Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold117
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: 3231771
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 68836 characters in sequence are not A, C, G, or T
File 6 of 18
Found at i:789675 original size:33 final size:33
Alignment explanation
Indices: 789614--789680 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
789604 AGTAGCTTAA
*
789614 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATATATCGATAC
* ***
789647 ATTGTATCGATACAACACTTTATATATCGATAC
1 ATTGTATCGATACAAAAAAATATATATCGATAC
789680 A
1 A
789681 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATATATCGATAC
Found at i:789987 original size:21 final size:20
Alignment explanation
Indices: 789961--789999 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
789951 AGGTCAAAAC
789961 CCTAGAAAGTATCGATACACA
1 CCTAGAAA-TATCGATACACA
*
789982 CCTAGATATATCGATACA
1 CCTAGAAATATCGATACA
790000 TAAAATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (20 bp):
CCTAGAAATATCGATACACA
Found at i:790068 original size:14 final size:14
Alignment explanation
Indices: 790049--790088 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
790039 ATTACTGTTC
*
790049 ATCACTGTTTATAT
1 ATCACTGTTCATAT
790063 ATCACTGTTCATAT
1 ATCACTGTTCATAT
*
790077 ATCACTATTCAT
1 ATCACTGTTCAT
790089 CACTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (14 bp):
ATCACTGTTCATAT
Found at i:792262 original size:19 final size:20
Alignment explanation
Indices: 792224--792271 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
792214 TAATTTTCTT
*
792224 GAAAAGAAATTAAATGAATTA
1 GAAAAG-AATTAAATAAATTA
792245 GAAAAGAA-TAAATAAATTA
1 GAAAAGAATTAAATAAATTA
*
792264 GAAGAGAA
1 GAAAAGAA
792272 AAGAAATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 2 0.08
21 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAAAGAATTAAATAAATTA
Found at i:794647 original size:20 final size:20
Alignment explanation
Indices: 794622--794663 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
794612 TGTTCATAAA
*
794622 TTTGGTTTTATCAATTTAGC
1 TTTGGTTTTATCAACTTAGC
794642 TTTGGTTTTATCAACTTAGC
1 TTTGGTTTTATCAACTTAGC
794662 TT
1 TT
794664 ATAACAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (20 bp):
TTTGGTTTTATCAACTTAGC
Found at i:794768 original size:29 final size:30
Alignment explanation
Indices: 794712--794808 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 30
794702 AGGGTGAGAA
*
794712 TGTATTAAGAGGGAGAGTTTGCAT-AAATTT
1 TGTATTAAG-GGGAGAGCTTGCATAAAATTT
* *
794742 TGTATTAAGGAGAGAGCTTG-ATAAAA-TC
1 TGTATTAAGGGGAGAGCTTGCATAAAATTT
* * *
794770 TGTACTAAGGGGGAGAGCTTGTATAAACTTT
1 TGTATTAA-GGGGAGAGCTTGCATAAAATTT
794801 TGGTATTA
1 T-GTATTA
794809 GGTACGAGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.19
29 23 0.43
30 14 0.26
31 2 0.04
32 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (30 bp):
TGTATTAAGGGGAGAGCTTGCATAAAATTT
Found at i:795810 original size:10 final size:10
Alignment explanation
Indices: 795795--795837 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
795785 TTGATACATT
795795 ACTGTTCATC
1 ACTGTTCATC
795805 ACTGTTAACATATC
1 ACTGTT--C--ATC
795819 ACTGTTCATC
1 ACTGTTCATC
795829 ACTGTTCAT
1 ACTGTTCAT
795838 GTATCACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 18 0.62
12 2 0.07
14 9 0.31
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (10 bp):
ACTGTTCATC
Found at i:795822 original size:24 final size:24
Alignment explanation
Indices: 795795--795854 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
795785 TTGATACATT
795795 ACTGTTCATCACTGTTAACATATC
1 ACTGTTCATCACTGTTAACATATC
* **
795819 ACTGTTCATCACTGTTCATGTATC
1 ACTGTTCATCACTGTTAACATATC
*
795843 ACTATTCATCAC
1 ACTGTTCATCAC
795855 CGTTCCACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (24 bp):
ACTGTTCATCACTGTTAACATATC
Found at i:795903 original size:13 final size:13
Alignment explanation
Indices: 795871--795904 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
795861 ACACTGTTTA
* *
795871 TGTATCAATACAT
1 TGTATCGATACAG
795884 TGTATCGATACAG
1 TGTATCGATACAG
795897 TGTATCGA
1 TGTATCGA
795905 GATATTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:796340 original size:27 final size:27
Alignment explanation
Indices: 796276--796341 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
796266 AGGTTTATTT
*
796276 AGTTTGTGTTAATTTATTCTCTTTATA
1 AGTTTGTGTTCATTTATTCTCTTTATA
796303 AGTTTGTGTTCATTTATTCTCTTTATA
1 AGTTTGTGTTCATTTATTCTCTTTATA
796330 AGTTTGTGTTCA
1 AGTTTGTGTTCA
796342 ACCTTGTTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.58
Consensus pattern (27 bp):
AGTTTGTGTTCATTTATTCTCTTTATA
Found at i:796977 original size:7 final size:7
Alignment explanation
Indices: 796965--797007 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
796955 ATAAATCAAA
796965 ATTATTT
1 ATTATTT
796972 ATTATTT
1 ATTATTT
*
796979 ATTATTC
1 ATTATTT
796986 ATTATTT
1 ATTATTT
796993 ATTATCATT
1 ATTAT--TT
797002 ATTATT
1 ATTATT
797008 GATAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 25 0.78
9 7 0.22
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (7 bp):
ATTATTT
Found at i:797408 original size:21 final size:20
Alignment explanation
Indices: 797360--797432 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
797350 TTGAAATATT
*
797360 TAATTTTTTTAATTAAAATA
1 TAATTATTTTAATTAAAATA
797380 TAATTATTTTAATATATAATATA
1 TAATTATTTTAAT-TA-AA-ATA
797403 TATATTAATTTT--TTAAATATA
1 TA-ATT-ATTTTAATTAAA-ATA
797424 TAATTATTT
1 TAATTATTT
797433 AATATAATTG
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
19 4 0.09
20 15 0.32
21 10 0.21
22 4 0.09
23 6 0.13
24 3 0.06
25 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTATTTTAATTAAAATA
Found at i:797424 original size:17 final size:15
Alignment explanation
Indices: 797372--797438 Score: 68
Period size: 16 Copynumber: 4.5 Consensus size: 15
797362 ATTTTTTTAA
*
797372 TTAAAATATAATTATT
1 TTAATATATAATTA-T
797388 TTAATATATAA-TAT
1 TTAATATATAATTAT
* *
797402 AT-ATAT-TAATTTT
1 TTAATATATAATTAT
797415 TTAAATATATAATTAT
1 TT-AATATATAATTAT
797431 TTAATATA
1 TTAATATA
797439 ATTGAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.17
14 2 0.05
15 12 0.29
16 18 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATATATAATTAT
Found at i:804725 original size:11 final size:11
Alignment explanation
Indices: 804707--804749 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
804697 AACCTACTCT
804707 TTTTTTTTCTC
1 TTTTTTTTCTC
804718 TATTTTTTTCTC
1 T-TTTTTTTCTC
*
804730 TTTTTTTGCTC
1 TTTTTTTTCTC
804741 TTTGTTTTT
1 TTT-TTTTT
804750 TAGTTGTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:809016 original size:11 final size:11
Alignment explanation
Indices: 809000--809040 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
808990 ATTTCATATT
809000 TTTTTTCTTTC
1 TTTTTTCTTTC
809011 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
809024 TTCTTTCTTTC
1 TTTTTTCTTTC
809035 TTTTTT
1 TTTTTT
809041 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:809054 original size:24 final size:22
Alignment explanation
Indices: 809000--809054 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
808990 ATTTCATATT
**
809000 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
809022 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
809048 TTTTTTC
1 TTTTTTC
809055 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:809421 original size:23 final size:22
Alignment explanation
Indices: 809395--809439 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
809385 CCACTCAATC
809395 GGAAAACCCACTTTGGTTTTTTT
1 GGAAAACCC-CTTTGGTTTTTTT
* **
809418 GGAAAGCCCCTTTTTTTTTTTT
1 GGAAAACCCCTTTGGTTTTTTT
809440 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (22 bp):
GGAAAACCCCTTTGGTTTTTTT
Found at i:809476 original size:1 final size:1
Alignment explanation
Indices: 809428--809456 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
809418 GGAAAGCCCC
809428 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
809457 CGATCCCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:815321 original size:19 final size:20
Alignment explanation
Indices: 815278--815319 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
815268 TTGAGAAAAA
815278 TTTTATGTTAAATATATTAT
1 TTTTATGTTAAATATATTAT
*
815298 TTTTAT-TT-AATATTTTAT
1 TTTTATGTTAAATATATTAT
815316 TTTT
1 TTTT
815320 TAAGTATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 2 0.10
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATGTTAAATATATTAT
Found at i:815729 original size:12 final size:12
Alignment explanation
Indices: 815702--815738 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
815692 TTTTATAATT
815702 TTTAAAAAATAA
1 TTTAAAAAATAA
815714 -TTAACAAAA-AA
1 TTTAA-AAAATAA
815725 TTTAAAAAATAA
1 TTTAAAAAATAA
815737 TT
1 TT
815739 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
TTTAAAAAATAA
Found at i:816246 original size:17 final size:18
Alignment explanation
Indices: 816202--816246 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
816192 TTAATTTAAA
816202 TATATTTT-TAAAATATT
1 TATATTTTATAAAATATT
*
816219 TATTATCTTATAAAAT-TT
1 TA-TATTTTATAAAATATT
816237 TATATTTTAT
1 TATATTTTAT
816247 TTTAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 9 0.38
19 6 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTTATAAAATATT
Found at i:817099 original size:16 final size:16
Alignment explanation
Indices: 817080--817134 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
817070 CTTATAATGC
817080 TATATTTATATATTAT
1 TATATTTATATATTAT
817096 TATA-TTATA-ATTA-
1 TATATTTATATATTAT
* *
817109 TAT-TTAAAATATT-T
1 TATATTTATATATTAT
817123 TATATTTATATA
1 TATATTTATATA
817135 AAATTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
13 6 0.19
14 10 0.32
15 11 0.35
16 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTTATATATTAT
Found at i:817113 original size:27 final size:28
Alignment explanation
Indices: 817071--817154 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 28
817061 ATTAATAAAC
*
817071 TTATAATGCTATATTT-ATATATTATTATA
1 TTATAAT-CTATATTTAAAATATT-TTATA
817100 TTATAAT-TATATTTAAAATATTTTATA
1 TTATAATCTATATTTAAAATATTTTATA
* * *
817127 TT-TATAT-AAAATTTAAAAAATTTTATA
1 TTATA-ATCTATATTTAAAATATTTTATA
817154 T
1 T
817155 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.04
27 34 0.69
28 6 0.12
29 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (28 bp):
TTATAATCTATATTTAAAATATTTTATA
Found at i:817191 original size:27 final size:24
Alignment explanation
Indices: 817147--817203 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
817137 ATTTAAAAAA
*
817147 TTTTATATATTTATTTTTTATTAT
1 TTTTATATATTTATTTTTAATTAT
*
817171 TTTTATATTATATTATATTTTAATTTT
1 TTTTATA-TAT-TTAT-TTTTAATTAT
817198 TTTTAT
1 TTTTAT
817204 GATTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.25
25 3 0.11
26 4 0.14
27 14 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTATATATTTATTTTTAATTAT
Found at i:817196 original size:24 final size:23
Alignment explanation
Indices: 817147--817198 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
817137 ATTTAAAAAA
*
817147 TTTTATATATTTATTTTTTATTAT
1 TTTTATATATTTATATTTTA-TAT
817171 TTTTATATTATATTATATTTTA-AT
1 TTTTATA-TAT-TTATATTTTATAT
817195 TTTT
1 TTTT
817199 TTTATGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 13 0.52
25 3 0.12
26 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATATATTTATATTTTATAT
Found at i:838430 original size:53 final size:53
Alignment explanation
Indices: 838362--838472 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
838352 GTTCTTATTC
* *
838362 AATCGATTGATTTAGTTCGATTTCATAATTTTTAATTTTTAATTTAATCGGTT
1 AATCTATTGATTTAGTTCGATTTCATAATTTTTAATTTTTAATTTAACCGGTT
* *
838415 AATCTATTGATTTAGTTTGATTTCATAATTTTTAATTTTTTATTTAACCGGTT
1 AATCTATTGATTTAGTTCGATTTCATAATTTTTAATTTTTAATTTAACCGGTT
838468 AATCT
1 AATCT
838473 GGCTCAGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (53 bp):
AATCTATTGATTTAGTTCGATTTCATAATTTTTAATTTTTAATTTAACCGGTT
Found at i:842901 original size:9 final size:9
Alignment explanation
Indices: 842887--842920 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
842877 CTTGCTAGTT
842887 TTAAATAAA
1 TTAAATAAA
842896 TTAAATTAAA
1 TTAAA-TAAA
*
842906 TTAATTAAA
1 TTAAATAAA
842915 TTAAAT
1 TTAAAT
842921 CTGAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAATAAA
Found at i:842902 original size:5 final size:5
Alignment explanation
Indices: 842887--842920 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
842877 CTTGCTAGTT
842887 TTAAA -TAAA TTAAA TTAAA TT-AA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
842921 CTGAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:842904 original size:14 final size:14
Alignment explanation
Indices: 842887--842920 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
842877 CTTGCTAGTT
842887 TTAAATAAATTAAA
1 TTAAATAAATTAAA
*
842901 TTAAATTAATTAAA
1 TTAAATAAATTAAA
842915 TTAAAT
1 TTAAAT
842921 CTGAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAATAAATTAAA
Found at i:844735 original size:14 final size:13
Alignment explanation
Indices: 844694--844770 Score: 54
Period size: 14 Copynumber: 6.0 Consensus size: 13
844684 TTATATTTTA
844694 ATTTTATTTAAA-
1 ATTTTATTTAAAT
*
844706 ATATATATTT--AT
1 AT-TTTATTTAAAT
844718 ATTTTATATTAAAT
1 ATTTTAT-TTAAAT
*
844732 ATTTTATTTAATGT
1 ATTTTATTTAA-AT
* *
844746 ATTATATTTATAT
1 ATTTTATTTAAAT
*
844759 AATTT-TTTAAAT
1 ATTTTATTTAAAT
844771 TATAAGATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 5 0.10
12 12 0.24
13 14 0.28
14 19 0.38
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (13 bp):
ATTTTATTTAAAT
Found at i:844739 original size:25 final size:23
Alignment explanation
Indices: 844685--844743 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
844675 GTATTTTTAT
844685 TATAT-TTTAATTTTATTTAAAA
1 TATATATTTAATTTTATTTAAAA
844707 TATATATTTATATTTTATATT-AAA
1 TATATATTTA-ATTTTAT-TTAAAA
*
844731 TATTTTATTTAAT
1 TA-TATATTTAAT
844744 GTATTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.16
23 4 0.12
24 14 0.44
25 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATATATTTAATTTTATTTAAAA
Found at i:846474 original size:16 final size:17
Alignment explanation
Indices: 846450--846491 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
846440 GATATGATCG
* *
846450 TTTAGTTTATTAAAT-A
1 TTTATTTTATAAAATAA
846466 TTTATTTTATAAAATAA
1 TTTATTTTATAAAATAA
*
846483 TTAATTTTA
1 TTTATTTTA
846492 ATATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTATTTTATAAAATAA
Found at i:846609 original size:13 final size:13
Alignment explanation
Indices: 846566--846609 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
846556 TTAAATAAAA
846566 TATAAAATTATTT
1 TATAAAATTATTT
*
846579 TAAAAAATTAAATTT
1 TATAAAATT--ATTT
*
846594 TATAATATTATTT
1 TATAAAATTATTT
846607 TAT
1 TAT
846610 TTATATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAAAATTATTT
Found at i:846633 original size:20 final size:20
Alignment explanation
Indices: 846596--846633 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
846586 TTAAATTTTA
* *
846596 TAATATTATTTTATTTATAT
1 TAATATTATTATAATTATAT
846616 TAATATTATTATAATTAT
1 TAATATTATTATAATTAT
846634 TTTCTCTGCT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATATTATTATAATTATAT
Found at i:847107 original size:25 final size:25
Alignment explanation
Indices: 847068--847115 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
847058 TTTTATTTAT
847068 TTAAAAATAAATTTAAT-TTAATAAA
1 TTAAAAATAAATTT-ATGTTAATAAA
* *
847093 TTAAAAATTATTTTATGTTAATA
1 TTAAAAATAAATTTATGTTAATA
847116 TTTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTAAAAATAAATTTATGTTAATAAA
Found at i:847471 original size:15 final size:15
Alignment explanation
Indices: 847451--847493 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
847441 TATTAAAAAT
847451 AAATTATAAATATTA
1 AAATTATAAATATTA
*
847466 AAATTAAAAAT-TTA
1 AAATTATAAATATTA
*
847480 AATTTATTAAATAT
1 AAATTA-TAAATAT
847494 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 8 0.35
15 14 0.61
16 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTATAAATATTA
Found at i:848815 original size:33 final size:33
Alignment explanation
Indices: 848778--848844 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
848768 TATCATAATT
* *
848778 ATATAAAAAT-ATTATATATTTTTATAAATTTTA
1 ATATAAAAATAAATATATA-TTATATAAATTTTA
*
848811 ATATATAAATAAATATATATTATATAAATTTTA
1 ATATAAAAATAAATATATATTATATAAATTTTA
848844 A
1 A
848845 CATATATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATAAAAATAAATATATATTATATAAATTTTA
Found at i:848870 original size:21 final size:22
Alignment explanation
Indices: 848820--848870 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
848810 AATATATAAA
*
848820 TAAATATATATTATATAAATTT
1 TAAATATATATTATATAAATAT
848842 TAACATATATTATT-T-TAAATAT
1 TAA-ATATA-TATTATATAAATAT
848864 TAAATAT
1 TAAATAT
848871 TTTTGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 12 0.46
23 6 0.23
24 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATATATTATATAAATAT
Found at i:851548 original size:106 final size:105
Alignment explanation
Indices: 851363--851576 Score: 383
Period size: 106 Copynumber: 2.0 Consensus size: 105
851353 GCTAGTCATT
* *
851363 TTGCATGTAAAATCGACTGTTATTTCATAGCTTGAATTGCTCCACTAGAGACTTCTTGGCCTTAT
1 TTGCATGTAAAATCGACTGTTATTTCATAGCTTGAATTGCTCCACTAGAGACTCCTTGACCTTAT
851428 ATGTGAAATGCACATCTTTTTAAATATTTTACCATGCAATA
66 ATGTGAAATGCACATCTTTTT-AATATTTTACCATGCAATA
* *
851469 TTGCATGTAAAATCGACTGTTATTTCATAGCTTGAATTGCTTCACTGGAGACTCCTTGACCTTAT
1 TTGCATGTAAAATCGACTGTTATTTCATAGCTTGAATTGCTCCACTAGAGACTCCTTGACCTTAT
851534 ATGTGAAATGCACATCTTTTTAATATTTTACCATGCAATA
66 ATGTGAAATGCACATCTTTTTAATATTTTACCATGCAATA
851574 TTG
1 TTG
851577 TTTCTCATTC
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 22 0.21
106 82 0.79
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (105 bp):
TTGCATGTAAAATCGACTGTTATTTCATAGCTTGAATTGCTCCACTAGAGACTCCTTGACCTTAT
ATGTGAAATGCACATCTTTTTAATATTTTACCATGCAATA
Found at i:857723 original size:21 final size:20
Alignment explanation
Indices: 857697--857798 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 20
857687 CAAAACACGG
857697 TAACTTCTTATATAATTTTAA
1 TAACTT-TTATATAATTTTAA
*
857718 TAACTTTTTATATAAATTTAA
1 TAAC-TTTTATATAATTTTAA
* * *
857739 TAAGTTTTGATATAGTTTTTA
1 TAACTTTT-ATATAATTTTAA
* * * *
857760 TAGCCTTTAATATGATTTTAT
1 TA-ACTTTTATATAATTTTAA
857781 TAATCTTTTATATAATTT
1 TAA-CTTTTATATAATTT
857799 GGTTTTTGAA
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.06
21 53 0.85
22 5 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (20 bp):
TAACTTTTATATAATTTTAA
Found at i:857826 original size:11 final size:11
Alignment explanation
Indices: 857812--857891 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
857802 TTTTGAAAAT
857812 TTTTAATATAA
1 TTTTAATATAA
*
857823 TTTTAATA-AT
1 TTTTAATATAA
857833 TTTTAATAT-A
1 TTTTAATATAA
* *
857843 TTATTGATA-AC
1 TT-TTAATATAA
*
857854 TTTAAATATAA
1 TTTTAATATAA
**
857865 TTTTGTTA-AA
1 TTTTAATATAA
857875 TTTTGAA-ATAA
1 TTTT-AATATAA
857886 TTTTAA
1 TTTTAA
857892 AAATCTTCGA
Statistics
Matches: 51, Mismatches: 12, Indels: 13
0.67 0.16 0.17
Matches are distributed among these distances:
10 24 0.47
11 27 0.53
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (11 bp):
TTTTAATATAA
Found at i:857826 original size:21 final size:21
Alignment explanation
Indices: 857802--857949 Score: 88
Period size: 21 Copynumber: 7.0 Consensus size: 21
857792 ATAATTTGGT
857802 TTTTGAAAATTTTTAATATAA
1 TTTTGAAAATTTTTAATATAA
857823 TTTT-AATAATTTTTAATAT-A
1 TTTTGAA-AATTTTTAATATAA
* * *
857843 TTATTGATAACTTTAAATATAA
1 TT-TTGAAAATTTTTAATATAA
* *
857865 TTTTGTTAAATTTTGAA-ATAA
1 TTTTG-AAAATTTTTAATATAA
* * ** *
857886 TTTTAAAAATCTTCGATAAAA
1 TTTTGAAAATTTTTAATATAA
* * * *
857907 TTTTGATAACTTATATTATAA
1 TTTTGAAAATTTTTAATATAA
**
857928 TTTTGGTTAA-TTTTAATATAA
1 TTTT-GAAAATTTTTAATATAA
857949 T
1 T
857950 ATTTTTGTGC
Statistics
Matches: 95, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
20 12 0.13
21 68 0.72
22 15 0.16
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTGAAAATTTTTAATATAA
Found at i:857886 original size:90 final size:89
Alignment explanation
Indices: 857722--857888 Score: 196
Period size: 90 Copynumber: 1.9 Consensus size: 89
857712 TTTTAATAAC
* * * *
857722 TTTTTATATAAATTTAATAAGTTTTGATATAGTTTTTATAGCCTTTAATATGATTTTATTAATCT
1 TTTTTATATAAATTTAATAAGTTTTAATATAGTTTTGATAGACTTTAATATAATTTTATTAATCT
* *
857787 TTTATATAATTTGGTTTTTGAAAA
66 TTGAAATAATTTGGTTTTTGAAAA
* * *
857811 TTTTTAATATAATTTTAATAATTTTTAATATA-TTATTGATA-ACTTTAAATATAATTTTGTTAA
1 TTTTT-ATATAAATTTAATAAGTTTTAATATAGTT-TTGATAGACTTT-AATATAATTTTATT-A
857874 AT-TTTGAAATAATTT
62 ATCTTTGAAATAATTT
857889 TAAAAATCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
89 11 0.17
90 51 0.78
91 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (89 bp):
TTTTTATATAAATTTAATAAGTTTTAATATAGTTTTGATAGACTTTAATATAATTTTATTAATCT
TTGAAATAATTTGGTTTTTGAAAA
Found at i:861698 original size:21 final size:22
Alignment explanation
Indices: 861673--861733 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 22
861663 AATATATTTT
861673 TTTTATTTAATTTAAATTATTA
1 TTTTATTTAATTTAAATTATTA
* * *
861695 -TTTA-TTAA-ATAAAATAATA
1 TTTTATTTAATTTAAATTATTA
861714 TTTTATTTAAATTT-AATTAT
1 TTTTATTT-AATTTAAATTAT
861734 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
19 8 0.28
20 8 0.28
21 6 0.21
22 6 0.21
23 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATTTAATTTAAATTATTA
Found at i:861763 original size:17 final size:18
Alignment explanation
Indices: 861743--861776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
861733 TAAAAATAAA
861743 AATA-TTAATTATTTTTT
1 AATATTTAATTATTTTTT
*
861760 AATATTTTATTATTTTT
1 AATATTTAATTATTTTT
861777 ACATAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATATTTAATTATTTTTT
Found at i:862419 original size:22 final size:22
Alignment explanation
Indices: 862394--862451 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
862384 TTTATTAAAT
862394 ATAATTATATTATTAAAATT-TA
1 ATAATTATATTATT-AAATTATA
862416 ATAATTA-ATTTATTAAATTATA
1 ATAATTATA-TTATTAAATTATA
862438 A-AATTATATATATT
1 ATAATTATAT-TATT
862452 TATTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTATATTATTAAATTATA
Found at i:863133 original size:18 final size:17
Alignment explanation
Indices: 863110--863167 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
863100 TAGTTTTTTT
863110 AAATTAAAAAAATTTAAA
1 AAATTAAAAAAA-TTAAA
863128 AAATTATAAAAAATT-AA
1 AAATTA-AAAAAATTAAA
863145 AAATTAAACATAAAATTAAA
1 AAATT-AA-A-AAAATTAAA
863165 AAA
1 AAA
863168 ATTACAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.23
18 10 0.29
19 12 0.34
20 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTAAAAAAATTAAA
Found at i:863141 original size:10 final size:9
Alignment explanation
Indices: 863110--863171 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
863100 TAGTTTTTTT
863110 AAATTAAAA
1 AAATTAAAA
*
863119 AAATTTAAA
1 AAATTAAAA
863128 AAATTATAAA
1 AAATTA-AAA
863138 AAATT--AA
1 AAATTAAAA
863145 AAATTAAACATA
1 AAATT-AA-A-A
863157 AAATTAAAA
1 AAATTAAAA
863166 AAATTA
1 AAATTA
863172 CAAGTTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 7 0.16
9 20 0.44
10 9 0.20
11 3 0.07
12 6 0.13
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATTAAAA
Found at i:863229 original size:35 final size:35
Alignment explanation
Indices: 863186--863277 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 35
863176 TTTTTATTTA
*
863186 TTTTAATTTTATACTTTTTAAAAAATTTTA-AAAT
1 TTTTAATTTTATAATTTTTAAAAAATTTTATAAAT
* ** *
863220 TTTTGAATTTT-TATTTTTTTTATAATTTTATAAAT
1 TTTT-AATTTTATAATTTTTAAAAAATTTTATAAAT
863255 TTTTAAATATTTATGAATTTTTA
1 TTTT-AAT-TTTAT-AATTTTTA
863278 TTTTTAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 19 0.41
35 17 0.37
36 3 0.07
37 1 0.02
38 6 0.13
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (35 bp):
TTTTAATTTTATAATTTTTAAAAAATTTTATAAAT
Found at i:863251 original size:53 final size:51
Alignment explanation
Indices: 863176--863303 Score: 129
Period size: 53 Copynumber: 2.5 Consensus size: 51
863166 AAATTACAAG
* *
863176 TTTTTA-TTTATTT-TAATTTTAT-ACTTTTTAAAAAATTT-TAAAATTTTTGAA
1 TTTTTATTTTTTTTATAATTTTATAAATTTTT-AAAAATTTAT-AAATTTTT--A
* *
863227 TTTTTATTTTTTTTATAATTTTATAAATTTTTAAATATTTATGAATTTTTA
1 TTTTTATTTTTTTTATAATTTTATAAATTTTTAAAAATTTATAAATTTTTA
*
863278 TTTTTAAATATTTTTTATAATTTTAT
1 TTTTT--ATTTTTTTTATAATTTTAT
863304 TTTTATTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 12 0.18
52 6 0.09
53 41 0.62
54 7 0.11
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.65
Consensus pattern (51 bp):
TTTTTATTTTTTTTATAATTTTATAAATTTTTAAAAATTTATAAATTTTTA
Found at i:863272 original size:45 final size:45
Alignment explanation
Indices: 863182--863282 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
863172 CAAGTTTTTA
* *
863182 TTTATTTTAATTTTATACTTTTTAAAAAATTTTAAAATTTTTGAATT
1 TTTATTTT--TTTTATACATTTTAAAAAATTTTAAAATTTATGAATT
* *
863229 TTTATTTTTTTTATA-ATTTTATAAATTTTTAAATATTTATGAATT
1 TTTATTTTTTTTATACATTTTAAAAAATTTTAAA-ATTTATGAATT
863274 TTTATTTTT
1 TTTATTTTT
863283 AAATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.31
45 26 0.53
47 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (45 bp):
TTTATTTTTTTTATACATTTTAAAAAATTTTAAAATTTATGAATT
Found at i:863293 original size:35 final size:33
Alignment explanation
Indices: 863254--863336 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 33
863244 ATTTTATAAA
863254 TTTTTAAATATTTATGAAT-TTTTATTTTTAAATAT
1 TTTTTAAAT-TTTATGAATATTTTA-TTTTAAAT-T
***
863289 TTTTTATAATTTTATTTTTATTTTATTTTAAATT
1 TTTTTA-AATTTTATGAATATTTTATTTTAAATT
863323 TTTTATAAATTTTA
1 TTTT-TAAATTTTA
863337 AGCGTCATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 12 0.29
35 22 0.52
36 8 0.19
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (33 bp):
TTTTTAAATTTTATGAATATTTTATTTTAAATT
Found at i:863294 original size:45 final size:44
Alignment explanation
Indices: 863195--863301 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
863185 ATTTTAATTT
* * * **
863195 TATACTTTTTAAAAAATTTTAAAATTTTTGAATTTTTATTTTTTT
1 TATA-TTTTTATAAATTTTTAAAATTTATGAATTTTTATTTTTAA
*
863240 TATAATTTTATAAATTTTTAAATATTTATGAATTTTTATTTTTAA
1 TATATTTTTATAAATTTTTAAA-ATTTATGAATTTTTATTTTTAA
863285 -ATATTTTT-TATAATTTT
1 TATATTTTTATA-AATTTT
863302 ATTTTTATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
43 2 0.04
44 28 0.53
45 23 0.43
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (44 bp):
TATATTTTTATAAATTTTTAAAATTTATGAATTTTTATTTTTAA
Found at i:863317 original size:26 final size:27
Alignment explanation
Indices: 863235--863308 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 27
863225 AATTTTTATT
863235 TTTTTTAT-AATTTTATAAATTTTTAAATA
1 TTTTTTATGAATTTT-T--ATTTTTAAATA
863264 ---TTTATGAATTTTTATTTTTAAATA
1 TTTTTTATGAATTTTTATTTTTAAATA
863288 TTTTTTAT-AA-TTTTATTTTTA
1 TTTTTTATGAATTTTTATTTTTA
863309 TTTTATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
24 11 0.27
25 11 0.27
26 8 0.20
27 11 0.27
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTTTATGAATTTTTATTTTTAAATA
Found at i:863378 original size:14 final size:15
Alignment explanation
Indices: 863359--863399 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
863349 TTTTTATAAT
863359 TTTTAAAATTTT-AA
1 TTTTAAAATTTTAAA
*
863373 TTTT-AATTTTTAAA
1 TTTTAAAATTTTAAA
863387 TTTTAATAATTTT
1 TTTTAA-AATTTT
863400 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 1 0.05
16 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAAATTTTAAA
Found at i:863381 original size:21 final size:20
Alignment explanation
Indices: 863355--863393 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
863345 GAAATTTTTA
863355 TAATTTTTAAAATTTTAATTT
1 TAATTTTT-AAATTTTAATTT
863376 TAATTTTTAAATTTTAAT
1 TAATTTTTAAATTTTAAT
863394 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTAAATTTTAATTT
Found at i:865576 original size:14 final size:14
Alignment explanation
Indices: 865557--865586 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
865547 CTCAACTTTC
865557 TGTTATACATTATG
1 TGTTATACATTATG
*
865571 TGTTATATATTATG
1 TGTTATACATTATG
865585 TG
1 TG
865587 GTGATAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (14 bp):
TGTTATACATTATG
Found at i:867978 original size:15 final size:15
Alignment explanation
Indices: 867958--868006 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
867948 TGATGACATC
867958 GATGACGACAATGAT
1 GATGACGACAATGAT
* *
867973 GATGACGACGACGAT
1 GATGACGACAATGAT
* * *
867988 GATGATGGCAATGAA
1 GATGACGACAATGAT
868003 GATG
1 GATG
868007 TTGATGGTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.33, T:0.18
Consensus pattern (15 bp):
GATGACGACAATGAT
Found at i:868168 original size:40 final size:40
Alignment explanation
Indices: 868102--868179 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
868092 CAGTTATGAC
* * *
868102 GGTGCTAATAATTAATGATTGTGATTTTGCATTTTCTGAT
1 GGTGCTAATAATTAACGATTGAGATTTTGCACTTTCTGAT
*
868142 GGTGCTAATAATTGACGA-TGAAGATTTTGCACTTTCTG
1 GGTGCTAATAATTAACGATTG-AGATTTTGCACTTTCTG
868180 TGTCAAGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (40 bp):
GGTGCTAATAATTAACGATTGAGATTTTGCACTTTCTGAT
Found at i:872692 original size:5 final size:5
Alignment explanation
Indices: 872684--872745 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
872674 TAAAATTTTT
* * *
872684 TATTA TATTT TATTA TATTA TAATA TAATTA T-TT- TATTA TATAA TATT-
1 TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
872732 T-TTA TAATTA TATT
1 TATTA T-ATTA TATT
872746 TAATATTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.07
4 6 0.13
5 28 0.62
6 8 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:872720 original size:16 final size:16
Alignment explanation
Indices: 872695--872739 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
872685 ATTATATTTT
*
872695 ATTATATTATAATATA
1 ATTATTTTATAATATA
*
872711 ATTATTTTATTATATA
1 ATTATTTTATAATATA
872727 A-TATTTTTATAAT
1 ATTA-TTTTATAAT
872740 TATATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTTTATAATATA
Found at i:872724 original size:14 final size:15
Alignment explanation
Indices: 872695--872747 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
872685 ATTATATTTT
*
872695 ATTATATTATAATATA
1 ATTATATT-TATTATA
872711 ATTAT-TTTATTAT-
1 ATTATATTTATTATA
*
872724 ATAATATTT-TTATA
1 ATTATATTTATTATA
872738 ATTATATTTA
1 ATTATATTTA
872748 ATATTATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.26
14 16 0.52
15 2 0.06
16 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATATTTATTATA
Found at i:877051 original size:3 final size:3
Alignment explanation
Indices: 877043--877081 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
877033 GGTTAATCTC
877043 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
877082 AAACAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:877444 original size:12 final size:12
Alignment explanation
Indices: 877402--877456 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
877392 TTTATTTTTA
877402 ATAATAAA-AAT
1 ATAATAAATAAT
*
877413 ATTAAT-ATTAAT
1 A-TAATAAATAAT
877425 ATAA-AAATAAT
1 ATAATAAATAAT
877436 ATAATAAAT-AT
1 ATAATAAATAAT
877447 AATAATAAAT
1 -ATAATAAAT
877457 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 16 0.43
12 21 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:877445 original size:20 final size:20
Alignment explanation
Indices: 877400--877454 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
877390 TATTTATTTT
877400 TAATAATAAAAAT-ATTAATA
1 TAAT-ATAAAAATAATTAATA
877420 TTAATATAAAAATAATATAATA
1 -TAATATAAAAATAAT-TAATA
*
877442 -AATATAATAATAA
1 TAATATAAAAATAA
877455 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 20 0.65
21 6 0.19
22 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATATAAAAATAATTAATA
Found at i:893106 original size:89 final size:90
Alignment explanation
Indices: 892954--893130 Score: 236
Period size: 89 Copynumber: 2.0 Consensus size: 90
892944 CGAATCTCTA
* *
892954 CTGATTTACCCTGCATAAATTTACAAAAATGAAACAATTTTCTATTAGCACAAGAAACCAAACAG
1 CTGATTTACCCTGCATAAATTTACAAAAATGAAACAAGTTTCTATTAGCACAAGAAACCAAACAA
* * *
893019 GTGTTCATAGTATATCCAGAGGCTG
66 GCGTTCATAATATATCCAAAGGCTG
**
893044 CTGATTTACCCTGC-TCAAATTTAC-AAAATGAAACAAAGTTT-TATTAGCACGTG-AACACAAA
1 CTGATTTACCCTGCAT-AAATTTACAAAAATGAAAC-AAGTTTCTATTAGCACAAGAAAC-CAAA
893105 CAAGCGTTCATAATATATCCAAAGGC
63 CAAGCGTTCATAATATATCCAAAGGC
893131 AAGGACATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
88 3 0.04
89 47 0.61
90 27 0.35
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (90 bp):
CTGATTTACCCTGCATAAATTTACAAAAATGAAACAAGTTTCTATTAGCACAAGAAACCAAACAA
GCGTTCATAATATATCCAAAGGCTG
Found at i:895438 original size:15 final size:16
Alignment explanation
Indices: 895406--895439 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
895396 GTAATCATTA
895406 AATATAAATACGTATTT
1 AATATAAATAC-TATTT
895423 AATATAAATA-TATTT
1 AATATAAATACTATTT
895438 AA
1 AA
895440 AAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
AATATAAATACTATTT
Found at i:896647 original size:87 final size:88
Alignment explanation
Indices: 896501--896675 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 88
896491 CATGTTAAAG
896501 TTTGTATTTAATACATTGACAGTGTAAATTTTTAACTCCACAAGCAGAGTTGAGAATCAACCACA
1 TTTGTATTTAATACATTGACAGTGTAAATTTTTAACTCCACAAGCAGAGTTGAGAATCAACCACA
896566 TATCCACC-TTTTTTAAAAAAAA
66 TATCCACCTTTTTTTAAAAAAAA
*
896588 TTTGTATTTGATACATTGACAGTGTAAATTTTTAACTCCACAAGCAGAGTTGAGAATCAACCACA
1 TTTGTATTTAATACATTGACAGTGTAAATTTTTAACTCCACAAGCAGAGTTGAGAATCAACCACA
896653 TATCCACCTTTTTTTAAAAAAAA
66 TATCCACCTTTTTTTAAAAAAAA
896676 AAGTTACATT
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 72 0.84
88 14 0.16
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (88 bp):
TTTGTATTTAATACATTGACAGTGTAAATTTTTAACTCCACAAGCAGAGTTGAGAATCAACCACA
TATCCACCTTTTTTTAAAAAAAA
Found at i:910931 original size:17 final size:17
Alignment explanation
Indices: 910909--910941 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
910899 ATATGGAAAT
910909 GGGGTAAAAGTAAAGAA
1 GGGGTAAAAGTAAAGAA
910926 GGGGTAAAAGTAAAGA
1 GGGGTAAAAGTAAAGA
910942 GAGGTGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (17 bp):
GGGGTAAAAGTAAAGAA
Found at i:911692 original size:6 final size:6
Alignment explanation
Indices: 911681--911722 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
911671 ATGTGTCTTA
* *
911681 TTATAT TTATAT TTATA- TTATAT TTATGT TATATAA TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT T-TATAT TTATAT
911723 ATTACTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 21 0.70
7 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (6 bp):
TTATAT
Found at i:911701 original size:11 final size:11
Alignment explanation
Indices: 911681--911714 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
911671 ATGTGTCTTA
911681 TTATATTTATAT
1 TTATA-TTATAT
911693 TTATATTATAT
1 TTATATTATAT
*
911704 TTATGTTATAT
1 TTATATTATAT
911715 AATTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATATTATAT
Found at i:911701 original size:17 final size:18
Alignment explanation
Indices: 911679--911722 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
911669 GTATGTGTCT
911679 TATTATATTTATATT-TA
1 TATTATATTTATATTATA
*
911696 TATTATATTTATGTTATA
1 TATTATATTTATATTATA
911714 TAATTATAT
1 T-ATTATAT
911723 ATTACTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
18 3 0.12
19 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATATTTATATTATA
Found at i:911920 original size:2 final size:2
Alignment explanation
Indices: 911913--911947 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
911903 TTTAGACTGC
911913 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
911948 CAACTAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:912700 original size:25 final size:26
Alignment explanation
Indices: 912659--912720 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 26
912649 ATATGGCTTC
* *
912659 TAAATATATA-TATATATATATAT-T
1 TAAATATATATTAAAAATATATATAT
*
912683 TAAA-ATA-ATTAAAAATATTTATAT
1 TAAATATATATTAAAAATATATATAT
912707 TAAATATATATTAA
1 TAAATATATATTAA
912721 TATTTTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 13 0.42
24 9 0.29
25 3 0.10
26 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAATATATATTAAAAATATATATAT
Found at i:918114 original size:16 final size:17
Alignment explanation
Indices: 918093--918125 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
918083 ATGCATCAAT
918093 TAGATAA-TAAAAAAAC
1 TAGATAACTAAAAAAAC
*
918109 TAGATAACTATAAAAAC
1 TAGATAACTAAAAAAAC
918126 AATAATTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (17 bp):
TAGATAACTAAAAAAAC
Found at i:919238 original size:9 final size:9
Alignment explanation
Indices: 919224--919368 Score: 54
Period size: 9 Copynumber: 16.1 Consensus size: 9
919214 GTACATAGTA
*
919224 ATTATATCT
1 ATTATATTT
919233 ATTATATTT
1 ATTATATTT
919242 A-TATATTTT
1 ATTATA-TTT
919251 ATTATATTAT
1 ATTATATT-T
919261 AATTATA-TT
1 -ATTATATTT
*
919270 A-TAAATATT
1 ATTATAT-TT
919279 -TTATATTT
1 ATTATATTT
*
919287 ATATAAATTTT
1 AT-TATA-TTT
* *
919298 AATATATTA
1 ATTATATTT
* *
919307 ATAATTTTT
1 ATTATATTT
**
919316 ATTATATAA
1 ATTATATTT
* *
919325 ATTTAAAATAT
1 A-TT-ATATTT
*
919336 ATTATTTTT
1 ATTATATTT
919345 ATTATA-TT
1 ATTATATTT
919353 A-TATA--T
1 ATTATATTT
919359 ATTATATTT
1 ATTATATTT
919368 A
1 A
919369 AAATTATCGA
Statistics
Matches: 100, Mismatches: 21, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
6 2 0.02
7 11 0.11
8 10 0.10
9 46 0.46
10 16 0.16
11 15 0.15
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATATTT
Found at i:919253 original size:5 final size:5
Alignment explanation
Indices: 919232--919366 Score: 70
Period size: 5 Copynumber: 27.8 Consensus size: 5
919222 TAATTATATC
* * *
919232 TATTA TATT- TA-TA TATTT TATTA TATTA TAATTA TATTA TAAATA TTTTA
1 TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA T-ATTA TATTA
* * * * * *
919282 TATT- TATATA AATTT TAATA TATTA -ATAA T-TTT TATTA TA-TA AATTTA
1 TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA
* * *
919330 AAATA TATTA T-TTT TATTA TATTA TA-TA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
919367 TAAAATTATC
Statistics
Matches: 96, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
3 1 0.01
4 22 0.23
5 58 0.60
6 15 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:919255 original size:18 final size:17
Alignment explanation
Indices: 919232--919322 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 17
919222 TAATTATATC
919232 TATTATATTTATATATTT
1 TATTATATTTATA-ATTT
*
919250 TATTATA-TTATAATTA
1 TATTATATTTATAATTT
*
919266 TATTATA--AAT-ATTT
1 TATTATATTTATAATTT
919280 TA-TAT-TTATATAAATTT
1 TATTATATT-TAT-AATTT
* *
919297 TAATATATTAATAATTTT
1 TATTATATTTATAA-TTT
919315 TATTATAT
1 TATTATAT
919323 AAATTTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 4 0.07
16 10 0.17
17 13 0.22
18 22 0.37
19 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATATTTATAATTT
Found at i:919267 original size:11 final size:11
Alignment explanation
Indices: 919232--919290 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
919222 TAATTATATC
*
919232 TATTATATTTA
1 TATTATAATTA
* *
919243 TATATTTTATTA
1 TAT-TATAATTA
919255 TATTATAATTA
1 TATTATAATTA
*
919266 TATTATAAATA
1 TATTATAATTA
* *
919277 TTTTATATTTA
1 TATTATAATTA
919288 TAT
1 TAT
919291 AAATTTTAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 29 0.78
12 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATAATTA
Found at i:919286 original size:45 final size:45
Alignment explanation
Indices: 919234--919365 Score: 137
Period size: 47 Copynumber: 2.9 Consensus size: 45
919224 ATTATATCTA
919234 TTATATTTATATATTTTATTATATTATAATTATATTATA-AATATT
1 TTATATTTATATATTTTATTATATTATAATTATATTATATAA-ATT
* *
919279 TTATATTTATATAAATTTTAATATATTAATAATTTTTATTATATAAATT
1 TTATATTTATAT--ATTTTATTATATT-ATAA-TTATATTATATAAATT
* * *
919328 TAAAATATAT-TATTTTTATTATATTAT-A-TATATTATAT
1 TTATATTTATATA-TTTTATTATATTATAATTATATTATAT
919366 TTAAAATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
43 9 0.12
45 13 0.18
46 3 0.04
47 23 0.31
48 5 0.07
49 19 0.26
50 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (45 bp):
TTATATTTATATATTTTATTATATTATAATTATATTATATAAATT
Found at i:919342 original size:29 final size:32
Alignment explanation
Indices: 919275--919351 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 32
919265 ATATTATAAA
*
919275 TATTTTATATTTATATAAATTTTAATATATTAAT
1 TATTTT-TA-TTATATAAATTTTAAAATATTAAT
*
919309 AATTTTTATTATATAAA-TTTAAAATA-T-AT
1 TATTTTTATTATATAAATTTTAAAATATTAAT
919338 TATTTTTATTATAT
1 TATTTTTATTATAT
919352 TATATATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 15 0.38
30 1 0.03
31 8 0.20
32 9 0.22
33 2 0.05
34 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TATTTTTATTATATAAATTTTAAAATATTAAT
Found at i:919350 original size:14 final size:14
Alignment explanation
Indices: 919232--919366 Score: 73
Period size: 14 Copynumber: 9.6 Consensus size: 14
919222 TAATTATATC
*
919232 TATTATATT-TATA
1 TATTATATTATTTA
*
919245 TATTTTATTATATTA
1 TATTATATTAT-TTA
**
919260 TAATTATATTATAAA
1 T-ATTATATTATTTA
*
919275 TATTTTA-TATTTA
1 TATTATATTATTTA
*
919288 TA-TAAATT-TTAATA
1 TATTATATTATT--TA
* *
919302 TATTA-ATAATTTT
1 TATTATATTATTTA
*
919315 TATTATATAAATTTA
1 TATTATAT-TATTTA
* * *
919330 AAATATATTATTTT
1 TATTATATTATTTA
*
919344 TATTATATTATATA
1 TATTATATTATTTA
919358 TATTATATT
1 TATTATATT
919367 TAAAATTATC
Statistics
Matches: 91, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
12 4 0.04
13 21 0.23
14 37 0.41
15 20 0.22
16 9 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATATTATTTA
Found at i:920054 original size:55 final size:55
Alignment explanation
Indices: 919994--920098 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
919984 GTCAAACGTA
919994 AGATATTTTTGCTTCAATTGTGTATGGATAAATATACATATATATATATATGCAT
1 AGATATTTTTGCTTCAATTGTGTATGGATAAATATACATATATATATATATGCAT
* *
920049 AGATATTTTTGTTTCAATTGTGTATGGATAAATATATATATATATATATA
1 AGATATTTTTGCTTCAATTGTGTATGGATAAATATACATATATATATATA
920099 AATATTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (55 bp):
AGATATTTTTGCTTCAATTGTGTATGGATAAATATACATATATATATATATGCAT
Found at i:920881 original size:2 final size:2
Alignment explanation
Indices: 920874--920924 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
920864 TTGATTGAAT
* * *
920874 TA TA TA TA TA TA TA TG TA TG TG 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
920916 TA TA TA TA T
1 TA TA TA TA T
920925 CATGCGTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:922454 original size:14 final size:14
Alignment explanation
Indices: 922435--922465 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
922425 TTTAATAAAT
922435 ATAAAAATAATATA
1 ATAAAAATAATATA
*
922449 ATAAAAATTATATA
1 ATAAAAATAATATA
922463 ATA
1 ATA
922466 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAATAATATA
Found at i:922482 original size:16 final size:18
Alignment explanation
Indices: 922441--922485 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
922431 AAATATAAAA
*
922441 ATAATATAATAAAAATTAT
1 ATAATAT-ATTAAAATTAT
922460 ATAATATATTAAAATT-T
1 ATAATATATTAAAATTAT
922477 -TAATATATT
1 ATAATATATT
922486 TAATAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 8 0.32
19 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATATATTAAAATTAT
Found at i:924733 original size:2 final size:2
Alignment explanation
Indices: 924728--924757 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
924718 GCCAAATGTG
*
924728 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
924758 TAAACAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:925462 original size:16 final size:17
Alignment explanation
Indices: 925432--925464 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
925422 AATATGAATT
925432 ATTAAATATTTAAAAAA
1 ATTAAATATTTAAAAAA
925449 ATTAAATA-TTAAAAAA
1 ATTAAATATTTAAAAAA
925465 TTTTGTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAATATTTAAAAAA
Found at i:927650 original size:2 final size:2
Alignment explanation
Indices: 927643--927693 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
927633 CATACACGGT
927643 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
927685 TA TA TA TA T
1 TA TA TA TA T
927694 TTAACAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:929408 original size:25 final size:24
Alignment explanation
Indices: 929380--929430 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
929370 TTAAATATAT
929380 ATTTAGATATAATTATAAAAATAAA
1 ATTTAGA-ATAATTATAAAAATAAA
** * *
929405 ATTTTTAATAATTTTAAAAATTAA
1 ATTTAGAATAATTATAAAAATAAA
929429 AT
1 AT
929431 ATATATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTTAGAATAATTATAAAAATAAA
Found at i:937427 original size:2 final size:2
Alignment explanation
Indices: 937420--937460 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
937410 GCATAACTCT
937420 TA TA 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 TA TA T
937461 CTTTATTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:943024 original size:23 final size:24
Alignment explanation
Indices: 942972--943022 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
942962 AAAAACTTTA
942972 AAAATAATTAAAAATATTCATAAC
1 AAAATAATTAAAAATATTCATAAC
942996 AAAATAATTAAAAATATTCATAAC
1 AAAATAATTAAAAATATTCATAAC
943020 AAA
1 AAA
943023 TATATATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATAATTAAAAATATTCATAAC
Found at i:951415 original size:22 final size:21
Alignment explanation
Indices: 951369--951447 Score: 51
Period size: 22 Copynumber: 3.8 Consensus size: 21
951359 TTTAAAAGTT
* *
951369 ATTAAATATAATAATATATTT
1 ATTAAATATAAAAATATATTA
951390 ATTAATATAGTAAAAAT-TATTA
1 ATTAA-ATA-TAAAAATATATTA
* *
951412 ATTATATTTTAAATAAT-T-TTA
1 ATTA-AATATAAA-AATATATTA
951433 A--AAATATAAAAATAT
1 ATTAAATATAAAAATAT
951448 TTGTTGATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 3 0.06
18 7 0.15
19 1 0.02
21 13 0.28
22 16 0.34
23 7 0.15
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (21 bp):
ATTAAATATAAAAATATATTA
Found at i:951896 original size:15 final size:15
Alignment explanation
Indices: 951876--951904 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
951866 TACCCCGCAC
951876 CTTCCCTTCCTGTCG
1 CTTCCCTTCCTGTCG
951891 CTTCCCTTCCTGTC
1 CTTCCCTTCCTGTC
951905 CATGGATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.10, T:0.41
Consensus pattern (15 bp):
CTTCCCTTCCTGTCG
Found at i:953336 original size:16 final size:15
Alignment explanation
Indices: 953299--953345 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
953289 AATTATTATA
953299 AAATTAAATTTAAAT
1 AAATTAAATTTAAAT
** *
953314 AGTTTAAGTTTTAAAT
1 AAATTAA-ATTTAAAT
953330 AAATTAAATTTAAAT
1 AAATTAAATTTAAAT
953345 A
1 A
953346 TTTAATTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (15 bp):
AAATTAAATTTAAAT
Found at i:955759 original size:15 final size:14
Alignment explanation
Indices: 955739--955784 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
955729 ATTTTGATTC
955739 AAATTTATTTAATTT
1 AAATTTATTT-ATTT
955754 AAATTTATTTGATTT
1 AAATTTATTT-ATTT
*
955769 GAA-TTA-TTATTT
1 AAATTTATTTATTT
955781 AAAT
1 AAAT
955785 AATAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 6 0.22
13 2 0.07
14 3 0.11
15 16 0.59
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
AAATTTATTTATTT
Found at i:955825 original size:13 final size:12
Alignment explanation
Indices: 955801--955856 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
955791 AATATTTTTT
955801 ATTTAAAT-TTA
1 ATTTAAATATTA
955812 ATTATAAATATTA
1 ATT-TAAATATTA
*
955825 ATGTAAAATATT-
1 AT-TTAAATATTA
*
955837 -TTTTAATATTA
1 ATTTAAATATTA
955848 ATTTAAATA
1 ATTTAAATA
955857 ATAAAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 12 0.33
13 12 0.33
14 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
ATTTAAATATTA
Found at i:963613 original size:30 final size:29
Alignment explanation
Indices: 963549--963618 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
963539 AGATAGAAAT
963549 TTTTAAATATTTAATTTAATATATGAATTTA
1 TTTT-AAT-TTTAATTTAATATATGAATTTA
*
963580 TTTTGATTTTAATTTAAATAATATGAA-TTA
1 TTTTAATTTTAATTT-AAT-ATATGAATTTA
963610 TTTTAATTT
1 TTTTAATTT
963619 ATTATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 8 0.23
30 16 0.46
31 11 0.31
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTAATTTTAATTTAATATATGAATTTA
Found at i:963619 original size:29 final size:29
Alignment explanation
Indices: 963557--963619 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
963547 ATTTTTAAAT
963557 ATTTAATTTAATATATGAATTTATTTTGA
1 ATTTAATTTAATATATGAATTTATTTTGA
*
963586 TTTTAATTTAAATAATATGAA-TTATTTT-A
1 ATTTAATTT-AAT-ATATGAATTTATTTTGA
963615 ATTTA
1 ATTTA
963620 TTATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 13 0.43
30 10 0.33
31 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (29 bp):
ATTTAATTTAATATATGAATTTATTTTGA
Found at i:963943 original size:15 final size:16
Alignment explanation
Indices: 963917--963963 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
963907 GTAAAAATAT
963917 TAAATTT-A-ATTTAA
1 TAAATTTAATATTTAA
* *
963931 TTAA-TTAATATTTTA
1 TAAATTTAATATTTAA
963946 TAAATTTAATATTTAA
1 TAAATTTAATATTTAA
963962 TA
1 TA
963964 TTTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.08
14 4 0.15
15 8 0.31
16 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTTAATATTTAA
Found at i:963965 original size:23 final size:23
Alignment explanation
Indices: 963924--963970 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
963914 TATTAAATTT
963924 AATTTAATTAATTAATATTTTATA
1 AATTTAATTAATTAATA-TTTATA
*
963948 AATTTAA-TATTTAATATTTATA
1 AATTTAATTAATTAATATTTATA
963970 A
1 A
963971 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTAATTAATTAATATTTATA
Found at i:964595 original size:24 final size:23
Alignment explanation
Indices: 964552--964596 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
964542 CAGCCTCATT
964552 TATATTAATTTTTATATTATAAC
1 TATATTAATTTTTATATTATAAC
964575 TATATTTAATATTTTAT-TTATA
1 TATA-TTAAT-TTTTATATTATA
964597 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTAATTTTTATATTATAAC
Found at i:964605 original size:23 final size:26
Alignment explanation
Indices: 964579--964627 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
964569 TATAACTATA
964579 TTTAATAT-TT-T-ATTTATATAAAT
1 TTTAATATATTATAATTTATATAAAT
964602 TTTAATATATTAATAATTTATATAAA
1 TTTAATATATT-ATAATTTATATAAA
964628 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 2 0.09
26 1 0.05
27 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTAATATATTATAATTTATATAAAT
Found at i:965081 original size:14 final size:14
Alignment explanation
Indices: 965062--965095 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
965052 TTTATAAATA
*
965062 TTAATTAAATTTAT
1 TTAATTAAATTAAT
*
965076 TTAATTATATTAAT
1 TTAATTAAATTAAT
965090 TTAATT
1 TTAATT
965096 TTTATTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATTAAATTAAT
Found at i:972748 original size:13 final size:13
Alignment explanation
Indices: 972732--972762 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
972722 TTTAAAAAAT
972732 ATATTAAATATAA
1 ATATTAAATATAA
*
972745 ATATAAAATATAA
1 ATATTAAATATAA
972758 ATATT
1 ATATT
972763 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:972926 original size:2 final size:2
Alignment explanation
Indices: 972913--972954 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
972903 CATTAAATTT
* * *
972913 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TG TA AA 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
972955 CTGCTACCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:973867 original size:28 final size:29
Alignment explanation
Indices: 973804--973867 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
973794 TCTCATTCTG
* *
973804 AAAGAAATAAATCAATAAACCAATTTTAT
1 AAAGAAATAAATAAATAAACCAATTTTAA
*
973833 AAA-AAATAAA-AAATAAA-CGATCTTTAA
1 AAAGAAATAAATAAATAAACCAAT-TTTAA
973860 AAAGAAAT
1 AAAGAAAT
973868 CCCAATAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.10
27 13 0.43
28 11 0.37
29 3 0.10
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (29 bp):
AAAGAAATAAATAAATAAACCAATTTTAA
Found at i:974958 original size:3 final size:3
Alignment explanation
Indices: 974950--974988 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
974940 GTCCACCTTT
*
974950 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
974989 CATTTTAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:975276 original size:39 final size:42
Alignment explanation
Indices: 975223--975339 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 42
975213 ATTTTTATCG
*
975223 ATTCATTAAGTAAATGATTATCATATATTTATATTATTTA--
1 ATTCATTAAATAAATGATTATCATATATTTATATTATTTATT
* *
975263 ATT--TTATAATAAATGATTATCATA-A-TAAAATT-TTTATT
1 ATTCATTA-AATAAATGATTATCATATATTTATATTATTTATT
*
975301 GATTCATTAAATAAATAATTATCATATATTTATATTATT
1 -ATTCATTAAATAAATGATTATCATATATTTATATTATT
975340 CGATTGAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
36 4 0.06
37 5 0.08
38 4 0.06
39 19 0.31
40 19 0.31
41 4 0.06
42 5 0.08
43 2 0.03
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (42 bp):
ATTCATTAAATAAATGATTATCATATATTTATATTATTTATT
Found at i:975314 original size:40 final size:38
Alignment explanation
Indices: 975211--975352 Score: 116
Period size: 36 Copynumber: 3.7 Consensus size: 38
975201 ATTTAAAATT
* *
975211 TAATTTTTATCGATTCATTAAGTAAATGATTATCAT-A
1 TAATTTTTATTGATTCATTAAATAAATGATTATCATAA
* *
975248 T-ATTTATATT-ATTTAATTTTATAATAAATGATTATCATAA
1 TAATTTTTATTGA-TTCA--TTA-AATAAATGATTATCATAA
*
975288 TAAAATTTTTATTGATTCATTAAATAAATAATTATCAT-A
1 T--AATTTTTATTGATTCATTAAATAAATGATTATCATAA
* *
975327 T-ATTTATATT-ATTCGATTGAATAAAT
1 TAATTTTTATTGATTC-ATTAAATAAAT
975353 TTTCAACTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
35 5 0.06
36 28 0.33
37 1 0.01
38 3 0.03
39 17 0.20
40 17 0.20
41 3 0.03
43 11 0.13
44 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (38 bp):
TAATTTTTATTGATTCATTAAATAAATGATTATCATAA
Found at i:977236 original size:25 final size:26
Alignment explanation
Indices: 977208--977292 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
977198 TTAAATTACG
977208 TATATAAATT-TTAATCTTAATAGTT
1 TATATAAATTCTTAATCTTAATAGTT
***
977233 TATATAATAATTCTTAAGAGATAATA-TT
1 TATAT-A-AATTCTTAA-TCTTAATAGTT
* *
977261 TA-ATAAATTCATAATTTTAATAGTT
1 TATATAAATTCTTAATCTTAATAGTT
977286 TATATAA
1 TATATAA
977293 TAATTTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
24 5 0.11
25 17 0.36
26 6 0.13
27 6 0.13
28 8 0.17
29 5 0.11
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (26 bp):
TATATAAATTCTTAATCTTAATAGTT
Found at i:977290 original size:53 final size:53
Alignment explanation
Indices: 977211--977326 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 53
977201 AATTACGTAT
* * *
977211 ATAAATT-TTAATCTTAATAGTTTATATAATAATTCTTAAGAGATAATATTTA
1 ATAAATTCATAATCTTAATAGTTTATATAATAATTCTTAAAAAATAATATTTA
* *
977263 ATAAATTCATAATTTTAATAGTTTATATAATAATTTTTAAAAAATAATATTTA
1 ATAAATTCATAATCTTAATAGTTTATATAATAATTCTTAAAAAATAATATTTA
977316 ATAAATTCATA
1 ATAAATTCATA
977327 TTCAAACCTC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
52 7 0.12
53 51 0.88
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (53 bp):
ATAAATTCATAATCTTAATAGTTTATATAATAATTCTTAAAAAATAATATTTA
Found at i:981935 original size:2 final size:2
Alignment explanation
Indices: 981923--981953 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
981913 TTATAATAAA
981923 AT AT CAT 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
981954 GCAAAGTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:987028 original size:90 final size:90
Alignment explanation
Indices: 986920--987100 Score: 335
Period size: 90 Copynumber: 2.0 Consensus size: 90
986910 TGTCTGGCAA
* *
986920 TTGGGTTTTTGAGTTACTTCCATTGAATTTACATTTTCTACAAGTTTCCATGCAATCCACACAAA
1 TTGGGTTTTTGAGTTACTTCCATTGAATTTACATTTTCTACAAGTTTCCAAGCAACCCACACAAA
986985 TGGGATAAAATCAAGAGATGATATT
66 TGGGATAAAATCAAGAGATGATATT
*
987010 TTGGGTTTTTGAGTTACTTCCATTGAATTTACATTTTCTACAAGTTTCCAAGCAACCCACACGAA
1 TTGGGTTTTTGAGTTACTTCCATTGAATTTACATTTTCTACAAGTTTCCAAGCAACCCACACAAA
987075 TGGGATAAAATCAAGAGATGATATT
66 TGGGATAAAATCAAGAGATGATATT
987100 T
1 T
987101 CTTTTCTAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (90 bp):
TTGGGTTTTTGAGTTACTTCCATTGAATTTACATTTTCTACAAGTTTCCAAGCAACCCACACAAA
TGGGATAAAATCAAGAGATGATATT
Found at i:992065 original size:11 final size:10
Alignment explanation
Indices: 992049--992106 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 10
992039 GAGTTTAATA
992049 TTTATAGTATT
1 TTTATA-TATT
992060 TTTATATTATGT
1 TTTATA-TAT-T
992072 TTTAATTATATT
1 TTT-A-TATATT
992084 TTATATTATATT
1 TT-TA-TATATT
992096 TTTATATATT
1 TTTATATATT
992106 T
1 T
992107 AATAAAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
10 7 0.17
11 11 0.26
12 17 0.40
13 5 0.12
14 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTATATATT
Found at i:992085 original size:23 final size:22
Alignment explanation
Indices: 992046--992106 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
992036 GATGAGTTTA
*
992046 ATATTTATAGTAT-TTTTATATT
1 ATATTT-TAATATATTTTATATT
*
992068 ATGTTTTAATTATATTTTATATT
1 ATATTTTAA-TATATTTTATATT
*
992091 ATATTTTTATATATTT
1 ATATTTTAATATATTT
992107 AATAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 15 0.45
23 16 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
ATATTTTAATATATTTTATATT
Found at i:992091 original size:12 final size:12
Alignment explanation
Indices: 992049--992106 Score: 70
Period size: 11 Copynumber: 5.2 Consensus size: 12
992039 GAGTTTAATA
*
992049 TTTATAGTAT-T
1 TTTATATTATAT
*
992060 TTTATATTATGT
1 TTTATATTATAT
992072 TTTA-ATTATAT
1 TTTATATTATAT
992083 TTTATATTATAT
1 TTTATATTATAT
992095 TTT-TA-TATAT
1 TTTATATTATAT
992105 TT
1 TT
992107 AATAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
10 7 0.16
11 21 0.49
12 15 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:992147 original size:22 final size:21
Alignment explanation
Indices: 992099--992147 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 21
992089 TTATATTTTT
*
992099 ATATATT-TAATAAAATTATA
1 ATATATTATAATAAAATAATA
*
992119 AT-T-TTATCATAAAATAATTA
1 ATATATTATAATAAAATAA-TA
992139 ATATATTAT
1 ATATATTAT
992148 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 2 0.09
19 10 0.43
20 6 0.26
21 1 0.04
22 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATATTATAATAAAATAATA
Found at i:992147 original size:30 final size:27
Alignment explanation
Indices: 992086--992180 Score: 72
Period size: 30 Copynumber: 3.4 Consensus size: 27
992076 ATTATATTTT
**
992086 ATATTAT-ATTTTTATATATTTAA-TAA
1 ATATTATAATTTTTATA-AAATAATTAA
992112 A-ATTATAATTTTATCATAAAATAATTAA
1 ATATTATAATTTT-T-ATAAAATAATTAA
**
992140 TATATTATTTAATTTTTATATTATAATTAA
1 -ATATTA--TAATTTTTATAAAATAATTAA
992170 AT-TTATAATTT
1 ATATTATAATTT
992181 AAAATTTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
25 5 0.09
26 12 0.21
27 5 0.09
28 9 0.16
29 3 0.05
30 15 0.26
31 1 0.02
32 7 0.12
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATAATTTTTATAAAATAATTAA
Found at i:992195 original size:24 final size:24
Alignment explanation
Indices: 992168--992214 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
992158 TATTATAATT
992168 AAATTTATAATTTAAAATTTAAAA
1 AAATTTATAATTTAAAATTTAAAA
*
992192 AAATTTATAATTTAATATTTAAA
1 AAATTTATAATTTAAAATTTAAA
992215 TTTTATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTTATAATTTAAAATTTAAAA
Done.