Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 26 of 117
Found at i:6994580 original size:2 final size:2
Alignment explanation
Indices: 6994573--6994612 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
6994563 AGAATTTAAC
*
6994573 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6994613 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:6999308 original size:23 final size:22
Alignment explanation
Indices: 6999273--6999316 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6999263 TTACTAAATT
6999273 TTAATTTTCTAAAATTGTTGTTA
1 TTAATTTTCT-AAATTGTTGTTA
*
6999296 TTAA-TTTCATAAATTTTTGTT
1 TTAATTTTC-TAAATTGTTGTT
6999317 GTATCATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TTAATTTTCTAAATTGTTGTTA
Found at i:7000214 original size:11 final size:10
Alignment explanation
Indices: 7000192--7000242 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
7000182 ATTATTATCA
*
7000192 TTTTTTCCTC
1 TTTTTTCTTC
7000202 TTTCTTTCTTC
1 TTT-TTTCTTC
7000213 TTTTTT-TTC
1 TTTTTTCTTC
*
7000222 TTTTTTGTCTC
1 TTTTTTCT-TC
7000233 TTTCTTTCTT
1 TTT-TTTCTT
7000243 TGTCCTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 9 0.26
10 7 0.20
11 15 0.43
12 4 0.11
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:7000221 original size:23 final size:23
Alignment explanation
Indices: 7000192--7000263 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
7000182 ATTATTATCA
*
7000192 TTTTTTCCTCTTTCTTTCTTCTT
1 TTTTTTCCTATTTCTTTCTTCTT
* * * *
7000215 TTTTTTCTTTTTTGTCTCTTTCTT
1 TTTTTTCCTATTTCTTTC-TTCTT
*
7000239 TCTTTGTCCTATTTC-TTCTTCTT
1 T-TTTTTCCTATTTCTTTCTTCTT
7000262 TT
1 TT
7000264 ATCCGGTGCA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
22 1 0.03
23 20 0.53
24 8 0.21
25 9 0.24
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.74
Consensus pattern (23 bp):
TTTTTTCCTATTTCTTTCTTCTT
Found at i:7000246 original size:16 final size:16
Alignment explanation
Indices: 7000199--7000246 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
7000189 TCATTTTTTC
7000199 CTCTTTCTTTCTTCT-T
1 CTCTTTCTTTCTT-TGT
* *
7000215 TTTTTTCTTT-TTTGT
1 CTCTTTCTTTCTTTGT
7000230 CTCTTTCTTTCTTTGT
1 CTCTTTCTTTCTTTGT
7000246 C
1 C
7000247 CTATTTCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 14 0.54
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (16 bp):
CTCTTTCTTTCTTTGT
Found at i:7001195 original size:12 final size:12
Alignment explanation
Indices: 7001180--7001209 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7001170 TTTTTTTGAA
7001180 TTTTTTAAAGAT
1 TTTTTTAAAGAT
7001192 TTTTTTAAAGAT
1 TTTTTTAAAGAT
7001204 TTTTTT
1 TTTTTT
7001210 GTTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTTTTAAAGAT
Found at i:7002492 original size:23 final size:22
Alignment explanation
Indices: 7002468--7002510 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
7002458 ACACGTGTTA
7002468 AAATTT-TTAAAAAATTATATAT
1 AAATTTATTAAAAAA-TATATAT
7002490 AAATTTAATTAAAAAATATAT
1 AAATTT-ATTAAAAAATATAT
7002511 TTTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTATTAAAAAATATATAT
Found at i:7007988 original size:17 final size:16
Alignment explanation
Indices: 7007968--7008001 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7007958 CATAATTTTA
7007968 AATATAATATAATAAAT
1 AATATAATATAA-AAAT
*
7007985 AATATGATATAAAAAT
1 AATATAATATAAAAAT
7008001 A
1 A
7008002 TAAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AATATAATATAAAAAT
Found at i:7008029 original size:24 final size:24
Alignment explanation
Indices: 7008001--7008047 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7007991 ATATAAAAAT
*
7008001 ATAAAAAAT-TATTTTAAAATTTTA
1 ATAAAAAATATA-TTAAAAATTTTA
*
7008025 ATAAAATATATATTAAAAATTTT
1 ATAAAAAATATATTAAAAATTTT
7008048 CATATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAAAAAATATATTAAAAATTTTA
Found at i:7008820 original size:18 final size:18
Alignment explanation
Indices: 7008797--7008831 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7008787 TAAAAAATTA
7008797 AATTAATGATAATAATAG
1 AATTAATGATAATAATAG
* *
7008815 AATTAATTATTATAATA
1 AATTAATGATAATAATA
7008832 ATAAAATTTT
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:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AATTAATGATAATAATAG
Found at i:7008831 original size:21 final size:21
Alignment explanation
Indices: 7008805--7008886 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
7008795 TAAATTAATG
*
7008805 ATAATAATAGAATTA-ATTATT
1 ATAATAATAAAATTATA-TATT
*
7008826 ATAATAATAAAATTTTATATT
1 ATAATAATAAAATTATATATT
*
7008847 ATAATACA-AAAATTA-A-AAT
1 ATAATA-ATAAAATTATATATT
*
7008866 -TAATAATAAAA-TATGTATT
1 ATAATAATAAAATTATATATT
7008885 AT
1 AT
7008887 CGTAATATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.06
18 9 0.18
19 4 0.08
20 2 0.04
21 29 0.59
22 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATTATATATT
Found at i:7008847 original size:24 final size:21
Alignment explanation
Indices: 7008790--7008877 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 21
7008780 TTAATTTTAA
*
7008790 AAAATTAAATTAATGATAATAAT
1 AAAATT-AATT-ATTATAATAAT
*
7008813 AGAATTAATTATTATAATAAT
1 AAAATTAATTATTATAATAAT
*
7008834 AAAATT-TTATATTATAATACA-
1 AAAATTAAT-TATTATAATA-AT
*
7008855 AAAATTAA--AAT-TAATAAT
1 AAAATTAATTATTATAATAAT
7008873 AAAAT
1 AAAAT
7008878 ATGTATTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 10 0.18
19 2 0.04
20 1 0.02
21 31 0.56
22 5 0.09
23 5 0.09
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATTAATTATTATAATAAT
Found at i:7010797 original size:13 final size:13
Alignment explanation
Indices: 7010779--7010835 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
7010769 AATCATACCA
7010779 AATATCATGTAAT
1 AATATCATGTAAT
*
7010792 AATATCATGT-CT
1 AATATCATGTAAT
7010804 AA-ATCATGCTAA-
1 AATATCATG-TAAT
*
7010816 AATATTCATGTAAG
1 AATA-TCATGTAAT
7010830 AATATC
1 AATATC
7010836 TTGCAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 6 0.16
12 6 0.16
13 16 0.43
14 9 0.24
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AATATCATGTAAT
Found at i:7011109 original size:21 final size:21
Alignment explanation
Indices: 7011073--7011217 Score: 131
Period size: 21 Copynumber: 7.1 Consensus size: 21
7011063 CATACAATTA
7011073 AATATATAATCATGCAATTAAC
1 AATATA-AATCATGCAATTAAC
* * * *
7011095 AATGTAAAACATGCAAATAAA
1 AATATAAATCATGCAATTAAC
7011116 AATAT-AATCATGCAATTAAC
1 AATATAAATCATGCAATTAAC
* *
7011136 AATATAAATCATGTAAAT-A-
1 AATATAAATCATGCAATTAAC
*
7011155 AATATATAATCATGCAATTAAT
1 AATATA-AATCATGCAATTAAC
* *
7011177 TATATAAATCATGCAAAT-A-
1 AATATAAATCATGCAATTAAC
* *
7011196 TATAT-GATCATGCAATTAAC
1 AATATAAATCATGCAATTAAC
7011216 AA
1 AA
7011218 ATATTAAGCA
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.10
19 12 0.12
20 30 0.30
21 38 0.38
22 10 0.10
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (21 bp):
AATATAAATCATGCAATTAAC
Found at i:7011125 original size:41 final size:41
Alignment explanation
Indices: 7011062--7011217 Score: 208
Period size: 41 Copynumber: 3.9 Consensus size: 41
7011052 ATGCCAATAG
* * *
7011062 ACATACAATTAAATATATAATCATGCAATTAACAATGTAAA
1 ACATGCAAATAAATATATAATCATGCAATTAACAATATAAA
*
7011103 ACATGCAAATAAAAATATAATCATGCAATTAACAATATAAA
1 ACATGCAAATAAATATATAATCATGCAATTAACAATATAAA
* * **
7011144 TCATGTAAATAAATATATAATCATGCAATTAATTATATAAA
1 ACATGCAAATAAATATATAATCATGCAATTAACAATATAAA
* *
7011185 TCATGCAAAT--ATATATGATCATGCAATTAACAA
1 ACATGCAAATAAATATATAATCATGCAATTAACAA
7011218 ATATTAAGCA
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.20
41 82 0.80
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
ACATGCAAATAAATATATAATCATGCAATTAACAATATAAA
Found at i:7011207 original size:18 final size:19
Alignment explanation
Indices: 7011073--7011247 Score: 108
Period size: 21 Copynumber: 9.1 Consensus size: 19
7011063 CATACAATTA
*
7011073 AATATATAATCATGCAATT
1 AATATATAATCATGCAAAT
* * *
7011092 AACAATGTAAAACATGCAAAT
1 AA-TATAT-AATCATGCAAAT
* *
7011113 AAAAATATAATCATGCAATT
1 -AATATATAATCATGCAAAT
* *
7011133 AACAATATAAATCATGTAAAT
1 AA-TATAT-AATCATGCAAAT
*
7011154 AAATATATAATCATGCAATT
1 -AATATATAATCATGCAAAT
7011174 AATTATATAAATCATGCAAAT
1 AA-TATAT-AATCATGCAAAT
* *
7011195 -ATATATGATCATGCAATT
1 AATATATAATCATGCAAAT
* * * *
7011213 AACAAAT-ATTAAGCAAAT
1 AATATATAATCATGCAAAT
7011231 AA-AT-T-ATCATGCAAAT
1 AATATATAATCATGCAAAT
7011247 A
1 A
7011248 TAATATTAGT
Statistics
Matches: 124, Mismatches: 23, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
16 11 0.09
17 1 0.01
18 20 0.16
19 15 0.12
20 34 0.27
21 39 0.31
22 4 0.03
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (19 bp):
AATATATAATCATGCAAAT
Found at i:7018150 original size:5 final size:5
Alignment explanation
Indices: 7018142--7018213 Score: 58
Period size: 5 Copynumber: 13.4 Consensus size: 5
7018132 AAATTTTGAG
*
7018142 TTAAA TTAAA TTAAA -TAATA TTAAAA TTAAAA TTAAA ATAGAA TTAAA
1 TTAAA TTAAA TTAAA TTAA-A TT-AAA TT-AAA TTAAA TTA-AA TTAAA
7018190 TTTAAA TTTTAAA -TAAA TTAAA TT
1 -TTAAA --TTAAA TTAAA TTAAA TT
7018214 TCACTTGATA
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 7 0.12
5 24 0.41
6 19 0.33
7 8 0.14
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:7018174 original size:22 final size:21
Alignment explanation
Indices: 7018144--7018211 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 21
7018134 ATTTTGAGTT
7018144 AAATT-AAATTAAATAATATTA
1 AAATTAAAATTAAATAA-ATTA
7018165 AAATTAAAATTAAAATAGAATTA
1 AAATTAAAATT-AAATA-AATTA
* *
7018188 AATTTAAATTTTAAATAAATTA
1 AAATTAAA-ATTAAATAAATTA
7018210 AA
1 AA
7018212 TTTCACTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.12
22 12 0.29
23 21 0.51
24 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
AAATTAAAATTAAATAAATTA
Found at i:7018212 original size:22 final size:22
Alignment explanation
Indices: 7018152--7018214 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
7018142 TTAAATTAAA
*
7018152 TTAAATAATATTAAAATTAAAAT
1 TTAAATAA-ATTAAATTTAAAAT
* *
7018175 TAAAATAGAATTAAATTTAAATT
1 TTAAATA-AATTAAATTTAAAAT
7018198 TTAAATAAATTAAATTT
1 TTAAATAAATTAAATTT
7018215 CACTTGATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.29
23 24 0.69
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAATAAATTAAATTTAAAAT
Found at i:7018253 original size:26 final size:26
Alignment explanation
Indices: 7018224--7018294 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
7018214 TCACTTGATA
* *
7018224 TTATATAAAAATAATTTTTA-AATTAT
1 TTATTTAAAAAT-ATTTATATAATTAT
*
7018250 TTATTTAAATATATTTATATAATTAT
1 TTATTTAAAAATATTTATATAATTAT
* *
7018276 ATATTTAAATAT-TTTATAT
1 TTATTTAAAAATATTTATAT
7018295 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.32
26 27 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTTAAAAATATTTATATAATTAT
Found at i:7018266 original size:14 final size:13
Alignment explanation
Indices: 7018240--7018289 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
7018230 AAAAATAATT
7018240 TTTAAATTATTTA
1 TTTAAATTATTTA
7018253 TTTAAATATATTTA
1 TTTAAAT-TATTTA
* *
7018267 TAT-AATTATATA
1 TTTAAATTATTTA
7018279 TTTAAA-TATTT
1 TTTAAATTATTT
7018290 TATATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 11 0.35
13 12 0.39
14 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAAATTATTTA
Found at i:7018287 original size:8 final size:8
Alignment explanation
Indices: 7018258--7018295 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
7018248 ATTTATTTAA
7018258 ATATATTT
1 ATATATTT
*
7018266 ATATAATT
1 ATATATTT
7018274 ATATATTT
1 ATATATTT
*
7018282 AAATATTT
1 ATATATTT
7018290 -TATATT
1 ATATATT
7018296 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:7023156 original size:16 final size:16
Alignment explanation
Indices: 7023121--7023150 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7023111 TTAAAACAAC
7023121 AAAT-ATAAAAATATA
1 AAATAATAAAAATATA
7023136 AAATAATAAAAATAT
1 AAATAATAAAAATAT
7023151 TGAATAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATAAAAATATA
Found at i:7024097 original size:34 final size:34
Alignment explanation
Indices: 7024054--7024120 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
7024044 TGATGATTGG
* * *
7024054 AGATTAACATTTGTTCTTATCAAATTGGAAATGT
1 AGATTAACATTTATTCTTATCAAACTGAAAATGT
7024088 AGATTAACATTTATTCTTATCAAACTGAAAATG
1 AGATTAACATTTATTCTTATCAAACTGAAAATG
7024121 CAATAGGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (34 bp):
AGATTAACATTTATTCTTATCAAACTGAAAATGT
Found at i:7025502 original size:11 final size:11
Alignment explanation
Indices: 7025486--7025529 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7025476 AAAAGAGAAA
7025486 ATTTATTATTT
1 ATTTATTATTT
7025497 ATTTATTATTT
1 ATTTATTATTT
* *
7025508 ATATAATTATCT
1 AT-TTATTATTT
*
7025520 ATTTTTTATT
1 ATTTATTATT
7025530 CACTAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:7025618 original size:12 final size:12
Alignment explanation
Indices: 7025603--7025649 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
7025593 ATTAATTTAT
7025603 TAAATAATTACA
1 TAAATAATTACA
*
7025615 TAAATAA-TATGA
1 TAAATAATTA-CA
7025627 TAAATAATTACAA
1 TAAATAATTAC-A
7025640 TAAATTAATT
1 TAAA-TAATT
7025650 TAAAAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 2 0.07
12 15 0.52
13 7 0.24
14 5 0.17
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (12 bp):
TAAATAATTACA
Found at i:7025622 original size:24 final size:25
Alignment explanation
Indices: 7025592--7025651 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
7025582 CTTAACTATT
7025592 AATTAATTTATTAAATAATTAC-ATA
1 AATTAATTTA-TAAATAATTACAATA
*
7025617 AA-TAATATGATAAATAATTACAATA
1 AATTAAT-TTATAAATAATTACAATA
7025642 AATTAATTTA
1 AATTAATTTA
7025652 AAAAACTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 15 0.50
25 11 0.37
26 4 0.13
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (25 bp):
AATTAATTTATAAATAATTACAATA
Found at i:7026262 original size:27 final size:31
Alignment explanation
Indices: 7026222--7026280 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 31
7026212 TTTTTTGTAA
7026222 TTTATAATACTAAA-AATG-CT-AATTATTTT
1 TTTATAATACTAAATAATGTCTCAA-TATTTT
7026251 TTTA-AATA-TAAATAATGTCTCAATATTTT
1 TTTATAATACTAAATAATGTCTCAATATTTT
7026280 T
1 T
7026281 ATCAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 4 0.15
28 8 0.30
29 13 0.48
30 2 0.07
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTATAATACTAAATAATGTCTCAATATTTT
Found at i:7026287 original size:29 final size:27
Alignment explanation
Indices: 7026222--7026287 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 27
7026212 TTTTTTGTAA
7026222 TTTATAATACTAAAAATGCTAATTATT
1 TTTATAATACTAAAAATGCTAATTATT
*
7026249 TTTTTAAATA-TAAATAATGTCTCAA-TATT
1 TTTAT-AATACTAAA-AATG-CT-AATTATT
7026278 TTTATCAATA
1 TTTAT-AATA
7026288 AATTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 8 0.25
28 8 0.25
29 14 0.44
30 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (27 bp):
TTTATAATACTAAAAATGCTAATTATT
Found at i:7026895 original size:16 final size:17
Alignment explanation
Indices: 7026874--7026908 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7026864 GTTATTTCGA
*
7026874 TTCGGTT-TAATCGGTT
1 TTCGGTTGTAATCGATT
7026890 TTCGGTTGTAATCGATT
1 TTCGGTTGTAATCGATT
7026907 TT
1 TT
7026909 AAGATCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.51
Consensus pattern (17 bp):
TTCGGTTGTAATCGATT
Found at i:7028020 original size:21 final size:21
Alignment explanation
Indices: 7027996--7028036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7027986 TAGTATATTA
*
7027996 CTGGTTTCCTGCAGCAGACTG
1 CTGGTTTCCTACAGCAGACTG
*
7028017 CTGGTTTCTTACAGCAGACT
1 CTGGTTTCCTACAGCAGACT
7028037 ACTAGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (21 bp):
CTGGTTTCCTACAGCAGACTG
Found at i:7028097 original size:35 final size:36
Alignment explanation
Indices: 7028019--7028097 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 36
7028009 GCAGACTGCT
* *
7028019 GGTTTCTTACAGCAGACTACTAGTTTTCTGCGTCAGCT
1 GGTTTCCTACAGCAGACTACTAGTTTTCT--GTCAGCA
* * *
7028057 GGTTTCCTACAGTAGATTACTGGTTTTCT-TCAGCA
1 GGTTTCCTACAGCAGACTACTAGTTTTCTGTCAGCA
7028092 GGTTTC
1 GGTTTC
7028098 TTGTTTATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 11 0.31
38 25 0.69
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (36 bp):
GGTTTCCTACAGCAGACTACTAGTTTTCTGTCAGCA
Found at i:7028870 original size:30 final size:29
Alignment explanation
Indices: 7028834--7028901 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
7028824 AATAATTGTG
*
7028834 TGAATATTACTTTATTATTT-TTTCATTATT
1 TGAATATAACTTTATT-TTTATTT-ATTATT
*
7028864 TGAATATAATTTTATTTTTATTTATTATT
1 TGAATATAACTTTATTTTTATTTATTATT
*
7028893 TTAATATAA
1 TGAATATAA
7028902 TATAATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
TGAATATAACTTTATTTTTATTTATTATT
Found at i:7028933 original size:33 final size:30
Alignment explanation
Indices: 7028834--7028937 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 30
7028824 AATAATTGTG
* *
7028834 TGAATATTACTTTA-TTATTTTTTCATTATT
1 TGAATATAATTTTATTTATTTTTT-ATTATT
*
7028864 TGAATATAATTTTATTT-TTATTTATTATT
1 TGAATATAATTTTATTTATTTTTTATTATT
* *
7028893 TTAATATAATATAATTATTTATTTTTTATTGTT
1 TGAATATAAT-T--TTATTTATTTTTTATTATT
*
7028926 TGGATATAATTT
1 TGAATATAATTT
7028938 GATCACTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
29 15 0.25
30 19 0.31
31 2 0.03
32 7 0.11
33 18 0.30
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (30 bp):
TGAATATAATTTTATTTATTTTTTATTATT
Found at i:7049002 original size:30 final size:30
Alignment explanation
Indices: 7048959--7049029 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 30
7048949 GGAAGGAATC
7048959 ATCGAGAAAAATCAATCTAAGCATAGTAAGA
1 ATCGAG-AAAATCAATCTAAGCATAGTAAGA
7048990 ATCGAGAAAATCAATCTAAGCATAGTAAGA
1 ATCGAGAAAATCAATCTAAGCATAGTAAGA
7049020 ATCGAGAAAA
1 ATCGAGAAAA
7049030 AACTCAAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 34 0.85
31 6 0.15
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.18
Consensus pattern (30 bp):
ATCGAGAAAATCAATCTAAGCATAGTAAGA
Found at i:7054487 original size:31 final size:31
Alignment explanation
Indices: 7054452--7054524 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
7054442 GGAAGGAATC
7054452 ATCGAGAAAAATCAATCTAAGCATAGTAAGA
1 ATCGAGAAAAATCAATCTAAGCATAGTAAGA
7054483 ATCGAGAAAAATCAATCTAAGCATAGTAAGA
1 ATCGAGAAAAATCAATCTAAGCATAGTAAGA
7054514 ATCGAGAAAAA
1 ATCGAGAAAAA
7054525 ACTCAAACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.18
Consensus pattern (31 bp):
ATCGAGAAAAATCAATCTAAGCATAGTAAGA
Found at i:7055263 original size:219 final size:219
Alignment explanation
Indices: 7054884--7055322 Score: 815
Period size: 219 Copynumber: 2.0 Consensus size: 219
7054874 CGTTAAGCCA
7054884 AGAAGGCGCCAGAGTCTTGAACACCAGCTAGAATACCTTGGTTGTATGTCTGATCTATGGAAAGC
1 AGAAGGCGCCAGAGTCTTGAACACCAGCTAGAATACCTTGGTTGTATGTCTGATCTATGGAAAGC
*
7054949 TTATCGTTGGTATTATCTTGCCAAGTTTGATCGATCTTCACGCTGTTGTCATAGTACCAGATAGT
66 TTATCGTTGGTATTATCTTGCCAAGTTTGATCGATCTTCACGCTGTTGTCATAGTACCAGATAGC
*
7055014 ATTGTCAGGACTCTACCACCCGGAGAGCCCGGAACTGAAGCCCTGTCAGTTGCCAGAGCCTTGGT
131 ATTGTCAGGACTCTACCACCCGGAGAGCCCGGAACTGAAGCCCTGTCAGTTGCCAGAGCCTTGGC
**
7055079 CGTACTACCTGTCGCTGTGTGTAT
196 CGTACTACCTACCGCTGTGTGTAT
*
7055103 AGAAGGCGCCAGAGTCTTGAACACCGGCTAGAATACCTTGGTTGTATGTCTGATCTATGGAAAGC
1 AGAAGGCGCCAGAGTCTTGAACACCAGCTAGAATACCTTGGTTGTATGTCTGATCTATGGAAAGC
7055168 TTATCGTTGGTATTATCTTGCCAAGTTTGATCGATCTTCACGCTGTTGTCATAGTACCAGATAGC
66 TTATCGTTGGTATTATCTTGCCAAGTTTGATCGATCTTCACGCTGTTGTCATAGTACCAGATAGC
* *
7055233 ATTGTCAGGACTCTACCACCCGGAGAGCCCGGAACTGATGCCGTGTCAGTTGCCAGAGCCTTGGC
131 ATTGTCAGGACTCTACCACCCGGAGAGCCCGGAACTGAAGCCCTGTCAGTTGCCAGAGCCTTGGC
7055298 CGTACTACCTACCGCTGTGTGTAT
196 CGTACTACCTACCGCTGTGTGTAT
7055322 A
1 A
7055323 AATGGTATAG
Statistics
Matches: 213, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
219 213 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (219 bp):
AGAAGGCGCCAGAGTCTTGAACACCAGCTAGAATACCTTGGTTGTATGTCTGATCTATGGAAAGC
TTATCGTTGGTATTATCTTGCCAAGTTTGATCGATCTTCACGCTGTTGTCATAGTACCAGATAGC
ATTGTCAGGACTCTACCACCCGGAGAGCCCGGAACTGAAGCCCTGTCAGTTGCCAGAGCCTTGGC
CGTACTACCTACCGCTGTGTGTAT
Found at i:7057478 original size:21 final size:22
Alignment explanation
Indices: 7057454--7057507 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
7057444 TTAGGATAAG
* *
7057454 ACTAAAGG-ACGATGAGTCATA
1 ACTAAAGGTACAATGACTCATA
7057475 ACT-AAGGTACAATGACTCATA
1 ACTAAAGGTACAATGACTCATA
*
7057496 ACT-AGGGTACAA
1 ACTAAAGGTACAA
7057508 AGGTCCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (22 bp):
ACTAAAGGTACAATGACTCATA
Found at i:7059767 original size:27 final size:26
Alignment explanation
Indices: 7059726--7059782 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
7059716 GTTTTATTTG
*
7059726 TAAATATAAAGTTTTAAAAAGTAATT
1 TAAATATAAAGTTTTAAAAAATAATT
* *
7059752 ATAAATATTAATTTTTAAAAAATAATT
1 -TAAATATAAAGTTTTAAAAAATAATT
7059779 TAAA
1 TAAA
7059783 AAGAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (26 bp):
TAAATATAAAGTTTTAAAAAATAATT
Found at i:7060329 original size:19 final size:20
Alignment explanation
Indices: 7060285--7060339 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
7060275 TTAATAATGA
7060285 ATAATATAACATAA-TACGAT
1 ATAAT-TAACATAATTACGAT
* *
7060305 ACAATTAACATAATTA-TAT
1 ATAATTAACATAATTACGAT
*
7060324 ATAATTAATATAATTA
1 ATAATTAACATAATTA
7060340 AACATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAATTAACATAATTACGAT
Found at i:7060334 original size:9 final size:9
Alignment explanation
Indices: 7060307--7060354 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
7060297 AATACGATAC
*
7060307 AATTAACAT
1 AATTAATAT
7060316 AATTATATAT
1 AATTA-ATAT
7060326 AATTAATAT
1 AATTAATAT
*
7060335 AATTAAACAT
1 AATT-AATAT
7060345 ATATTAATAT
1 A-ATTAATAT
7060355 TAAAATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 13 0.39
10 17 0.52
11 3 0.09
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAATAT
Found at i:7060970 original size:17 final size:16
Alignment explanation
Indices: 7060907--7060970 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
7060897 TAAACTTAGA
*
7060907 TAAATTAAATTTTTA-
1 TAAATTAAATATTTAT
* *
7060922 AAAATTTAAA-ATTTTT
1 TAAA-TTAAATATTTAT
*
7060938 TAAATTAAATAATTAT
1 TAAATTAAATATTTAT
*
7060954 TAAATATATATATTTAT
1 TAAAT-TAAATATTTAT
7060971 GATTTTTTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTAAATATTTAT
Found at i:7061320 original size:18 final size:20
Alignment explanation
Indices: 7061279--7061320 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
7061269 ATTTTTATTT
7061279 ATTT-ATATATAATATAAAA
1 ATTTAATATATAATATAAAA
7061298 A-TTAATATA-AAT-TAAAA
1 ATTTAATATATAATATAAAA
7061315 ATTTAA
1 ATTTAA
7061321 ACTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAATATATAATATAAAA
Found at i:7061326 original size:18 final size:17
Alignment explanation
Indices: 7061283--7061317 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
7061273 TTATTTATTT
7061283 ATATATAATATAAAAATTA
1 ATATA-AAT-TAAAAATTA
7061302 ATATAAATTAAAAATT
1 ATATAAATTAAAAATT
7061318 TAAACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAAATTAAAAATTA
Found at i:7074442 original size:17 final size:19
Alignment explanation
Indices: 7074410--7074444 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7074400 ACTTCCTCCG
7074410 CTTTCTCTTCTCTCCCTTT
1 CTTTCTCTTCTCTCCCTTT
7074429 CTTTCT-TTCT-TCCCTT
1 CTTTCTCTTCTCTCCCTT
7074445 CCTAGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (19 bp):
CTTTCTCTTCTCTCCCTTT
Found at i:7085784 original size:16 final size:16
Alignment explanation
Indices: 7085763--7085793 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7085753 ATGTTTAAAA
7085763 TCATAATAAATCATCG
1 TCATAATAAATCATCG
7085779 TCATAATAAATCATC
1 TCATAATAAATCATC
7085794 ATTATCATTC
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:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
TCATAATAAATCATCG
Found at i:7088077 original size:20 final size:20
Alignment explanation
Indices: 7088052--7088089 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7088042 TATTTAATAA
* *
7088052 TTAAAAATTAAATTAAATTT
1 TTAAAAATAAAAATAAATTT
7088072 TTAAAAATAAAAATAAAT
1 TTAAAAATAAAAATAAAT
7088090 AAAATATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAAAATAAAAATAAATTT
Found at i:7095129 original size:28 final size:29
Alignment explanation
Indices: 7095097--7095164 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
7095087 TCTTACGTAA
*
7095097 TTTATAATATTATAAGAAATAT-TATTAT
1 TTTATAATATTATAAAAAATATATATTAT
7095125 TTTATAATATTATAAAAAATATATATTAT
1 TTTATAATATTATAAAAAATATATATTAT
7095154 TTT-T-ATATTAT
1 TTTATAATATTAT
7095165 CTAAATTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 7 0.18
28 22 0.58
29 9 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
TTTATAATATTATAAAAAATATATATTAT
Found at i:7095754 original size:30 final size:31
Alignment explanation
Indices: 7095716--7095783 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
7095706 TTTAATTTTT
*
7095716 TTAT-ATTTAT-ATCATAT-TTTATATAAAAA
1 TTATAATTTATAAT-ATATATTAATATAAAAA
*
7095745 TTATAATTTATAATTTATATTAATATAAAAA
1 TTATAATTTATAATATATATTAATATAAAAA
7095776 TATATAAT
1 T-TATAAT
7095784 ATTTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 4 0.12
30 9 0.27
31 14 0.42
32 6 0.18
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (31 bp):
TTATAATTTATAATATATATTAATATAAAAA
Found at i:7095802 original size:27 final size:27
Alignment explanation
Indices: 7095772--7095855 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
7095762 TATTAATATA
7095772 AAAATATATAATATTTTTTATTATTTT
1 AAAATATATAATATTTTTTATTATTTT
* * **
7095799 AAAATATATAATAATTATTAAAATTTT
1 AAAATATATAATATTTTTTATTATTTT
* * * *
7095826 AAACTTTATTAT-TTTTTTATCTTTTTT
1 AAAATATATAATATTTTTTAT-TATTTT
7095853 AAA
1 AAA
7095856 TCATATTTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 5 0.11
27 39 0.89
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
AAAATATATAATATTTTTTATTATTTT
Found at i:7095874 original size:15 final size:17
Alignment explanation
Indices: 7095854--7095885 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7095844 ATCTTTTTTA
7095854 AATCA-TAT-TTATATT
1 AATCATTATATTATATT
7095869 AATCATTATATTATATT
1 AATCATTATATTATATT
7095886 TTAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
AATCATTATATTATATT
Found at i:7096759 original size:23 final size:21
Alignment explanation
Indices: 7096724--7096771 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
7096714 TAATAAAAAT
7096724 ATTATTTTAAAATTTTAATAATA
1 ATTATTTTAAAA-TTTAATAA-A
7096747 ATTATATTT-AAATTTAATAAA
1 ATTAT-TTTAAAATTTAATAAA
7096768 ATTA
1 ATTA
7096772 AAATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 8 0.33
24 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTTTAAAATTTAATAAA
Found at i:7098432 original size:15 final size:16
Alignment explanation
Indices: 7098414--7098491 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 16
7098404 ACTTAATATA
7098414 TATTTA-AATTTTATT
1 TATTTATAATTTTATT
7098429 TATTTATTTAATTTTATAT
1 TATTTA--TAATTTTAT-T
* *
7098448 T-TTTATGTATTATATT
1 TATTTAT-AATTTTATT
7098464 TA-TT-TAATTTTA-T
1 TATTTATAATTTTATT
*
7098477 TAATTATAATTTTAT
1 TATTTATAATTTTAT
7098492 GTACATACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
13 3 0.06
14 7 0.14
15 15 0.30
16 5 0.10
17 6 0.12
18 12 0.24
19 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (16 bp):
TATTTATAATTTTATT
Found at i:7098448 original size:31 final size:32
Alignment explanation
Indices: 7098412--7098491 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
7098402 TTACTTAATA
7098412 TATATTTAAATTTTATT-TATTTATTTAATTT
1 TATATTTAAATTTTATTATATTTATTTAATTT
** *
7098443 TATATTTTTA-TGTATTATATTTATTTAATTT
1 TATATTTAAATTTTATTATATTTATTTAATTT
*
7098474 TATTAATTATAATTTTAT
1 TA-TATTTA-AATTTTAT
7098492 GTACATACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 5 0.13
31 24 0.63
32 4 0.11
33 1 0.03
34 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (32 bp):
TATATTTAAATTTTATTATATTTATTTAATTT
Found at i:7098493 original size:38 final size:35
Alignment explanation
Indices: 7098425--7098494 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
7098415 ATTTAAATTT
*
7098425 TATTTATTTATTTAATTTTATATTTTTATGTATTA
1 TATTTATTTATTTAATTTTATAATTTTATGTATTA
*
7098460 TATTTATTTAATTTTATTAATTATAATTTTATGTA
1 TATTTATTT-ATTTAATT--TTATAATTTTATGTA
7098495 CATACAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 9 0.30
36 7 0.23
38 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (35 bp):
TATTTATTTATTTAATTTTATAATTTTATGTATTA
Found at i:7098546 original size:18 final size:19
Alignment explanation
Indices: 7098508--7098553 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
7098498 ACAAGTCAGG
*
7098508 TTAAATATAAAAATAATAT
1 TTAAATATTAAAATAATAT
* *
7098527 TTTAATATTAAATTAA-AT
1 TTAAATATTAAAATAATAT
7098545 TTAAATATT
1 TTAAATATT
7098554 TATTATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATATTAAAATAATAT
Found at i:7103330 original size:14 final size:15
Alignment explanation
Indices: 7103290--7103331 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
7103280 ATAATTTTAC
7103290 TAAT-AAAAATAATA
1 TAATAAAAAATAATA
7103304 TATATAAATAAATAA-A
1 TA-ATAAA-AAATAATA
7103320 TAATAAAAAATA
1 TAATAAAAAATA
7103332 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.28
15 7 0.28
16 5 0.20
17 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATAAAAAATAATA
Found at i:7103492 original size:32 final size:32
Alignment explanation
Indices: 7103455--7103520 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
7103445 AACTTGATTT
*
7103455 TCAAAAATAATTTTTTATTAGAATGAGATGGA
1 TCAAAAATAATTTTTTATTAGAATCAGATGGA
7103487 TCAAAAATAATTTTTTATTAGAATCAGATGGA
1 TCAAAAATAATTTTTTATTAGAATCAGATGGA
7103519 TC
1 TC
7103521 CGAAACTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (32 bp):
TCAAAAATAATTTTTTATTAGAATCAGATGGA
Found at i:7104064 original size:17 final size:18
Alignment explanation
Indices: 7104035--7104082 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
7104025 TTAAATTAAG
7104035 ATATTAA-ATAATATC-T
1 ATATTAATATAATATCAT
*
7104051 TTATTAATATAATA-CAT
1 ATATTAATATAATATCAT
*
7104068 ATATAAATATAATAT
1 ATATTAATATAATAT
7104083 TAAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTAATATAATATCAT
Found at i:7104613 original size:17 final size:18
Alignment explanation
Indices: 7104591--7104633 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7104581 GAGTTCTAAA
7104591 TAAAAAAGTTA-AAATAT
1 TAAAAAAGTTATAAATAT
* *
7104608 TAAAAAAATTATAAGTAT
1 TAAAAAAGTTATAAATAT
*
7104626 TTAAAAAG
1 TAAAAAAG
7104634 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAAAAGTTATAAATAT
Found at i:7104626 original size:18 final size:18
Alignment explanation
Indices: 7104591--7104632 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7104581 GAGTTCTAAA
*
7104591 TAAAAAAGTTAAAATA-T
1 TAAAAAAATTAAAATATT
*
7104608 TAAAAAAATTATAAGTATT
1 TAAAAAAATTA-AAATATT
7104627 TAAAAA
1 TAAAAA
7104633 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
TAAAAAAATTAAAATATT
Found at i:7105486 original size:9 final size:9
Alignment explanation
Indices: 7105472--7105559 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
7105462 TTGTCCAAAA
7105472 AAAAAATAT
1 AAAAAATAT
7105481 AAAAAA-AT
1 AAAAAATAT
*
7105489 ATAAAATAT
1 AAAAAATAT
*
7105498 --GAAATAT
1 AAAAAATAT
* * *
7105505 GAAATATAA
1 AAAAAATAT
7105514 AAAAAATAT
1 AAAAAATAT
7105523 ACAAAATATAAT
1 A-AAAA-AT-AT
*
7105535 ACAAAATAT
1 AAAAAATAT
*
7105544 AAAAAAAAT
1 AAAAAATAT
7105553 ACAAAAA
1 A-AAAAA
7105560 AAAAACGCAG
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.10
8 7 0.11
9 29 0.48
10 11 0.18
11 5 0.08
12 3 0.05
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAAATAT
Found at i:7105494 original size:7 final size:7
Alignment explanation
Indices: 7105484--7105547 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
7105474 AAAATATAAA
7105484 AAAATAT
1 AAAATAT
7105491 AAAATAT
1 AAAATAT
*
7105498 GAAATAT
1 AAAATAT
*
7105505 GAAATAT
1 AAAATAT
7105512 -AAA-A-
1 AAAATAT
7105516 AAAATAT
1 AAAATAT
7105523 ACAAA-AT
1 A-AAATAT
* *
7105530 ATAATAC
1 AAAATAT
7105537 AAAATAT
1 AAAATAT
7105544 AAAA
1 AAAA
7105548 AAAATACAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.09
6 6 0.13
7 34 0.72
8 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:7105522 original size:32 final size:31
Alignment explanation
Indices: 7105474--7105559 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 31
7105464 GTCCAAAAAA
*
7105474 AAAATAT-AAAAAAATAT-AAAATATGAAATAT
1 AAAATATAAAAAAAATATAAAAATAT--AATAC
*
7105505 GAAATATAAAAAAAATATACAAAATATAATAC
1 AAAATATAAAAAAAATATA-AAAATATAATAC
*
7105537 AAAATATAAAAAAAATACAAAAA
1 AAAATATAAAAAAAATATAAAAA
7105560 AAAAACGCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
31 10 0.21
32 31 0.65
34 7 0.15
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.21
Consensus pattern (31 bp):
AAAATATAAAAAAAATATAAAAATATAATAC
Found at i:7105668 original size:29 final size:28
Alignment explanation
Indices: 7105626--7105696 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 28
7105616 ACTACCACCG
* *
7105626 GCCCTACACCCCACCCTTCTGACCACTAT
1 GCCCTAC-CCCCACCCCTCTGACCACCAT
7105655 GCCCTACCCTCCACCCCTCTGACCACCAT
1 GCCCTACCC-CCACCCCTCTGACCACCAT
7105684 GCCCTACCACCCA
1 GCCCTACC-CCCA
7105697 TCCTCTACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 2 0.05
29 35 0.92
30 1 0.03
ACGTcount: A:0.20, C:0.56, G:0.07, T:0.17
Consensus pattern (28 bp):
GCCCTACCCCCACCCCTCTGACCACCAT
Found at i:7106538 original size:13 final size:13
Alignment explanation
Indices: 7106520--7106556 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7106510 GTGCCTAGAC
7106520 CGAGCCGAACCCT
1 CGAGCCGAACCCT
*
7106533 CGAGCCGAACCGT
1 CGAGCCGAACCCT
*
7106546 CGAACCGAACC
1 CGAGCCGAACC
7106557 ACTTGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.27, C:0.43, G:0.24, T:0.05
Consensus pattern (13 bp):
CGAGCCGAACCCT
Found at i:7118290 original size:17 final size:17
Alignment explanation
Indices: 7118268--7118306 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7118258 TTCTTGAAAG
7118268 AAAAAAGAAAAAAATGA
1 AAAAAAGAAAAAAATGA
* *
7118285 AAAAAAGTAAAAAATTA
1 AAAAAAGAAAAAAATGA
7118302 AAAAA
1 AAAAA
7118307 TAATGACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAAAGAAAAAAATGA
Found at i:7119092 original size:49 final size:49
Alignment explanation
Indices: 7119035--7119668 Score: 651
Period size: 49 Copynumber: 13.0 Consensus size: 49
7119025 TTAAGAAAAA
* * *
7119035 ATGAGATTTTAAAGTTGTTGAGCTTCTACTGAGATGAGCCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
7119084 ATGAGATTTTAAAGTCGTTGAGCCTCTGTTGAGAGGAGCCTTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
7119133 TTGAGATTTTAAAGTTGCTGAGCCTCTGCTGAGAGGAG-C-TTTTCAAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
7119180 ATAAAATTTTAAAGTTGTTGAGTCTCTGCTGAGATGAGCCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* *
7119229 AT-AAATTTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCAAA
1 ATGAGA---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
7119278 ATGAGATTTTAAAATTATTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
7119327 ATGA-ATTTTTAAAGTTGTTGAGTCTCTGCTGAGATGAG-C-ATTTCAAA
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* ** *
7119374 ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGATAAGCCTTTGTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * * *
7119423 ATGAATGCCCTTTTCAAGTCGTTGAGCTTCTGCTGAGAGGAACCCTTTTCAAG
1 ATG-A-G--ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
*
7119476 ATGA-ATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * *
7119525 ATGAGATTTTAAAATTGTTGAGCTTCCGTTAAGAGGAG-CTTTTTCAA-
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * * * *
7119572 AAGAGATTTTAAAGTTGTGGAGTCTCTGTTGAAAGGAACCCTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * **
7119621 ATGAAATTTTTAAAGTTGTTGAGCCTCTTCTAAGAGGAGTGTTTTTCA
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
7119669 GATTTTAAAT
Statistics
Matches: 479, Mismatches: 85, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
47 135 0.28
48 27 0.06
49 212 0.44
50 36 0.08
51 31 0.06
52 1 0.00
53 37 0.08
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (49 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
Found at i:7119207 original size:96 final size:96
Alignment explanation
Indices: 7119035--7119659 Score: 682
Period size: 96 Copynumber: 6.4 Consensus size: 96
7119025 TTAAGAAAAA
* * * * *
7119035 ATGAGATTTTAAAGTTGTTGAGCTTCTACTGAGATGAGCCTTTTTCAAGATGAGATTTTAAAGTC
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCAAAATGAGATTTTAAAGTT
* *
7119100 GTTGAGCCTCTGTTGAGAGGAGCCTTTTTTAAG
64 GTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
7119133 TTGAGATTTTAAAGTTGCTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATAAAATTTTAAAGTTGT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATGAGATTTTAAAGTTGT
* *
7119198 TGAGTCTCTGCTGAGATGAGCCTTTTTCAAG
66 TGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* *
7119229 AT-AAATTTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATGAGATTTTAAAAT
1 ATGAGA---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATGAGATTTTAAAGT
* *
7119293 TATTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
63 TGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
7119327 ATGA-ATTTTTAAAGTTGTTGAGTCTCTGCTGAGATGAGCATTTCAAAATGAGATTTTAAAGTTG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATGAGATTTTAAAGTTG
* ** *
7119391 TTGAGCCTCTACTGAGATAAGCCTTTGTCAAG
65 TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * * *
7119423 ATGAATGCCCTTTTCAAGTCGTTGAGCTTCTGCTGAGAGGAACCCTTTTCAAGATGA-ATTTTTA
1 ATG-A-G--ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-A-GCTTTTCAAAATGAGA-TTTTA
*
7119487 AAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
59 AAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * *
7119525 ATGAGATTTTAAAATTGTTGAGCTTCCGTTAAGAGGAGCTTTTTCAAAA-GAGATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAAATGAGATTTTAAAGTTG
* * * * * *
7119589 TGGAGTCTCTGTTGAAAGGAACCCTTTTCAAG
65 TTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
7119621 ATGAAATTTTTAAAGTTGTTGAGCCTCTTCTAAGAGGAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG
7119660 TGTTTTTCAG
Statistics
Matches: 445, Mismatches: 67, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
95 2 0.00
96 178 0.40
97 39 0.09
98 142 0.32
99 1 0.00
100 26 0.06
101 3 0.01
102 54 0.12
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (96 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAAATGAGATTTTAAAGTTGT
TGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
Found at i:7119871 original size:24 final size:26
Alignment explanation
Indices: 7119843--7119896 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 26
7119833 TATCCAAAAA
*
7119843 AAAATATGAAATA-CAAAAAAATA-C
1 AAAATATGAAATATAAAAAAAATACC
7119867 AAAATATGAAATATAAAAAAAATACC
1 AAAATATGAAATATAAAAAAAATACC
7119893 AAAA
1 AAAA
7119897 ATAGTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.48
25 9 0.33
26 5 0.19
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (26 bp):
AAAATATGAAATATAAAAAAAATACC
Found at i:7119916 original size:9 final size:9
Alignment explanation
Indices: 7119851--7119925 Score: 62
Period size: 9 Copynumber: 8.3 Consensus size: 9
7119841 AAAAAATATG
*
7119851 AAATACAAA
1 AAATATAAA
*
7119860 AAA-ATACA
1 AAATATAAA
*
7119868 AAATATGAA
1 AAATATAAA
* *
7119877 ATATAAAAA
1 AAATATAAA
**
7119886 AAATACCAA
1 AAATATAAA
*
7119895 AAATAGTACA
1 AAATA-TAAA
7119905 AAATATAAA
1 AAATATAAA
7119914 AAATATAAA
1 AAATATAAA
7119923 AAA
1 AAA
7119926 AACACAGAAC
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
8 6 0.12
9 38 0.76
10 6 0.12
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (9 bp):
AAATATAAA
Found at i:7119924 original size:37 final size:35
Alignment explanation
Indices: 7119851--7119926 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
7119841 AAAAAATATG
* *
7119851 AAATACAAAAAAATACAAAATATGAAATATAAAAA
1 AAATACAAAAAAATACAAAATATAAAAAATAAAAA
*
7119886 AAATACCAAAAATAGTACAAAATATAAAAAATATAAAA
1 AAATA-CAAAAA-AATACAAAATATAAAAAATA-AAAA
7119924 AAA
1 AAA
7119927 ACACAGAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 5 0.14
36 6 0.17
37 17 0.49
38 7 0.20
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.17
Consensus pattern (35 bp):
AAATACAAAAAAATACAAAATATAAAAAATAAAAA
Found at i:7120025 original size:29 final size:29
Alignment explanation
Indices: 7119984--7120056 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
7119974 GACACCACTG
*
7119984 CCACCAAGCCCTACACCCT-ACCC-TTCTGA
1 CCACCATGCCCTAC-CCCTCACCCATT-TGA
*
7120013 CCACCATGCCCTACCCTTCACCCATTTGA
1 CCACCATGCCCTACCCCTCACCCATTTGA
7120042 CCACCATGCCCTACC
1 CCACCATGCCCTACC
7120057 ACTGCCAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 3 0.08
29 35 0.88
30 2 0.05
ACGTcount: A:0.22, C:0.52, G:0.07, T:0.19
Consensus pattern (29 bp):
CCACCATGCCCTACCCCTCACCCATTTGA
Found at i:7121485 original size:12 final size:12
Alignment explanation
Indices: 7121468--7121498 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7121458 TAAAAATAAA
7121468 TATTAATAAAAT
1 TATTAATAAAAT
7121480 TATTAATAAAAT
1 TATTAATAAAAT
*
7121492 TTTTAAT
1 TATTAAT
7121499 GAATGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTAATAAAAT
Found at i:7122856 original size:11 final size:11
Alignment explanation
Indices: 7122828--7122863 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
7122818 TTACGTATTA
*
7122828 TTAAATTTTGAA
1 TTAAATTTT-AT
7122840 TTAAATTTTAT
1 TTAAATTTTAT
7122851 TTAAATTTTAT
1 TTAAATTTTAT
7122862 TT
1 TT
7122864 TGTTGTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TTAAATTTTAT
Found at i:7122927 original size:27 final size:27
Alignment explanation
Indices: 7122892--7123003 Score: 70
Period size: 27 Copynumber: 4.1 Consensus size: 27
7122882 TTCGACATCG
*
7122892 ATATGATATTATATAAATAATATATAA
1 ATATTATATTATATAAATAATATATAA
* *
7122919 ATATTATATTATTTGTTAA-AATATA-AA
1 ATATTATATTA--TATAAATAATATATAA
* * *
7122946 ATATTATTTTTTA-AATATAAATATTTAA
1 ATATTATATTATATAA-AT-AATATATAA
* *
7122974 A-AATATTATTATATAAATATATAAATAA
1 ATATTA-TATTATATAAATA-ATATATAA
7123002 AT
1 AT
7123004 CGTATTCAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
24 1 0.02
25 2 0.03
27 30 0.48
28 23 0.37
29 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATATTATATTATATAAATAATATATAA
Found at i:7122952 original size:22 final size:20
Alignment explanation
Indices: 7122924--7123064 Score: 79
Period size: 21 Copynumber: 7.2 Consensus size: 20
7122914 TATAAATATT
7122924 ATATTATTTGTTAAAATATAAA
1 ATATTATTT-TTAAAATAT-AA
*
7122946 ATATTATTTTTTAAATAT-A
1 ATATTATTTTTAAAATATAA
7122965 A-A-TA--TTTAAAA-AT-A
1 ATATTATTTTTAAAATATAA
* *
7122979 TTATTA--TATAAATATATAA
1 ATATTATTTTTAAA-ATATAA
* * * *
7122998 ATA-AATCGTATTCAAATAT-T
1 ATATTAT--TTTTAAAATATAA
7123018 ATATTATTTTTTAAAATATAAA
1 ATATTA-TTTTTAAAATAT-AA
7123040 ATATTATTTTTAAAATATAA
1 ATATTATTTTTAAAATATAA
7123060 ATATT
1 ATATT
7123065 TAAAATATTA
Statistics
Matches: 92, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
14 3 0.03
15 7 0.08
16 7 0.08
17 3 0.03
18 4 0.04
19 5 0.05
20 19 0.21
21 25 0.27
22 19 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
ATATTATTTTTAAAATATAA
Found at i:7122963 original size:21 final size:21
Alignment explanation
Indices: 7122924--7122970 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
7122914 TATAAATATT
7122924 ATATTATTTGTTAAAATATAAA
1 ATATTATTTGTTAAAATAT-AA
*
7122946 ATATTATTT-TTTAAATATAA
1 ATATTATTTGTTAAAATATAA
7122966 ATATT
1 ATATT
7122971 TAAAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 8 0.33
22 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTATTTGTTAAAATATAA
Found at i:7122979 original size:16 final size:16
Alignment explanation
Indices: 7122958--7123000 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
7122948 ATTATTTTTT
*
7122958 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
7122974 AAATATTATTATATAA
1 AAATATAAATATATAA
*
7122990 ATATATAAATA
1 AAATATAAATA
7123001 AATCGTATTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:7123002 original size:94 final size:93
Alignment explanation
Indices: 7122904--7123099 Score: 313
Period size: 94 Copynumber: 2.1 Consensus size: 93
7122894 ATGATATTAT
*
7122904 ATAAATAATATAT-AAATATTATATTATTTGTTAAAATATAAAATATTATTTTTTAAATATAAAT
1 ATAAATAATAT-TCAAATATTATATTATTTGTTAAAATATAAAATATTATTTTTAAAATATAAAT
7122968 ATTTAAAAATATTATTATATAAATATATAA
65 ATTT-AAAATATTATTATATAAATATATAA
** *
7122998 ATAAATCGTATTCAAATATTATATTATTTTTTAAAATATAAAATATTATTTTTAAAATATAAATA
1 ATAAATAATATTCAAATATTATATTATTTGTTAAAATATAAAATATTATTTTTAAAATATAAATA
7123063 TTTAAAATATTATTATATAAATATATAA
66 TTTAAAATATTATTATATAAATATATAA
* *
7123091 TTAATTAAT
1 ATAAATAAT
7123100 TAAAAAATAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 31 0.33
94 62 0.67
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (93 bp):
ATAAATAATATTCAAATATTATATTATTTGTTAAAATATAAAATATTATTTTTAAAATATAAATA
TTTAAAATATTATTATATAAATATATAA
Found at i:7123083 original size:15 final size:15
Alignment explanation
Indices: 7123033--7123093 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
7123023 ATTTTTTAAA
*
7123033 ATATAAAATATTATT
1 ATATAAAATATAATT
* *
7123048 -TTTAAAATATAAAT
1 ATATAAAATATAATT
* *
7123062 ATTTAAAATATTATT
1 ATATAAAATATAATT
7123077 ATATAAATATATAATT
1 ATATAAA-ATATAATT
7123093 A
1 A
7123094 ATTAATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.30
15 18 0.49
16 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATAAAATATAATT
Found at i:7123273 original size:11 final size:11
Alignment explanation
Indices: 7123257--7123282 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7123247 GGATCGAATC
7123257 AAAACTCATCA
1 AAAACTCATCA
7123268 AAAACTCATCA
1 AAAACTCATCA
7123279 AAAA
1 AAAA
7123283 TAGATTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAACTCATCA
Found at i:7123732 original size:14 final size:15
Alignment explanation
Indices: 7123685--7123748 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 15
7123675 TAATGATAAT
7123685 TTAA-AAAATAATTA
1 TTAATAAAATAATTA
*
7123699 TT-AT-AAATTATATA
1 TTAATAAAATAAT-TA
7123713 TT--TAAAATAATT-
1 TTAATAAAATAATTA
7123725 TTAATAAAA-AATTA
1 TTAATAAAATAATTA
*
7123739 TTAATTAAAT
1 TTAATAAAAT
7123749 TTAAATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
12 2 0.05
13 13 0.32
14 25 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAAAATAATTA
Found at i:7149002 original size:2 final size:2
Alignment explanation
Indices: 7148997--7149025 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7148987 ACACACATGC
7148997 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 A
7149026 ATCTATGTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7152040 original size:21 final size:20
Alignment explanation
Indices: 7152016--7152104 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 20
7152006 TATAATTTTG
7152016 ATTTTGATAACCTTTAATAAA
1 ATTTTGATAA-CTTTAATAAA
* *
7152037 ATTTTGATAACTTTCGATATA
1 ATTTTGATAACTTT-AATAAA
*
7152058 ATTTTGATAACTTATAATATA
1 ATTTTGATAACTT-TAATAAA
* *
7152079 ATTTTGGTAATTTTTAATAAA
1 ATTTTGATAA-CTTTAATAAA
7152100 ATTTT
1 ATTTT
7152105 AGAAATATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.07
21 52 0.88
22 3 0.05
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTTTGATAACTTTAATAAA
Found at i:7152103 original size:42 final size:42
Alignment explanation
Indices: 7152016--7152104 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
7152006 TATAATTTTG
* *
7152016 ATTTTGATAACCTTTAATAAAATTTTGATAACTTTCGATATA
1 ATTTTGATAACCTTTAATAAAATTTTGATAACTTTCAATAAA
* * * *
7152058 ATTTTGATAA-CTTATAATATAATTTTGGTAATTTTTAATAAA
1 ATTTTGATAACCTT-TAATAAAATTTTGATAACTTTCAATAAA
7152100 ATTTT
1 ATTTT
7152105 AGAAATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 3 0.08
42 37 0.93
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (42 bp):
ATTTTGATAACCTTTAATAAAATTTTGATAACTTTCAATAAA
Found at i:7152124 original size:22 final size:22
Alignment explanation
Indices: 7152099--7152140 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7152089 TTTTTAATAA
7152099 AATTTTAGAAATATTTTGATGT
1 AATTTTAGAAATATTTTGATGT
* *
7152121 AATTTTAGTAATTTTTTGAT
1 AATTTTAGAAATATTTTGAT
7152141 AACTTATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (22 bp):
AATTTTAGAAATATTTTGATGT
Found at i:7152501 original size:66 final size:66
Alignment explanation
Indices: 7152439--7152585 Score: 195
Period size: 66 Copynumber: 2.2 Consensus size: 66
7152429 TAATTAAGTC
* * *
7152439 ATCATTAATTTATTATTATATTATCAGTGATTCACTACTAAGCTATCAATAATATACTATTAAAT
1 ATCATTAATTTATTATTAAATTATCAATAATTCACTACTAAGCTATCAATAATATACTATTAAAT
7152504 T
66 T
* * ** * *
7152505 ATCAATAATTTATTATTAAATTATCAATAATTTACTACTAATTTATGAATAATTTACTATTAAAT
1 ATCATTAATTTATTATTAAATTATCAATAATTCACTACTAAGCTATCAATAATATACTATTAAAT
7152570 T
66 T
* *
7152571 ATAATTGATTTATTA
1 ATCATTAATTTATTA
7152586 CTTAGCATCG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.46
Consensus pattern (66 bp):
ATCATTAATTTATTATTAAATTATCAATAATTCACTACTAAGCTATCAATAATATACTATTAAAT
T
Found at i:7152582 original size:22 final size:22
Alignment explanation
Indices: 7152412--7152572 Score: 144
Period size: 22 Copynumber: 7.3 Consensus size: 22
7152402 ATTTTAAAAA
* *
7152412 AAATTATCAATGA-TTAATAATT
1 AAATTATCAATAATTTACT-ATT
* * * *
7152434 AAGTCATCATTAATTTATTATT
1 AAATTATCAATAATTTACTATT
* * * * *
7152456 ATATTATCAGTGATTCACTACT
1 AAATTATCAATAATTTACTATT
** *
7152478 AAGCTATCAATAATATACTATT
1 AAATTATCAATAATTTACTATT
*
7152500 AAATTATCAATAATTTATTATT
1 AAATTATCAATAATTTACTATT
*
7152522 AAATTATCAATAATTTACTACT
1 AAATTATCAATAATTTACTATT
* *
7152544 AATTTATGAATAATTTACTATT
1 AAATTATCAATAATTTACTATT
7152566 AAATTAT
1 AAATTAT
7152573 AATTGATTTA
Statistics
Matches: 107, Mismatches: 31, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
22 103 0.96
23 4 0.04
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (22 bp):
AAATTATCAATAATTTACTATT
Found at i:7154359 original size:122 final size:123
Alignment explanation
Indices: 7154215--7154456 Score: 407
Period size: 122 Copynumber: 2.0 Consensus size: 123
7154205 TCAATTTAAT
*
7154215 ATTAAATTTGACTTATTGTTTTTTATTTTATT-AAATTTTATCTTTATATTTAATTTTGTTTATT
1 ATTAAATTTGACTTATTGTTTTTAATTTTATTCAAA-TTTATCTTTATATTTAATTTTGTTTATT
* * * *
7154279 TTTG-AAAAATAGTAGATTTTAATTATTTTAGTAAAGTAAGCATTTTAAGTATGTGAGA
65 TTTGAAAAAAAAATAGATTTTAAGTATTTTAGTAAAGCAAGCATTTTAAGTATGTGAGA
7154337 ATTAAATTTGACTTATTGTTTTTAATTTTATTCAAATTTATCTTTATATTTAATTTTGTTTATTT
1 ATTAAATTTGACTTATTGTTTTTAATTTTATTCAAATTTATCTTTATATTTAATTTTGTTTATTT
*
7154402 TTGAAAAAAAAATAGATTTTAAGTATTTTAGTAAAGCAAGTATTTTAAGTATGTG
66 TTGAAAAAAAAATAGATTTTAAGTATTTTAGTAAAGCAAGCATTTTAAGTATGTG
7154457 GAAAGGTTTA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
122 63 0.56
123 49 0.44
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (123 bp):
ATTAAATTTGACTTATTGTTTTTAATTTTATTCAAATTTATCTTTATATTTAATTTTGTTTATTT
TTGAAAAAAAAATAGATTTTAAGTATTTTAGTAAAGCAAGCATTTTAAGTATGTGAGA
Found at i:7154577 original size:99 final size:99
Alignment explanation
Indices: 7154484--7154678 Score: 275
Period size: 99 Copynumber: 2.0 Consensus size: 99
7154474 AAAAATTAAC
* * * * *
7154484 AAAAATCATGTTTTGACCTAAAAAAAGGCAATTGAAAAGCTAACAAA-AATTATGGTTTTTCTTT
1 AAAAAGCATGTTTTGACATAAAAAAACGCAATTGAAAAGCTAACAAAGAATT-TGATATTTCTTT
*
7154548 AGATACATAGTTTTTAATATAATCCAAAAAATCTA
65 AGATACATAGTTTTTAATACAATCCAAAAAATCTA
* * * *
7154583 GAAAAGCATGTTTTGACATAAAAAAACGTAATTGAAAAGCTAATAAAGACTTTGATATTTCTTTA
1 AAAAAGCATGTTTTGACATAAAAAAACGCAATTGAAAAGCTAACAAAGAATTTGATATTTCTTTA
*
7154648 GATACATAGTTTTTAATACAATTCAAAAAAT
66 GATACATAGTTTTTAATACAATCCAAAAAAT
7154679 TCAAAAACTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 81 0.96
100 3 0.04
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (99 bp):
AAAAAGCATGTTTTGACATAAAAAAACGCAATTGAAAAGCTAACAAAGAATTTGATATTTCTTTA
GATACATAGTTTTTAATACAATCCAAAAAATCTA
Found at i:7158045 original size:2 final size:2
Alignment explanation
Indices: 7158038--7158079 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7158028 GTCTTTGCAT
7158038 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
7158080 CATTTTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7163069 original size:2 final size:2
Alignment explanation
Indices: 7163062--7163104 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7163052 TGCTAAATGA
7163062 AT AT AT AT AT AT 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 AT AT AT AT AT AT
7163104 A
1 A
7163105 CTGAGATTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7170629 original size:22 final size:22
Alignment explanation
Indices: 7170604--7170675 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
7170594 AAATGTCTCC
*
7170604 AAATTGTTTTTTTTAATATTTA
1 AAATTATTTTTTTTAATATTTA
* *
7170626 AAATTCTTATTTTT-ATATTTTA
1 AAATTATTTTTTTTAATA-TTTA
*
7170648 AAATTATTTTTTTATAATTTTTA
1 AAATTATTTTTTT-TAATATTTA
*
7170671 TAATT
1 AAATT
7170676 TTTAATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 3 0.07
22 27 0.66
23 9 0.22
24 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (22 bp):
AAATTATTTTTTTTAATATTTA
Found at i:7181781 original size:12 final size:12
Alignment explanation
Indices: 7181764--7181803 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
7181754 ACACATTATC
7181764 TAATTTCTAATA
1 TAATTTCTAATA
*
7181776 TAA-TT-TAATC
1 TAATTTCTAATA
7181786 TAATTTCTAATA
1 TAATTTCTAATA
7181798 TAATTT
1 TAATTT
7181804 GAGTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTTCTAATA
Found at i:7181787 original size:22 final size:22
Alignment explanation
Indices: 7181761--7181803 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7181751 TATACACATT
7181761 ATCTAATTTCTAATATAATTTA
1 ATCTAATTTCTAATATAATTTA
7181783 ATCTAATTTCTAATATAATTT
1 ATCTAATTTCTAATATAATTT
7181804 GAGTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
ATCTAATTTCTAATATAATTTA
Found at i:7193079 original size:31 final size:31
Alignment explanation
Indices: 7193017--7193079 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
7193007 ATATAAATAA
* * *
7193017 ATAAAATGTACAGTTTACACCTTATATTTTT
1 ATAAAATATACAGTTTACACCTTAAACTTTT
*
7193048 ATAAAATATACCA-TTTATACCTTAAACTTTT
1 ATAAAATATA-CAGTTTACACCTTAAACTTTT
7193079 A
1 A
7193080 AATTATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAAATATACAGTTTACACCTTAAACTTTT
Found at i:7195355 original size:37 final size:37
Alignment explanation
Indices: 7195302--7195375 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
7195292 TACTTTAGGC
* *
7195302 TTTATCTTTGACAGTTACCTGAATTTTTCAGATAGTT
1 TTTATCTTTGACAGTTACCAGAAATTTTCAGATAGTT
* *
7195339 TTTATCTTTGATAGTTATCAGAAATTTTCAGATAGTT
1 TTTATCTTTGACAGTTACCAGAAATTTTCAGATAGTT
7195376 GTTGGCCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (37 bp):
TTTATCTTTGACAGTTACCAGAAATTTTCAGATAGTT
Found at i:7196632 original size:4 final size:4
Alignment explanation
Indices: 7196623--7196669 Score: 51
Period size: 4 Copynumber: 11.0 Consensus size: 4
7196613 CATTGTCTAC
7196623 TTAT TTAT TTAT TTAT TTATT GTTAT TTAT TTAATT TTAT TT-T TTAT
1 TTAT TTAT TTAT TTAT TTA-T -TTAT TTAT TT-A-T TTAT TTAT TTAT
7196670 CAAATCCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.08
4 25 0.66
5 4 0.11
6 6 0.16
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:7196636 original size:8 final size:8
Alignment explanation
Indices: 7196623--7196669 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
7196613 CATTGTCTAC
7196623 TTATTTAT
1 TTATTTAT
7196631 TTATTTAT
1 TTATTTAT
7196639 TTATTGTTAT
1 TTA-T-TTAT
7196649 TTATTTAATT
1 TTATTT-A-T
7196659 TTATTT-T
1 TTATTTAT
7196666 TTAT
1 TTAT
7196670 CAAATCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 5 0.14
8 13 0.37
9 3 0.09
10 14 0.40
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (8 bp):
TTATTTAT
Found at i:7196650 original size:14 final size:13
Alignment explanation
Indices: 7196623--7196669 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
7196613 CATTGTCTAC
7196623 TTATTTA-TTTAT
1 TTATTTATTTTAT
7196635 TTATTTATTGTTAT
1 TTATTTATT-TTAT
7196649 TTATTTAATTTTAT
1 TTATTT-ATTTTAT
7196663 TT-TTTAT
1 TTATTTAT
7196670 CAAATCCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.28
13 4 0.12
14 16 0.50
15 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:7196659 original size:27 final size:27
Alignment explanation
Indices: 7196614--7196669 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
7196604 CCCATCCTTC
7196614 ATTGTCTACTTATTTA-TTTATTTATTT
1 ATTGTCTACTTATTTATTTTATTT-TTT
*
7196641 ATTGT-TATTTATTTAATTTTATTTTTT
1 ATTGTCTACTTATTT-ATTTTATTTTTT
7196668 AT
1 AT
7196670 CAAATCCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 8 0.31
27 11 0.42
28 7 0.27
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (27 bp):
ATTGTCTACTTATTTATTTTATTTTTT
Found at i:7196873 original size:8 final size:9
Alignment explanation
Indices: 7196847--7196871 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7196837 TATTAAATCC
7196847 ATTTTTTTA
1 ATTTTTTTA
7196856 ATTTTTTTA
1 ATTTTTTTA
7196865 ATTTTTT
1 ATTTTTT
7196872 AAAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:7197365 original size:24 final size:24
Alignment explanation
Indices: 7197324--7197370 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7197314 TATATAACAA
*
7197324 TATATTTTATTATTTATTTAATTC
1 TATATTTTATTATGTATTTAATTC
7197348 TATA-TTTATATATGTATTTAATT
1 TATATTTTAT-TATGTATTTAATT
7197371 AAAAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TATATTTTATTATGTATTTAATTC
Found at i:7205258 original size:20 final size:21
Alignment explanation
Indices: 7205228--7205266 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
7205218 TTATGAATTA
7205228 TAAAAAGTTAAATTAATTTTT
1 TAAAAAGTTAAATTAATTTTT
7205249 TAAAAA-TTAAATTAATTT
1 TAAAAAGTTAAATTAATTT
7205267 AAATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
TAAAAAGTTAAATTAATTTTT
Found at i:7205385 original size:36 final size:37
Alignment explanation
Indices: 7205318--7205389 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
7205308 AAATTAATTA
*
7205318 ATAATAATAATAATTATTATTTTAAATAAATTTAAAT
1 ATAATAATAATAATTATTACTTTAAATAAATTTAAAT
* *
7205355 ATAA-AATAATTATTTTTACTTTATAA-AAATTTAAA
1 ATAATAATAATAATTATTACTTTA-AATAAATTTAAA
7205390 ATAGGCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (37 bp):
ATAATAATAATAATTATTACTTTAAATAAATTTAAAT
Found at i:7206352 original size:30 final size:32
Alignment explanation
Indices: 7206318--7206387 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
7206308 GAATTGTGAC
*
7206318 ATAT-AATTTT-ATATAAAATATGATATAAAT
1 ATATAAATTTTAATATAAAATATGATACAAAT
***
7206348 ATATAAATTTTAATATTTTATATGATACAAAT
1 ATATAAATTTTAATATAAAATATGATACAAAT
*
7206380 ATAAAAAT
1 ATATAAAT
7206388 CATTATATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 4 0.12
31 6 0.18
32 23 0.70
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (32 bp):
ATATAAATTTTAATATAAAATATGATACAAAT
Found at i:7206761 original size:30 final size:30
Alignment explanation
Indices: 7206727--7206783 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7206717 GGATTTGAGG
*
7206727 GTTTAGGGCTTGAATCTTAGGGTTTGGAAA
1 GTTTAGGGCTTGAATCTTAAGGTTTGGAAA
* * *
7206757 GTTTAGGGTTTTAATTTTAAGGTTTGG
1 GTTTAGGGCTTGAATCTTAAGGTTTGG
7206784 GGATTAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.44
Consensus pattern (30 bp):
GTTTAGGGCTTGAATCTTAAGGTTTGGAAA
Found at i:7206886 original size:14 final size:14
Alignment explanation
Indices: 7206790--7206917 Score: 80
Period size: 14 Copynumber: 9.1 Consensus size: 14
7206780 TTGGGGATTA
*
7206790 GGTTTTAATTTTAG
1 GGTTTCAATTTTAG
* * *
7206804 GGTTTAAAATTTGG
1 GGTTTCAATTTTAG
* *
7206818 GGTTTCGATTTTAA
1 GGTTTCAATTTTAG
*
7206832 GGCTTCAATTTTAG
1 GGTTTCAATTTTAG
*
7206846 GGTTTGAGA-TTT-G
1 GGTTTCA-ATTTTAG
** *
7206859 GGATTTTGATTTTAA
1 GG-TTTCAATTTTAG
7206874 GGTTTCAATTTTAG
1 GGTTTCAATTTTAG
** *
7206888 GGTTTGGATGTTTAA
1 GGTTTCAAT-TTTAG
*
7206903 GGTTTCGATTTTAG
1 GGTTTCAATTTTAG
7206917 G
1 G
7206918 ACTTGAAGGG
Statistics
Matches: 85, Mismatches: 24, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
13 4 0.05
14 66 0.78
15 15 0.18
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (14 bp):
GGTTTCAATTTTAG
Found at i:7206893 original size:42 final size:42
Alignment explanation
Indices: 7206789--7206893 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
7206779 TTTGGGGATT
* * *
7206789 AGGTTTTAATTTTAGGGTTTAAAATTTGGGGTTTCGATTTTA
1 AGGTTTCAATTTTAGGGTTTGAAATTTGGGATTTCGATTTTA
* * *
7206831 AGGCTTCAATTTTAGGGTTTGAGATTTGGGATTTTGATTTTA
1 AGGTTTCAATTTTAGGGTTTGAAATTTGGGATTTCGATTTTA
7206873 AGGTTTCAATTTTAGGGTTTG
1 AGGTTTCAATTTTAGGGTTTG
7206894 GATGTTTAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.49
Consensus pattern (42 bp):
AGGTTTCAATTTTAGGGTTTGAAATTTGGGATTTCGATTTTA
Found at i:7207240 original size:3 final size:3
Alignment explanation
Indices: 7207232--7207259 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7207222 TTATGAAAAT
7207232 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7207260 AATACTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7207425 original size:22 final size:20
Alignment explanation
Indices: 7207375--7207425 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
7207365 AAATAAAAAA
7207375 TATTATTTTATTGTTATTAT
1 TATTATTTTATTGTTATTAT
*
7207395 CACTT-TTTTAGATTGTTATTAT
1 TA-TTATTTT--ATTGTTATTAT
7207417 TATTATTTT
1 TATTATTTT
7207426 TAGCATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 4 0.16
22 16 0.64
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (20 bp):
TATTATTTTATTGTTATTAT
Found at i:7208557 original size:18 final size:18
Alignment explanation
Indices: 7208512--7208568 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
7208502 TAATATTATT
* *
7208512 AAATACAAAATATGAAAT
1 AAATACAAAATATAAAAA
* * *
7208530 ACACAAAAAATATAAAAA
1 AAATACAAAATATAAAAA
*
7208548 AAATACAAAATACAAAAA
1 AAATACAAAATATAAAAA
7208566 AAA
1 AAA
7208569 AAGATGAAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (18 bp):
AAATACAAAATATAAAAA
Found at i:7209239 original size:22 final size:21
Alignment explanation
Indices: 7209208--7209254 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7209198 AAGGATTTTT
* *
7209208 TTTTATATTTATGTATGATAAG
1 TTTTAAATTTAT-TAGGATAAG
*
7209230 TTTTAAATTTGTTAGGATAAG
1 TTTTAAATTTATTAGGATAAG
7209251 TTTT
1 TTTT
7209255 TTTGTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (21 bp):
TTTTAAATTTATTAGGATAAG
Found at i:7209632 original size:16 final size:15
Alignment explanation
Indices: 7209613--7209736 Score: 99
Period size: 16 Copynumber: 7.9 Consensus size: 15
7209603 CTAGGTTTCT
7209613 AAAACCTCTAAAATCC
1 AAAACC-CTAAAATCC
**
7209629 AAAATTCTAAAATCC
1 AAAACCCTAAAATCC
* *
7209644 GAAATCCCTAAAAATCT
1 -AAAACCCT-AAAATCC
*
7209661 AAAATCCCTTAAATCC
1 AAAA-CCCTAAAATCC
7209677 -AAACCCTTAAAATCC
1 AAAACCC-TAAAATCC
*
7209692 AAAACCCAAAAAATCC
1 AAAACCC-TAAAATCC
*
7209708 -AAACCCCAAAATCC
1 AAAACCCTAAAATCC
*
7209722 AAAATCCTTAAAATC
1 AAAA-CCCTAAAATC
7209737 TAAACTCTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
14 10 0.12
15 28 0.33
16 38 0.44
17 10 0.12
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (15 bp):
AAAACCCTAAAATCC
Found at i:7209639 original size:15 final size:15
Alignment explanation
Indices: 7209619--7209648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7209609 TTCTAAAACC
7209619 TCTAAAATCCAAAAT
1 TCTAAAATCCAAAAT
*
7209634 TCTAAAATCCGAAAT
1 TCTAAAATCCAAAAT
7209649 CCCTAAAAAT
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:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (15 bp):
TCTAAAATCCAAAAT
Found at i:7209656 original size:31 final size:30
Alignment explanation
Indices: 7209614--7209757 Score: 130
Period size: 31 Copynumber: 4.7 Consensus size: 30
7209604 TAGGTTTCTA
*
7209614 AAACCTCTAAAATCCAAAATTC-TAAAATCC
1 AAACC-CTAAAATCCAAAATCCATAAAATCC
* * *
7209644 GAAATCCCTAAAAATCTAAAATCCCTTAAATCC
1 -AAA-CCCT-AAAATCCAAAATCCATAAAATCC
* *
7209677 AAACCCTTAAAATCCAAAACCCAAAAAATCC
1 AAACCC-TAAAATCCAAAATCCATAAAATCC
* * *
7209708 AAACCCCAAAATCCAAAATCCTTAAAATCT
1 AAACCCTAAAATCCAAAATCCATAAAATCC
* *
7209738 AAACTCTTAAAT-CAAAATCC
1 AAACCCTAAAATCCAAAATCC
7209758 CAAACCCCAA
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
29 8 0.09
30 28 0.30
31 32 0.34
32 18 0.19
33 7 0.08
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (30 bp):
AAACCCTAAAATCCAAAATCCATAAAATCC
Found at i:7209691 original size:15 final size:15
Alignment explanation
Indices: 7209636--7209748 Score: 86
Period size: 15 Copynumber: 7.3 Consensus size: 15
7209626 TCCAAAATTC
7209636 TAAAATCCGAAATCCCT
1 TAAAATCC-AAA-CCCT
* *
7209653 AAAAATCTAAAATCCCT
1 TAAAATC-CAAA-CCCT
7209670 T-AAATCCAAACCCT
1 TAAAATCCAAACCCT
*
7209684 TAAAATCCAAAACCCA
1 TAAAATCC-AAACCCT
*
7209700 AAAAATCCAAACCC-
1 TAAAATCCAAACCCT
* *
7209714 CAAAATCCAAAATCCT
1 TAAAATCC-AAACCCT
* *
7209730 TAAAATCTAAACTCT
1 TAAAATCCAAACCCT
7209745 TAAA
1 TAAA
7209749 TCAAAATCCC
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
14 12 0.15
15 29 0.37
16 24 0.30
17 14 0.18
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.20
Consensus pattern (15 bp):
TAAAATCCAAACCCT
Found at i:7209767 original size:51 final size:50
Alignment explanation
Indices: 7209701--7209814 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 50
7209691 CAAAACCCAA
* *
7209701 AAAAT-CCAAACCCCAAAATCCAAAATCCTTAAAA-TCTAAACTCTTAAATC
1 AAAATCCCAAACCCCAAAA-CCAAAA-CCATAAAACTCTAAACTCTAAAATC
*
7209751 AAAATCCCAAACCCCAAAACCCAAACCATAAAATCTCTAAACTCTAAAATC
1 AAAATCCCAAACCCCAAAACCAAAACCATAAAA-CTCTAAACTCTAAAATC
7209802 AAAA-CCCTAAACC
1 AAAATCCC-AAACC
7209815 TTTCATATCC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
49 7 0.12
50 13 0.23
51 37 0.65
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.18
Consensus pattern (50 bp):
AAAATCCCAAACCCCAAAACCAAAACCATAAAACTCTAAACTCTAAAATC
Found at i:7211629 original size:10 final size:10
Alignment explanation
Indices: 7211614--7211646 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
7211604 TCAATCATTG
7211614 AAAAAAAAG-
1 AAAAAAAAGA
7211623 AAAAAAAAGA
1 AAAAAAAAGA
7211633 AAAAAAAAGCA
1 AAAAAAAAG-A
7211644 AAA
1 AAA
7211647 GAACATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Done.