAGTTTAAAGTTTGAATTTGCATTTGCATTC
65 GGTGATAT-CTAAGTTTAAAGTTTGAATTTGCATTTGCATTC
*** * *
6576817 TCTTGATGGTGATATTCAAGTTTCCTTTGGTGATGATATCCAAAGTCATTTGTATATTCTCGATG
1 TCTTGATGGTGATATTCAAGTTTCCTCCAGTGATAATATCCAAAGTCATTTGCATATTCTCGATG
*
6576882 GTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTC
66 GTGATATCTAAGTTTAAAGTTTGAATTTGCATTTGCATTC
6576922 TCT
1 TCT
6576925 CAGTGGTGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
104 1 0.01
105 92 0.98
106 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (105 bp):
TCTTGATGGTGATATTCAAGTTTCCTCCAGTGATAATATCCAAAGTCATTTGCATATTCTCGATG
GTGATATCTAAGTTTAAAGTTTGAATTTGCATTTGCATTC
Found at i:6576910 original size:42 final size:42
Alignment explanation
Indices: 6576864--6576986 Score: 95
Period size: 42 Copynumber: 2.8 Consensus size: 42
6576854 ATCCAAAGTC
* * *
6576864 ATTTGTATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGA
1 ATTTGTATATTCTCAATGGTGATATATGAGTTTAAAGCTTGA
* *
6576906 ATTTGCATTTGCATTCTCTCAGTGGTGATATATGAGTATTAAAGCTTGA
1 ATTTG--TAT--A-T-TCTCAATGGTGATATATGAGT-TTAAAGCTTGA
* * * *
6576955 A-TTATATTTTTTCAATGGTGATATTTGAGTTT
1 ATTTGTATATTCTCAATGGTGATATATGAGTTT
6576987 CCTTCGGTGG
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
41 2 0.03
42 23 0.37
43 1 0.02
44 2 0.03
46 3 0.05
47 1 0.02
48 20 0.32
49 11 0.17
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (42 bp):
ATTTGTATATTCTCAATGGTGATATATGAGTTTAAAGCTTGA
Found at i:6577162 original size:147 final size:147
Alignment explanation
Indices: 6576822--6577187 Score: 413
Period size: 147 Copynumber: 2.5 Consensus size: 147
6576812 CATTCTCTTG
* *** ** * *
6576822 ATGGTGATATTCAAGTTTCCTTTGGTGATGATATCCAAAGTCATTTGTA-TATTCTCGATGGTGA
1 ATGGTGATATTCGAGTTTCCTTTGGTGGCAATATCTGAAGTCATTTGCATTTTTC-CGATGGTGA
* * *
6576886 TATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCAGTGGTGATATATGAGTATTAAAGC
65 TATCCGAGTTTAAAGTTTGAATTTGCATATGCATTCTCTCAGTGGTGATATATAAGTATTAAAGC
* *
6576951 TTGAATTATATTTTTTCA
130 TTGAATTACATTTTCTCA
* * * *
6576969 ATGGTGATATTTGAGTTTCCTTCGGTGGGGAA-AT-TCGAAGAT-ATTTGCATTTTTCCGGTGGT
1 ATGGTGATATTCGAGTTTCCTTTGGT-GGCAATATCT-GAAG-TCATTTGCATTTTTCCGATGGT
* *
6577031 GATATCCGAGTTTAAAGTTTGAATTT-CTATATGCATT-TCCTCGGTGGTGATATCTAAGTATTA
63 GATATCCGAGTTTAAAGTTTGAATTTGC-ATATGCATTCT-CTCAGTGGTGATATATAAGTATTA
*
6577094 AAGCTTGACTTACATTTTCTCA
126 AAGCTTGAATTACATTTTCTCA
**
6577116 ATGGTGATATTCGAGTTTCCTTTAATGGCAATATCTGAAGTCATTTGCATCTTTT-CGATGGTGA
1 ATGGTGATATTCGAGTTTCCTTTGGTGGCAATATCTGAAGTCATTTGCAT-TTTTCCGATGGTGA
*
6577180 TATTCGAG
65 TATCCGAG
6577188 ATTATTTATC
Statistics
Matches: 183, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
146 7 0.04
147 164 0.90
148 12 0.07
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (147 bp):
ATGGTGATATTCGAGTTTCCTTTGGTGGCAATATCTGAAGTCATTTGCATTTTTCCGATGGTGAT
ATCCGAGTTTAAAGTTTGAATTTGCATATGCATTCTCTCAGTGGTGATATATAAGTATTAAAGCT
TGAATTACATTTTCTCA
Found at i:6577389 original size:49 final size:49
Alignment explanation
Indices: 6577265--6577392 Score: 170
Period size: 51 Copynumber: 2.6 Consensus size: 49
6577255 CTCTGCTATT
6577265 TTTTTCAAGATAAGATTTTAAAGTTGTTGAGCATTTGCTGAGAGAAGCCC
1 TTTTTCAAGATAAGATTTTAAAGTTGTTGAGCATTTGCTGAGAGAAG-CC
* * *
6577315 TTTTTC-AGATGAGAATATTTAAAGTTGTTGAGCCTTTGCTGAGAGGAG-C
1 TTTTTCAAGATAAG-AT-TTTAAAGTTGTTGAGCATTTGCTGAGAGAAGCC
*
6577364 TTTTATCAATATAAGATTTTAAAGTTGTT
1 TTTT-TCAAGATAAGATTTTAAAGTTGTT
6577393 AAGTCTCTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
49 23 0.33
50 12 0.17
51 34 0.49
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (49 bp):
TTTTTCAAGATAAGATTTTAAAGTTGTTGAGCATTTGCTGAGAGAAGCC
Found at i:6577407 original size:100 final size:100
Alignment explanation
Indices: 6577264--6577460 Score: 263
Period size: 100 Copynumber: 2.0 Consensus size: 100
6577254 CCTCTGCTAT
* * * * *
6577264 TTTTTTCAAGATAAGATTTTAAAGTTGTTGAGCATTTGCTGAG-AGAAGCCCTTTTTCAGATGAG
1 TTTTATCAAGATAAGATTTTAAAGTTGTTAAGCATCTACTGAGAAG-AGCCATTTTTCAGATGAG
* *
6577328 AATATTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGC
65 AATATTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC
* * *
6577364 TTTTATCAATATAAGATTTTAAAGTTGTTAAGTC-TCTATTGAGAAGAGTCATTTTTCAGATGAG
1 TTTTATCAAGATAAGATTTTAAAGTTGTTAAG-CATCTACTGAGAAGAGCCATTTTTCAGATGAG
*
6577428 AATTTTTAAAGTTGTTGAGCCTCTACTGAGAGG
65 AATATTTAAAGTTGTTGAGCCTCTACTGAGAGG
6577461 CGCATTTTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 81 0.96
101 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (100 bp):
TTTTATCAAGATAAGATTTTAAAGTTGTTAAGCATCTACTGAGAAGAGCCATTTTTCAGATGAGA
ATATTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC
Found at i:6577452 original size:51 final size:50
Alignment explanation
Indices: 6577280--6577471 Score: 176
Period size: 51 Copynumber: 3.8 Consensus size: 50
6577270 CAAGATAAGA
* * * *
6577280 TTTTAAAGTTGTTGAGCATTTGCTGAG-AGAAGCCCTTTTTCAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAG-AG-CATTTTTCAGATGAGAAT
* * * * * *
6577331 ATTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGC-TTTTATCA-AT-ATAAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTT-TCAGATGAGAA-T
* * *
6577380 TTTTAAAGTTGTTAAGTCTCTATTGAGAAGAGTCATTTTTCAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG-CATTTTTCAGATGAGAAT
* *
6577431 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGCGCATTTTTCA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTTTCA
6577472 AATTCTAAAT
Statistics
Matches: 115, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
48 3 0.03
49 31 0.27
50 17 0.15
51 60 0.52
52 4 0.03
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTTTCAGATGAGAAT
Found at i:6577483 original size:51 final size:49
Alignment explanation
Indices: 6577280--6577502 Score: 164
Period size: 51 Copynumber: 4.4 Consensus size: 49
6577270 CAAGATAAGA
* * * * * * *
6577280 TTTTAAAGTTGTTGAGCATTTGCTGAGAGAAGCCCTTTTTCAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CATTTTTCAAATTA-AAT
* * *
6577331 ATTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGC-TTTTATC-AATATAAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCATTTT-TCAAAT-TAA-AT
* * * * * *
6577380 TTTTAAAGTTGTTAAGTCTCTATTGAGAAGAGTCATTTTTCAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CATTTTTCAAATTA-AAT
*
6577431 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGCGCATTTTTCAAATTCTAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCATTTTTCAAA-T-TAAAT
* *
6577482 TTTCAAAAGTTGTCGAGCCTC
1 TTT-TAAAGTTGTTGAGCCTC
6577503 GAGTAAGATG
Statistics
Matches: 138, Mismatches: 23, Indels: 21
0.76 0.13 0.12
Matches are distributed among these distances:
49 32 0.23
50 20 0.14
51 70 0.51
52 16 0.12
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.38
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCATTTTTCAAATTAAAT
Found at i:6577756 original size:21 final size:21
Alignment explanation
Indices: 6577730--6577778 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6577720 ATTTTTATTA
6577730 AATAATATATATTAAT-AAGAT
1 AATAATAT-TATTAATAAAGAT
* *
6577751 AATAATATTATTATTAAATAT
1 AATAATATTATTAATAAAGAT
6577772 AATAATA
1 AATAATA
6577779 ATACAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AATAATATTATTAATAAAGAT
Found at i:6577770 original size:24 final size:21
Alignment explanation
Indices: 6577730--6577781 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 21
6577720 ATTTTTATTA
6577730 AATAATATATATTAATA-AGAT
1 AATAATATATATTAATATA-AT
6577751 AATAATATTATTATTAAATATAAT
1 AATAATA-TA-TATT-AATATAAT
6577775 AATAATA
1 AATAATA
6577782 CAAAAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 4 0.15
24 13 0.48
25 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATAATATATATTAATATAAT
Found at i:6577913 original size:39 final size:38
Alignment explanation
Indices: 6577859--6577960 Score: 159
Period size: 39 Copynumber: 2.7 Consensus size: 38
6577849 TGTCACCCTC
*
6577859 TGTTCACCCTTGCATACACTGTCACCCCTGTTTACCCCA
1 TGTTCACCCCTGCATACACTGTCACCCCTGTTTA-CCCA
*
6577898 TGTTCACCCCTGCATACACTGCCACCCCTGTTTACCCA
1 TGTTCACCCCTGCATACACTGTCACCCCTGTTTACCCA
* *
6577936 TGTTCCCCCCTGCATACATTGTCAC
1 TGTTCACCCCTGCATACACTGTCAC
6577961 ATCTCTGTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
38 26 0.45
39 32 0.55
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (38 bp):
TGTTCACCCCTGCATACACTGTCACCCCTGTTTACCCA
Found at i:6578679 original size:16 final size:16
Alignment explanation
Indices: 6578658--6578691 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6578648 ATCGAACTGT
* *
6578658 TGAACCTGATTCGGAC
1 TGAACCTAAGTCGGAC
6578674 TGAACCTAAGTCGGAC
1 TGAACCTAAGTCGGAC
6578690 TG
1 TG
6578692 GCCCCAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (16 bp):
TGAACCTAAGTCGGAC
Found at i:6579121 original size:16 final size:17
Alignment explanation
Indices: 6579081--6579124 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
6579071 ATTGGAGTAT
6579081 TTATAAAATTTTTTTAA
1 TTATAAAATTTTTTTAA
*
6579098 TATAATAAAATTTTTTT-G
1 T-T-ATAAAATTTTTTTAA
6579116 TTATAAAAT
1 TTATAAAAT
6579125 AGTAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 2 0.08
19 13 0.54
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATAAAATTTTTTTAA
Found at i:6582348 original size:22 final size:21
Alignment explanation
Indices: 6582317--6582379 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
6582307 ATAAATAGAA
*
6582317 ATAATAATTAAATTAATTTTT
1 ATAATAATTAAATTAATATTT
6582338 ATAATCAATTAAATTAATATTT
1 ATAAT-AATTAAATTAATATTT
* **
6582360 AATATTTTTTAAATTAATAT
1 -ATAATAATTAAATTAATAT
6582380 CAAATCAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.14
22 27 0.75
23 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAATAATTAAATTAATATTT
Found at i:6582389 original size:11 final size:11
Alignment explanation
Indices: 6582370--6582421 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
6582360 AATATTTTTT
*
6582370 AAATTAATATC
1 AAATCAATATC
6582381 AAATCAATATC
1 AAATCAATATC
* * *
6582392 TAAT-ATTTTTC
1 AAATCA-ATATC
6582403 AAATCAATATC
1 AAATCAATATC
6582414 AAATCAAT
1 AAATCAAT
6582422 TTAAATATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 1 0.03
11 30 0.94
12 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATCAATATC
Found at i:6582396 original size:33 final size:33
Alignment explanation
Indices: 6582332--6582421 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
6582322 AATTAAATTA
* *
6582332 ATTTTT-ATAATCAAT-T-AAATTAATATTTAAT
1 ATTTTTCA-AATCAATATCAAATCAATATCTAAT
* *
6582363 ATTTTTTAAATTAATATCAAATCAATATCTAAT
1 ATTTTTCAAATCAATATCAAATCAATATCTAAT
6582396 ATTTTTCAAATCAATATCAAATCAAT
1 ATTTTTCAAATCAATATCAAATCAAT
6582422 TTAAATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 12 0.24
32 2 0.04
33 37 0.73
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (33 bp):
ATTTTTCAAATCAATATCAAATCAATATCTAAT
Found at i:6589990 original size:2 final size:2
Alignment explanation
Indices: 6589977--6590020 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
6589967 TTTTATGTAA
* * *
6589977 AT AT AC AT AT AT AT -T TT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6590018 AT A
1 AT A
6590021 AAAGAGATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6589991 original size:23 final size:23
Alignment explanation
Indices: 6589964--6590022 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6589954 AGATTTATAA
*
6589964 ATATTTTATGTAAATATACATAT
1 ATATTTTATATAAATATACATAT
* * *
6589987 ATATTTTCTATATATATATATAT
1 ATATTTTATATAAATATACATAT
*
6590010 ATA-TATATATAAA
1 ATATTTTATATAAA
6590023 AGAGATCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATTTTATATAAATATACATAT
Found at i:6590978 original size:14 final size:14
Alignment explanation
Indices: 6590959--6590989 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6590949 TAGCATTATA
6590959 TTATTTTAAATTTT
1 TTATTTTAAATTTT
6590973 TTATTTTAAATTTT
1 TTATTTTAAATTTT
6590987 TTA
1 TTA
6590990 AATTATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTAAATTTT
Found at i:6592382 original size:115 final size:115
Alignment explanation
Indices: 6592180--6592411 Score: 410
Period size: 115 Copynumber: 2.0 Consensus size: 115
6592170 TATTATACGT
* *
6592180 ATCAATAAATTTAATATACTAGTTCAAATGGACAATGAGACTTGAAAAATATTGGAATTACCGAC
1 ATCAATAAATTTAATATACTAGTTCAAATGGACAATGAGACTTGAAAAATATTAGAATTACCAAC
6592245 GACACAAGATTTTGATGATCACTGACATCATATAAGTTGAACATTTCTTG
66 GACACAAGATTTTGATGATCACTGACATCATATAAGTTGAACATTTCTTG
* * * *
6592295 ATCAATAAATTTAATATATTAGTTCAATTGGACAATGAGACTTGGAAAATATTAGAATTACCAAT
1 ATCAATAAATTTAATATACTAGTTCAAATGGACAATGAGACTTGAAAAATATTAGAATTACCAAC
6592360 GACACAAGATTTTGATGATCACTGACATCATATAAGTTGAACATTTCTTG
66 GACACAAGATTTTGATGATCACTGACATCATATAAGTTGAACATTTCTTG
6592410 AT
1 AT
6592412 TATTGGTCAG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (115 bp):
ATCAATAAATTTAATATACTAGTTCAAATGGACAATGAGACTTGAAAAATATTAGAATTACCAAC
GACACAAGATTTTGATGATCACTGACATCATATAAGTTGAACATTTCTTG
Found at i:6596830 original size:19 final size:18
Alignment explanation
Indices: 6596793--6596840 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
6596783 AAATTCTAAA
6596793 TTTTTTATATTTTAAAAT
1 TTTTTTATATTTTAAAAT
**
6596811 TATTTTTATATTTTTTAAT
1 T-TTTTTATATTTTAAAAT
*
6596830 TTTTTGATATT
1 TTTTTTATATT
6596841 AAAAATAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTTATATTTTAAAAT
Found at i:6596846 original size:36 final size:34
Alignment explanation
Indices: 6596791--6596880 Score: 85
Period size: 36 Copynumber: 2.6 Consensus size: 34
6596781 TAAAATTCTA
* * *
6596791 AATTTTTTATATTTTAAAATTATTTTTATATTTTTT
1 AATTTTTTATATTTAAAAATAATGTTT-T-TTTTTT
6596827 AATTTTTTGATA-TTAAAAATAATGTTTTTTTTTT
1 AATTTTTT-ATATTTAAAAATAATGTTTTTTTTTT
* * *
6596861 ACTTTTTAACA-TTAAAAATA
1 AATTTTTTATATTTAAAAATA
6596881 TAAAATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
33 11 0.23
34 12 0.26
35 1 0.02
36 20 0.43
37 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (34 bp):
AATTTTTTATATTTAAAAATAATGTTTTTTTTTT
Found at i:6601032 original size:8 final size:7
Alignment explanation
Indices: 6601021--6601060 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
6601011 CTCAAAAGTG
6601021 AAAAAAT
1 AAAAAAT
6601028 AAAAAAT
1 AAAAAAT
*
6601035 TAAAAAT
1 AAAAAAT
6601042 AAAAAAT
1 AAAAAAT
*
6601049 TAAAAAT
1 AAAAAAT
*
6601056 GAAAA
1 AAAAA
6601061 CCCAATGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:6601039 original size:14 final size:14
Alignment explanation
Indices: 6601022--6601060 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
6601012 TCAAAAGTGA
6601022 AAAAATAAAAAATT
1 AAAAATAAAAAATT
6601036 AAAAATAAAAAATT
1 AAAAATAAAAAATT
6601050 AAAAATGAAAA
1 AAAAAT-AAAA
6601061 CCCAATGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:6601045 original size:21 final size:21
Alignment explanation
Indices: 6601021--6601060 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6601011 CTCAAAAGTG
*
6601021 AAAAAATAAAAAATTAAAAAT
1 AAAAAATAAAAAATGAAAAAT
*
6601042 AAAAAATTAAAAATGAAAA
1 AAAAAATAAAAAATGAAAA
6601061 CCCAATGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAAAATAAAAAATGAAAAAT
Found at i:6605555 original size:22 final size:22
Alignment explanation
Indices: 6605497--6605561 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
6605487 AAGTGAAAAA
6605497 ATATATCTTTCAAGTTTAACT-
1 ATATATCTTTCAAGTTTAACTC
**
6605518 -TAT-T-TATAAAAGTTTAACTC
1 ATATATCT-TTCAAGTTTAACTC
6605538 ATATATCTTTCAAGTTTAACTC
1 ATATATCTTTCAAGTTTAACTC
6605560 AT
1 AT
6605562 TTAGGTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 1 0.03
19 12 0.34
20 3 0.09
21 3 0.09
22 15 0.43
23 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (22 bp):
ATATATCTTTCAAGTTTAACTC
Found at i:6606410 original size:31 final size:33
Alignment explanation
Indices: 6606341--6606432 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 33
6606331 AAATTGAAGA
*
6606341 TTCAATT-ATAATAAAAATAAATATTTAAGAGT
1 TTCAATTGATAATAAAAATAAATATTTAAGAAT
6606373 TT-AATTGA-AATAAAAATAAATATTTAA-AAT
1 TTCAATTGATAATAAAAATAAATATTTAAGAAT
6606403 TTCAATTGATTTAAATAAAAAATAAATATT
1 TTCAATTGA--T-AAT-AAAAATAAATATT
6606433 ATATTGATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
30 4 0.08
31 29 0.56
32 3 0.06
35 3 0.06
36 13 0.25
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (33 bp):
TTCAATTGATAATAAAAATAAATATTTAAGAAT
Found at i:6611784 original size:15 final size:15
Alignment explanation
Indices: 6611764--6611800 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6611754 TGGTAGTCAA
6611764 GATCCTCCCCTAATG
1 GATCCTCCCCTAATG
*
6611779 GATCCTCCTCTAATG
1 GATCCTCCCCTAATG
*
6611794 GAGCCTC
1 GATCCTC
6611801 TCAGACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (15 bp):
GATCCTCCCCTAATG
Found at i:6624822 original size:18 final size:18
Alignment explanation
Indices: 6624789--6624823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6624779 TTTTTGTTTG
*
6624789 TTAAAGATAATCATAAAA
1 TTAAAGATAAGCATAAAA
*
6624807 TTAAAGATAAGGATAAA
1 TTAAAGATAAGCATAAA
6624824 CGACGATAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (18 bp):
TTAAAGATAAGCATAAAA
Found at i:6630076 original size:20 final size:20
Alignment explanation
Indices: 6630028--6630081 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
6630018 TATGAATAAA
*
6630028 ATTAATACAAAAATTAATTTT
1 ATTAAT-CAATAATTAATTTT
*
6630049 ATTTATCAATAATTAAATTTT
1 ATTAATCAATAATT-AATTTT
6630070 -TTAATCATATAA
1 ATTAATCA-ATAA
6630082 GAGATGTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATCAATAATTAATTTT
Found at i:6633170 original size:3 final size:3
Alignment explanation
Indices: 6633162--6633187 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6633152 AGTTGAAGAT
6633162 GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GA
6633188 TGAGGACGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:6633195 original size:9 final size:9
Alignment explanation
Indices: 6633159--6633200 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
6633149 TGTAGTTGAA
6633159 GATGACGAC
1 GATGACGAC
*
6633168 GACGACGAC
1 GATGACGAC
*
6633177 GACGACGAC
1 GATGACGAC
*
6633186 GATGAGGAC
1 GATGACGAC
6633195 GATGAC
1 GATGAC
6633201 AAGGATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.36, T:0.07
Consensus pattern (9 bp):
GATGACGAC
Found at i:6636896 original size:15 final size:15
Alignment explanation
Indices: 6636876--6636907 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6636866 AGATTGCCAG
6636876 AAGTTACTAAAAAAT
1 AAGTTACTAAAAAAT
6636891 AAGTTACTAAAAAAT
1 AAGTTACTAAAAAAT
6636906 AA
1 AA
6636908 TCCACAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (15 bp):
AAGTTACTAAAAAAT
Found at i:6643815 original size:9 final size:10
Alignment explanation
Indices: 6643801--6643946 Score: 66
Period size: 11 Copynumber: 13.7 Consensus size: 10
6643791 AAAATAAAAC
6643801 TATTTATTAT
1 TATTTATTAT
6643811 T-TTTA-TAT
1 TATTTATTAT
6643819 TATTTATTAAT
1 TATTTATT-AT
*
6643830 ATATTGTAATAT
1 -TATT-TATTAT
6643842 TATTTATTAAT
1 TATTTATT-AT
6643853 AATATTTATTGAT
1 --TATTTATT-AT
*
6643866 ATATTATATTAA
1 -TATT-TATTAT
*
6643878 TAGTATATTAT
1 TA-TTTATTAT
* *
6643889 TA-ATAATAT
1 TATTTATTAT
*
6643898 TATTTATTAA
1 TATTTATTAT
6643908 TATATTATTAT
1 TAT-TTATTAT
*
6643919 T-TTATTTTAT
1 TATT-TATTAT
* *
6643929 TAATATAATAT
1 T-ATTTATTAT
6643940 TATTTAT
1 TATTTAT
6643947 AAATAAAATT
Statistics
Matches: 104, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
8 4 0.04
9 17 0.16
10 23 0.22
11 29 0.28
12 14 0.13
13 17 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTATTAT
Found at i:6643834 original size:23 final size:23
Alignment explanation
Indices: 6643808--6643935 Score: 105
Period size: 23 Copynumber: 5.1 Consensus size: 23
6643798 AACTATTTAT
6643808 TATTTTTATATTATTTATTAATA
1 TATTTTTATATTATTTATTAATA
* *
6643831 TATTGTAATATTATTTATTAATAA
1 TATTTTTATATTATTTATTAAT-A
6643855 TATTTATTGATA-TATTATATTAATAGTA
1 TATTT-TT-ATATTATT-TATT-A-A-TA
6643883 TATTATTAATAATATTATTTATTAATA
1 TATT-TT--T-ATATTATTTATTAATA
* *
6643910 TATTATTATTTTATTTTATTAATA
1 TATTTTTATATTA-TTTATTAATA
6643934 TA
1 TA
6643936 ATATTATTTA
Statistics
Matches: 86, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
23 25 0.29
24 18 0.21
25 5 0.06
26 8 0.09
27 7 0.08
28 8 0.09
29 3 0.03
30 8 0.09
31 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTATATTATTTATTAATA
Found at i:6643855 original size:16 final size:16
Alignment explanation
Indices: 6643836--6643958 Score: 85
Period size: 13 Copynumber: 8.6 Consensus size: 16
6643826 TAATATATTG
6643836 TAATATTATTTATTAA
1 TAATATTATTTATTAA
*
6643852 T-A-A-TATTTATTGA
1 TAATATTATTTATTAA
6643865 T-ATATTA--TATTAA
1 TAATATTATTTATTAA
*
6643878 TAGTA-TA-TTATTAA
1 TAATATTATTTATTAA
6643892 TAATATTATTTATTAA
1 TAATATTATTTATTAA
6643908 T-ATATTA-TTATT--
1 TAATATTATTTATTAA
* * *
6643920 TTATTTTA-TTAAT-A
1 TAATATTATTTATTAA
*
6643934 TAATATTATTTATAAA
1 TAATATTATTTATTAA
*
6643950 TAAAATTAT
1 TAATATTAT
6643959 GTTCAAAAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.01
13 28 0.33
14 25 0.29
15 14 0.16
16 18 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TAATATTATTTATTAA
Found at i:6643858 original size:13 final size:13
Alignment explanation
Indices: 6643819--6643917 Score: 82
Period size: 13 Copynumber: 7.7 Consensus size: 13
6643809 ATTTTTATAT
6643819 TATTTATTAAT-A
1 TATTTATTAATAA
* *
6643831 TA-TT-GTAATAT
1 TATTTATTAATAA
6643842 TATTTATTAATAA
1 TATTTATTAATAA
*
6643855 TATTTATTGAT-A
1 TATTTATTAATAA
*
6643867 TATTATATTAATAG
1 TATT-TATTAATAA
6643881 TATATTATTAATAA
1 TAT-TTATTAATAA
*
6643895 TA-TTATTTATTAA
1 TATTTA-TTAATAA
6643908 TATATTATTA
1 TAT-TTATTA
6643918 TTTTATTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.06
11 4 0.06
12 12 0.17
13 29 0.42
14 16 0.23
15 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
TATTTATTAATAA
Found at i:6643896 original size:56 final size:54
Alignment explanation
Indices: 6643805--6643948 Score: 158
Period size: 54 Copynumber: 2.7 Consensus size: 54
6643795 TAAAACTATT
* *
6643805 TATTATTTTTATATTAT-TT-AT-TAATA-TATT-GTAATATTATTTATTAATAA
1 TATTATTATTATATTATATTAATATAATATTATTAATAATATTATTTATTAAT-A
6643855 TATTTATTGA-TATATTATATTAATAGT-ATATTATTAATAATATTATTTATTAATA
1 TA-TTATT-ATTATATTATATTAATA-TAATATTATTAATAATATTATTTATTAATA
* * *
6643910 TATTATTATTTTATTTTATTAATATAATATTATTTATAA
1 TATTATTATTATATTATATTAATATAATATTATTAATAA
6643949 ATAAAATTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
50 2 0.03
51 13 0.16
52 2 0.03
53 4 0.05
54 33 0.42
55 8 0.10
56 17 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (54 bp):
TATTATTATTATATTATATTAATATAATATTATTAATAATATTATTTATTAATA
Found at i:6643908 original size:30 final size:29
Alignment explanation
Indices: 6643836--6643919 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 29
6643826 TAATATATTG
*
6643836 TAATATTATTTATTAATA-ATATTTATTGA
1 TAATATTATTTATTAATATATA-TTATTAA
6643865 T-ATATTA--TATTAATAGTATATTATTAA
1 TAATATTATTTATTAATA-TATATTATTAA
6643892 TAATATTATTTATTAATATATTATTATT
1 TAATATTATTTATTAATATA-TATTATT
6643920 TTATTTTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
26 8 0.17
27 7 0.15
28 15 0.31
29 3 0.06
30 15 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TAATATTATTTATTAATATATATTATTAA
Found at i:6643990 original size:42 final size:42
Alignment explanation
Indices: 6643926--6644008 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
6643916 TATTTTATTT
6643926 TATTAATATAATATTATTTATAAATAA-AATTATGTTCAAAAG
1 TATTAATATAATATTATTTATAAA-AACAATTATGTTCAAAAG
* *
6643968 TATTAATA-AATAATT-TTATATAAAAACAATTTTTTTCAAAA
1 TATTAATATAAT-ATTATT-TATAAAAACAATTATGTTCAAAA
6644009 AATCTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (42 bp):
TATTAATATAATATTATTTATAAAAACAATTATGTTCAAAAG
Found at i:6644100 original size:22 final size:21
Alignment explanation
Indices: 6644056--6644104 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
6644046 AACTGATTTT
6644056 ATTTTTTT-GTTAATCAAAAA
1 ATTTTTTTCGTTAATCAAAAA
**
6644076 ATTATTTTTCGTTAATCAATCA
1 ATT-TTTTTCGTTAATCAAAAA
6644098 ATTTTTT
1 ATTTTTT
6644105 ATCAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 9 0.36
22 13 0.52
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTTTTTTCGTTAATCAAAAA
Found at i:6644575 original size:12 final size:11
Alignment explanation
Indices: 6644558--6644593 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
6644548 TCAAACATCT
6644558 ATAAATAAATAC
1 ATAAATAAAT-C
6644570 ATAAATAAATC
1 ATAAATAAATC
6644581 AT-AATAAATC
1 ATAAATAAATC
6644591 ATA
1 ATA
6644594 GAAATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 3 0.13
12 10 0.43
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATAAATC
Found at i:6657175 original size:28 final size:28
Alignment explanation
Indices: 6657135--6657194 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
6657125 CAAAAAAATT
6657135 TTAAAATTTTTTACTTATTACGTTGAGA
1 TTAAAATTTTTTACTTATTACGTTGAGA
6657163 TTAAAATTTTTTACTTATTACGTTGAGA
1 TTAAAATTTTTTACTTATTACGTTGAGA
6657191 TTAA
1 TTAA
6657195 TATTGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (28 bp):
TTAAAATTTTTTACTTATTACGTTGAGA
Done.