Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 123 of 135
Found at i:37197625 original size:22 final size:22
Alignment explanation
Indices: 37197594--37197653 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
37197584 GAGTTGAAAT
37197594 TAAATTGTAATTTTATGATAATA
1 TAAA-TGTAATTTTATGATAATA
37197617 TAAATGTAATTTTATGATAATA
1 TAAATGTAATTTTATGATAATA
37197639 TAAATGTAATTTTAT
1 TAAATGTAATTTTAT
37197654 TATTTTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (22 bp):
TAAATGTAATTTTATGATAATA
Found at i:37197725 original size:30 final size:32
Alignment explanation
Indices: 37197671--37197735 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
37197661 ATAGCTTATA
37197671 TTTTTATAATTTTTAAATAATTAAA-T-TAAT
1 TTTTTATAATTTTTAAATAATTAAAGTGTAAT
* *
37197701 TTTTTATCATTTTTAAGAT-TTTAAAGTGTAAT
1 TTTTTATAATTTTTAA-ATAATTAAAGTGTAAT
37197733 TTT
1 TTT
37197736 AATTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 20 0.67
31 3 0.10
32 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (32 bp):
TTTTTATAATTTTTAAATAATTAAAGTGTAAT
Found at i:37197757 original size:16 final size:15
Alignment explanation
Indices: 37197729--37197768 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
37197719 TTTTAAAGTG
37197729 TAATTTTAATTTTAT
1 TAATTTTAATTTTAT
*
37197744 TAATTTTGAATTTTAA
1 TAATTTT-AATTTTAT
*
37197760 AAATTTTAA
1 TAATTTTAA
37197769 AAATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TAATTTTAATTTTAT
Found at i:37204782 original size:35 final size:35
Alignment explanation
Indices: 37204736--37204851 Score: 232
Period size: 35 Copynumber: 3.3 Consensus size: 35
37204726 GATTATACAA
37204736 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
1 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
37204771 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
1 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
37204806 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
1 ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
37204841 ACACAGCCCTG
1 ACACAGCCCTG
37204852 GTTGCTTACT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 81 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (35 bp):
ACACAGCCCTGTATTAAAGCATTATAAGTGCAATT
Found at i:37211668 original size:7 final size:7
Alignment explanation
Indices: 37211656--37211690 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
37211646 TTCAATAAAC
37211656 TTATATT
1 TTATATT
37211663 TTATATT
1 TTATATT
*
37211670 TTTTATT
1 TTATATT
37211677 TTATATT
1 TTATATT
*
37211684 TTTTATT
1 TTATATT
37211691 ATTAGGATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATATT
Found at i:37211678 original size:14 final size:14
Alignment explanation
Indices: 37211659--37211690 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37211649 AATAAACTTA
37211659 TATTTTATATTTTT
1 TATTTTATATTTTT
37211673 TATTTTATATTTTT
1 TATTTTATATTTTT
37211687 TATT
1 TATT
37211691 ATTAGGATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTATATTTTT
Found at i:37216222 original size:29 final size:30
Alignment explanation
Indices: 37216179--37216341 Score: 172
Period size: 29 Copynumber: 5.5 Consensus size: 30
37216169 ATCCGGGGGT
*
37216179 AAAATGATAATTTTTGGAAGTTTCGAGGTTA
1 AAAATG-TAATTTTTGAAAGTTTCGAGGTTA
* * *
37216210 AAAATGGAATTTTTGAAAGTTT-GGGGGTA
1 AAAATGTAATTTTTGAAAGTTTCGAGGTTA
* * **
37216239 AAAATGTAATTTTTGGAAGTTTCTAGG-GC
1 AAAATGTAATTTTTGAAAGTTTCGAGGTTA
* *
37216268 AAAATGTAATTTTTGAAAGTTTCAAGGTCA
1 AAAATGTAATTTTTGAAAGTTTCGAGGTTA
*
37216298 AAAATGTAATTTTTGAAAG-TTCGGGGGTT-
1 AAAATGTAATTTTTGAAAGTTTC-GAGGTTA
*
37216327 AAAATATAATTTTTG
1 AAAATGTAATTTTTG
37216342 GGTAGTTTAG
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
29 67 0.60
30 38 0.34
31 6 0.05
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAGTTTCGAGGTTA
Found at i:37216252 original size:88 final size:87
Alignment explanation
Indices: 37216160--37216342 Score: 233
Period size: 88 Copynumber: 2.1 Consensus size: 87
37216150 AAAAACGGGG
* * * * *
37216160 TTTTTGGACA-TCCGGGGGTAAAATGATAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTT
1 TTTTTGGA-AGTCCGAGGGCAAAATG-TAATTTTTGAAAGTTTCAAGGTCAAAAATGGAATTTTT
* *
37216224 GAAAGTTTGGGGGTAAAAATGTAA
64 GAAAGTTCGGGGGTAAAAATATAA
* * *
37216248 TTTTTGGAAGTTTCTAGGGCAAAATGTAATTTTTGAAAGTTTCAAGGTCAAAAATGTAATTTTTG
1 TTTTTGGAAG-TCCGAGGGCAAAATGTAATTTTTGAAAGTTTCAAGGTCAAAAATGGAATTTTTG
*
37216313 AAAGTTCGGGGGTTAAAATATAA
65 AAAGTTCGGGGGTAAAAATATAA
37216336 TTTTTGG
1 TTTTTGG
37216343 GTAGTTTAGG
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 1 0.01
88 70 0.85
89 11 0.13
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (87 bp):
TTTTTGGAAGTCCGAGGGCAAAATGTAATTTTTGAAAGTTTCAAGGTCAAAAATGGAATTTTTGA
AAGTTCGGGGGTAAAAATATAA
Found at i:37216331 original size:59 final size:58
Alignment explanation
Indices: 37216179--37216341 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 58
37216169 ATCCGGGGGT
* * ***
37216179 AAAATGATAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGAAAGTTTGGGGGTA
1 AAAATG-TAATTTTTGGAAGTTTCGGGGTT-AAAATGTAATTTTTGAAAGTTTCAAGGTA
* *
37216239 AAAATGTAATTTTTGGAAGTTTCTAGGG-CAAAATGTAATTTTTGAAAGTTTCAAGGTCA
1 AAAATGTAATTTTTGGAAGTTTC-GGGGTTAAAATGTAATTTTTGAAAGTTTCAAGGT-A
* *
37216298 AAAATGTAATTTTTGAAAG-TTCGGGGGTTAAAATATAATTTTTG
1 AAAATGTAATTTTTGGAAGTTTC-GGGGTTAAAATGTAATTTTTG
37216342 GGTAGTTTAG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 30 0.34
59 50 0.57
60 8 0.09
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTCGGGGTTAAAATGTAATTTTTGAAAGTTTCAAGGTA
Found at i:37218094 original size:11 final size:12
Alignment explanation
Indices: 37218069--37218093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37218059 ATATACCTTC
37218069 AATTGGTAAAAA
1 AATTGGTAAAAA
37218081 AATTGGTAAAAA
1 AATTGGTAAAAA
37218093 A
1 A
37218094 TATATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AATTGGTAAAAA
Found at i:37221033 original size:206 final size:207
Alignment explanation
Indices: 37220674--37221077 Score: 675
Period size: 206 Copynumber: 2.0 Consensus size: 207
37220664 GATGATGCCT
37220674 ACTCGACGCTCGATACGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGT
1 ACTCGACGCTCGATACGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGT
*
37220739 CGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATATAAAGAAGTGAACCAAATCCGTCTTCCTAA
66 CGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACAAAGAAGTGAACCAAATCCGTCTTCCTAA
* *
37220804 TAAAACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGA
131 TAAAACACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGA
37220869 AGAACAAATCAA
196 AGAACAAATCAA
* * *
37220881 ACTC-ACGCTCGATATGAGTAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGT
1 ACTCGACGCTCGATACGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGT
* * * ** *
37220945 CGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTGAATCAAATCCGTTTTTTTGA
66 CGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACAAAGAAGTGAACCAAATCCGTCTTCCTAA
* *
37221010 TGAAACACAAAGAAGTGGATCAAAACAAGTGATGCGGTTATCTTCCTGATGAGATACTGAGAAGA
131 TAAAACACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGA
37221075 AGA
196 AGA
37221078 CCGAGTTAAT
Statistics
Matches: 183, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
206 179 0.98
207 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (207 bp):
ACTCGACGCTCGATACGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGT
CGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACAAAGAAGTGAACCAAATCCGTCTTCCTAA
TAAAACACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGA
AGAACAAATCAA
Found at i:37221455 original size:17 final size:17
Alignment explanation
Indices: 37221408--37221483 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
37221398 CCCAAACCAT
*
37221408 TTTAAATTTACTTTGAAA
1 TTTAAATTTA-TTTTAAA
37221426 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
37221442 TTTAAATTTATTTTTAA
1 TTTAAATTTATTTTAAA
* *
37221459 TTTAAGTTTGAATTT-AA
1 TTTAAATTT-ATTTTAAA
37221476 TTTAAATT
1 TTTAAATT
37221484 CAATATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.12
17 41 0.80
18 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:37221462 original size:23 final size:23
Alignment explanation
Indices: 37221426--37221483 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
37221416 TACTTTGAAA
* *
37221426 TTAAATTTATTTTAAATTTAAAT
1 TTAATTTTAATTTAAATTTAAAT
* * *
37221449 TTATTTTTAATTTAAGTTTGAAT
1 TTAATTTTAATTTAAATTTAAAT
*
37221472 TTAATTTAAATT
1 TTAATTTTAATT
37221484 CAATATTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (23 bp):
TTAATTTTAATTTAAATTTAAAT
Found at i:37222130 original size:21 final size:23
Alignment explanation
Indices: 37222097--37222140 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
37222087 GGTTTGCATC
*
37222097 CTCTATGTACATT-TATTAATAT
1 CTCTATGTACATTAAATTAATAT
*
37222119 CTCT-TGTTCATTAAATTAATAT
1 CTCTATGTACATTAAATTAATAT
37222141 TTGTCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.50
Consensus pattern (23 bp):
CTCTATGTACATTAAATTAATAT
Found at i:37225740 original size:16 final size:16
Alignment explanation
Indices: 37225698--37225747 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
37225688 GCAGACGAAA
*
37225698 TTAATTTAAAA-TT-T
1 TTAATTAAAAATTTAT
37225712 TTAATTAATAAAATTTAT
1 TTAATT-A-AAAATTTAT
*
37225730 TTAATTAAAAATCTAT
1 TTAATTAAAAATTTAT
37225746 TT
1 TT
37225748 TCGTCCCAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.20
16 14 0.47
17 3 0.10
18 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTAAAAATTTAT
Found at i:37228882 original size:6 final size:6
Alignment explanation
Indices: 37228873--37228908 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
37228863 TCCATTTCTC
* *
37228873 CATTTT CATTTT CATTTT CATTTT TATTTT TATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
37228909 GAAAAAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (6 bp):
CATTTT
Found at i:37233939 original size:15 final size:15
Alignment explanation
Indices: 37233908--37233941 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37233898 TAAATTTTAA
*
37233908 ATATTTTTTATAAAT
1 ATATTTTTTACAAAT
*
37233923 ATATTTTTTACATAT
1 ATATTTTTTACAAAT
37233938 ATAT
1 ATAT
37233942 ATGTTCATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTTTTACAAAT
Found at i:37234190 original size:20 final size:20
Alignment explanation
Indices: 37234161--37234211 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
37234151 ATTAAAATAC
*
37234161 TTTT-AATTTTTTTATAAAA
1 TTTTCAATTTTTATATAAAA
**
37234180 TTTTCAATTTTTATATATTA
1 TTTTCAATTTTTATATAAAA
*
37234200 TTTTCACTTTTT
1 TTTTCAATTTTT
37234212 CAAATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCAATTTTTATATAAAA
Found at i:37234220 original size:20 final size:20
Alignment explanation
Indices: 37234179--37234220 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
37234169 TTTTTATAAA
*
37234179 ATTTTCAATTTTTATATATT
1 ATTTTCAATTTTTAAATATT
*
37234199 ATTTTCACTTTTTCAAAT-TT
1 ATTTTCAATTTTT-AAATATT
37234219 AT
1 AT
37234221 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTCAATTTTTAAATATT
Found at i:37234231 original size:21 final size:22
Alignment explanation
Indices: 37234207--37234254 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
37234197 TTATTTTCAC
* *
37234207 TTTTTCAAA-TTTAT-ATATAT
1 TTTTTAAAATTTTATAAAATAT
37234227 TTTTTAAAATTTTATAAAATAT
1 TTTTTAAAATTTTATAAAATAT
37234249 TTTTTA
1 TTTTTA
37234255 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTAAAATTTTATAAAATAT
Found at i:37234239 original size:29 final size:28
Alignment explanation
Indices: 37234168--37234239 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
37234158 TACTTTTAAT
* *
37234168 TTTTTTATAAAATTTTCAATTTTTATATA
1 TTTTTTA-AAATTTTTCAATTTATATATA
* *
37234197 TTATTTT-CACTTTTTCAAATTTATATATA
1 TT-TTTTAAAATTTTTC-AATTTATATATA
37234226 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
37234240 ATAAAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
28 10 0.29
29 20 0.59
30 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTTTAAAATTTTTCAATTTATATATA
Found at i:37235455 original size:3 final size:3
Alignment explanation
Indices: 37235447--37235471 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37235437 CATTATATCT
37235447 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
37235472 ACTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37237710 original size:35 final size:35
Alignment explanation
Indices: 37237658--37237724 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
37237648 CTAACGTCTT
* *
37237658 GATTAATCAGGTAATTGAACAGACATCGAGTTCTC
1 GATTAATCAAGTAATTGAACAAACATCGAGTTCTC
* *
37237693 GATTAATCAAGTGATTGATCAAACATCGAGTT
1 GATTAATCAAGTAATTGAACAAACATCGAGTT
37237725 TTTAGTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (35 bp):
GATTAATCAAGTAATTGAACAAACATCGAGTTCTC
Found at i:37237997 original size:16 final size:17
Alignment explanation
Indices: 37237976--37238007 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37237966 TGAAAACATA
37237976 AAAAAAAT-CTAAATTT
1 AAAAAAATACTAAATTT
37237992 AAAAAAATACTAAATT
1 AAAAAAATACTAAATT
37238008 AATTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAATACTAAATTT
Found at i:37243959 original size:6 final size:6
Alignment explanation
Indices: 37243948--37243986 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
37243938 TCATGCATAT
37243948 TCCTGC TCCTGC TCCTGC TCCTGC TCCTGC TCCTGC TCC
1 TCCTGC TCCTGC TCCTGC TCCTGC TCCTGC TCCTGC TCC
37243987 AACTACAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.15, T:0.33
Consensus pattern (6 bp):
TCCTGC
Found at i:37244325 original size:16 final size:16
Alignment explanation
Indices: 37244267--37244325 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
37244257 ATATTTTGAA
37244267 AAATATATAAAAATA-
1 AAATATATAAAAATAT
*
37244282 AAAT-T-TAAAATTTTAT
1 AAATATATAAAA--ATAT
* *
37244298 AAATTTAAAAAAATAT
1 AAATATATAAAAATAT
37244314 AAATATATAAAA
1 AAATATATAAAA
37244326 GAATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 6 0.18
16 17 0.50
17 1 0.03
18 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATATAAAAATAT
Found at i:37244343 original size:43 final size:46
Alignment explanation
Indices: 37244286--37244371 Score: 142
Period size: 43 Copynumber: 1.9 Consensus size: 46
37244276 AAAATAAAAT
*
37244286 TTAAAATTTTATAAATTTA-AAAAA-ATATAAAT-ATATAAAAGAA
1 TTAAAATTTTATAAATTTATAAAAATATATAAATGAGATAAAAGAA
37244329 TTAAAATTTTATAAATTTATAAAAATATATAAATGAGATAAAA
1 TTAAAATTTTATAAATTTATAAAAATATATAAATGAGATAAAA
37244372 TCTCATCTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 19 0.49
44 5 0.13
45 8 0.21
46 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (46 bp):
TTAAAATTTTATAAATTTATAAAAATATATAAATGAGATAAAAGAA
Found at i:37246717 original size:22 final size:22
Alignment explanation
Indices: 37246674--37246717 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37246664 AATTTTTAAA
*
37246674 AAATATTTATATTATATTATTT
1 AAATATTTATATTATATCATTT
*
37246696 AAATATTTA-ATTTTATACATTT
1 AAATATTTATATTATAT-CATTT
37246718 TTTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAATATTTATATTATATCATTT
Found at i:37261877 original size:20 final size:19
Alignment explanation
Indices: 37261831--37261884 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
37261821 TATATTAGTT
*
37261831 TTTTAAATTTTTTAAAAAA
1 TTTTATATTTTTTAAAAAA
*
37261850 TGTTTATATTATTTTAAATAA
1 T-TTTATATT-TTTTAAAAAA
37261871 TTTTATATGTTTTT
1 TTTTATAT-TTTTT
37261885 TTCATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATATTTTTTAAAAAA
Found at i:37261885 original size:21 final size:21
Alignment explanation
Indices: 37261838--37261885 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
37261828 GTTTTTTAAA
37261838 TTTTTTAAAAAATGTTTATAT
1 TTTTTTAAAAAATGTTTATAT
* *
37261859 TATTTTAAATAAT-TTTATAT
1 TTTTTTAAAAAATGTTTATAT
37261879 GTTTTTT
1 -TTTTTT
37261886 TCATTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTTAAAAAATGTTTATAT
Found at i:37262979 original size:3 final size:3
Alignment explanation
Indices: 37262971--37263002 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37262961 GCCTATCAAT
37262971 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
37263003 AGGTTGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:37272760 original size:21 final size:20
Alignment explanation
Indices: 37272715--37272763 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
37272705 AAAAGTTAAT
*
37272715 AAAAAAGTTCAAAAGAATCA
1 AAAAAAGTTCAAAAAAATCA
*
37272735 TAAAAAGTT-AATAAAAATTCA
1 AAAAAAGTTCAA-AAAAA-TCA
37272756 AAAAAAGT
1 AAAAAAGT
37272764 AGTATGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.20
Consensus pattern (20 bp):
AAAAAAGTTCAAAAAAATCA
Found at i:37273373 original size:22 final size:23
Alignment explanation
Indices: 37273331--37273373 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37273321 CCCAACAGGG
*
37273331 TACCCAATAATGAAAACCCCATA
1 TACCCAATAATGAAAAACCCATA
*
37273354 TACCTAATAAT-AAAAACCCA
1 TACCCAATAATGAAAAACCCA
37273374 AATGCCTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (23 bp):
TACCCAATAATGAAAAACCCATA
Found at i:37273944 original size:15 final size:15
Alignment explanation
Indices: 37273897--37273945 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
37273887 TTTGATAAAA
37273897 TGAAAAATTAAATGC
1 TGAAAAATTAAATGC
* * *
37273912 T-AAAAAATAATTAC
1 TGAAAAATTAAATGC
*
37273926 TGAAAAATTAAATGT
1 TGAAAAATTAAATGC
37273941 TGAAA
1 TGAAA
37273946 TTAAGTTATA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (15 bp):
TGAAAAATTAAATGC
Found at i:37275583 original size:30 final size:27
Alignment explanation
Indices: 37275539--37275729 Score: 211
Period size: 27 Copynumber: 6.9 Consensus size: 27
37275529 CTACGGGAAA
*
37275539 AACAACTACTACAACAACAATGGCTAC
1 AACAACAACTACAACAACAATGGCTAC
* *
37275566 ACCACAAGTAAGTACAACAACAATGGCTAC
1 A--ACAA-CAACTACAACAACAATGGCTAC
**
37275596 AAGGACAACTACAACAACAATGGCTAC
1 AACAACAACTACAACAACAATGGCTAC
**
37275623 AATGACAACTACAACAACAATGGCTAC
1 AACAACAACTACAACAACAATGGCTAC
* *
37275650 ACCACAAGTAAGTACAACAACAATGGCTAC
1 A--ACAA-CAACTACAACAACAATGGCTAC
**
37275680 AAGGACAACTACAACAACAATGGCTAC
1 AACAACAACTACAACAACAATGGCTAC
**
37275707 AATGACAACTACAACAACAATGG
1 AACAACAACTACAACAACAATGG
37275730 GTATGAGACA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
27 90 0.64
28 4 0.03
29 6 0.04
30 41 0.29
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (27 bp):
AACAACAACTACAACAACAATGGCTAC
Found at i:37275640 original size:57 final size:54
Alignment explanation
Indices: 37275546--37275729 Score: 224
Period size: 57 Copynumber: 3.3 Consensus size: 54
37275536 AAAAACAACT
* * * *
37275546 ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACA
1 ACTACAACAACAATGGCTACA--ACGA-CAACTACAACAACAATGGCTACAACGACA
* * *
37275603 ACTACAACAACAATGGCTACAATGACAACTACAACAACAATGGCTACACCACAAGTA
1 ACTACAACAACAATGGCTACAACGACAACTACAACAACAATGGCTACA--ACGA-CA
* * *
37275660 AGTACAACAACAATGGCTACAAGGACAACTACAACAACAATGGCTACAATGACA
1 ACTACAACAACAATGGCTACAACGACAACTACAACAACAATGGCTACAACGACA
37275714 ACTACAACAACAATGG
1 ACTACAACAACAATGG
37275730 GTATGAGACA
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
54 37 0.33
55 4 0.04
56 2 0.02
57 68 0.61
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (54 bp):
ACTACAACAACAATGGCTACAACGACAACTACAACAACAATGGCTACAACGACA
Found at i:37275684 original size:84 final size:84
Alignment explanation
Indices: 37275546--37275729 Score: 368
Period size: 84 Copynumber: 2.2 Consensus size: 84
37275536 AAAAACAACT
37275546 ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACAACTACAAC
1 ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACAACTACAAC
37275611 AACAATGGCTACAATGACA
66 AACAATGGCTACAATGACA
37275630 ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACAACTACAAC
1 ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACAACTACAAC
37275695 AACAATGGCTACAATGACA
66 AACAATGGCTACAATGACA
37275714 ACTACAACAACAATGG
1 ACTACAACAACAATGG
37275730 GTATGAGACA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 100 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (84 bp):
ACTACAACAACAATGGCTACACCACAAGTAAGTACAACAACAATGGCTACAAGGACAACTACAAC
AACAATGGCTACAATGACA
Found at i:37277351 original size:18 final size:17
Alignment explanation
Indices: 37277318--37277351 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37277308 GTTTTATTTG
*
37277318 TTTTAATTTTTTAATTA
1 TTTTAATTTGTTAATTA
37277335 TTTTAATTGTGTTAATT
1 TTTTAATT-TGTTAATT
37277352 GTGGGTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTTAATTTGTTAATTA
Found at i:37277354 original size:9 final size:9
Alignment explanation
Indices: 37277307--37277353 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
37277297 TTTTTGTTAG
*
37277307 TGTTTTATT
1 TGTTTTAAT
37277316 TGTTTTAAT
1 TGTTTTAAT
37277325 T-TTTTAAT
1 TGTTTTAAT
*
37277333 TATTTTAAT
1 TGTTTTAAT
*
37277342 TGTGTTAAT
1 TGTTTTAAT
37277351 TGT
1 TGT
37277354 GGGTCTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (9 bp):
TGTTTTAAT
Found at i:37280643 original size:16 final size:17
Alignment explanation
Indices: 37280607--37280646 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
37280597 CCAACCCACC
37280607 GAAAAAGAAAAAAATGA
1 GAAAAAGAAAAAAATGA
37280624 GAAAAAGAAAGAAAA-G-
1 GAAAAAGAAA-AAAATGA
37280640 GAAAAAG
1 GAAAAAG
37280647 GAATGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (17 bp):
GAAAAAGAAAAAAATGA
Found at i:37283502 original size:15 final size:15
Alignment explanation
Indices: 37283482--37283512 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37283472 ATAATATTGA
37283482 TTTTTTTATTT-GTT
1 TTTTTTTATTTAGTT
37283496 TTTTTTTATTTAGTT
1 TTTTTTTATTTAGTT
37283511 TT
1 TT
37283513 CACATAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTTTATTTAGTT
Found at i:37284325 original size:12 final size:12
Alignment explanation
Indices: 37284308--37284335 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37284298 CATGTCCTTT
37284308 GTAAGACAAAAA
1 GTAAGACAAAAA
37284320 GTAAGACAAAAA
1 GTAAGACAAAAA
37284332 GTAA
1 GTAA
37284336 ATTAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (12 bp):
GTAAGACAAAAA
Found at i:37292138 original size:30 final size:30
Alignment explanation
Indices: 37292104--37292164 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
37292094 TAGTGATTTA
37292104 ATATAAATATATATAA-TATTTATT-TAACAT
1 ATATAAATA-ATATAATTATTT-TTATAACAT
*
37292134 ATATAATTAATATAATTATTTTTATAACAT
1 ATATAAATAATATAATTATTTTTATAACAT
37292164 A
1 A
37292165 ATTTATTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATAAATAATATAATTATTTTTATAACAT
Found at i:37292603 original size:6 final size:6
Alignment explanation
Indices: 37292592--37292636 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
37292582 GTATTTACCA
*
37292592 AAAAAT AAAAAT AAAAAT AAAAAT AATATACAT TAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-A-A-AT AAAAAT AAAAAT
37292637 TTATTAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 27 0.79
7 2 0.06
8 2 0.06
9 3 0.09
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:37294001 original size:18 final size:18
Alignment explanation
Indices: 37293980--37294015 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37293970 TTTAAAGTTT
37293980 AAAAACAAATTAAAATTC
1 AAAAACAAATTAAAATTC
37293998 AAAAACAAATTAAAATTC
1 AAAAACAAATTAAAATTC
37294016 GGGCCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAACAAATTAAAATTC
Found at i:37295976 original size:58 final size:59
Alignment explanation
Indices: 37295907--37296040 Score: 216
Period size: 59 Copynumber: 2.3 Consensus size: 59
37295897 AAAAATTGAT
* *
37295907 TTTGGGTTTAGTTTATGAGTG-TTTTTTAATAATGAAATTACATTTGGGTTTAAAAATA
1 TTTGGGTTTAGTTTATGAGTGTTTTTTTAAGAATGAAATTACATTTAGGTTTAAAAATA
* * *
37295965 TTTGAGTTTAGTTTATAAGTGTTTTTTTAAGAATGAAATTATATTTAGGTTTAAAAATA
1 TTTGGGTTTAGTTTATGAGTGTTTTTTTAAGAATGAAATTACATTTAGGTTTAAAAATA
37296024 TTTGGGTTTAGTTTATG
1 TTTGGGTTTAGTTTATG
37296041 GATGAGTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
58 19 0.28
59 49 0.72
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.50
Consensus pattern (59 bp):
TTTGGGTTTAGTTTATGAGTGTTTTTTTAAGAATGAAATTACATTTAGGTTTAAAAATA
Found at i:37303068 original size:22 final size:24
Alignment explanation
Indices: 37303043--37303091 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
37303033 GTATTTAGTT
37303043 TATAATAAT-TT-TTAATTTATCA
1 TATAATAATATTATTAATTTATCA
* *
37303065 TATAATAATATTATTTATTTATGA
1 TATAATAATATTATTAATTTATCA
37303089 TAT
1 TAT
37303092 TAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 2 0.09
24 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATAATAATATTATTAATTTATCA
Found at i:37309043 original size:28 final size:29
Alignment explanation
Indices: 37309007--37309066 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
37308997 TTATATATTT
*
37309007 TTTATAAT-AATTACTTAATTAATAAAATA
1 TTTATAATAAATTA-TAAATTAATAAAATA
*
37309036 TTTA-AATAAATTATAAATTAATAATATA
1 TTTATAATAAATTATAAATTAATAAAATA
37309064 TTT
1 TTT
37309067 TTTAAACTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTATAATAAATTATAAATTAATAAAATA
Found at i:37319939 original size:17 final size:17
Alignment explanation
Indices: 37319917--37319955 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37319907 CTCCACCTTG
*
37319917 ACAAGAATTCTCAACGA
1 ACAAGAACTCTCAACGA
37319934 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
37319951 ACAAG
1 ACAAG
37319956 TTTTCCACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:37325553 original size:21 final size:21
Alignment explanation
Indices: 37325527--37325567 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37325517 ATGTCTTTGG
37325527 AGGTGGTAGTTGCTAATTCAA
1 AGGTGGTAGTTGCTAATTCAA
*
37325548 AGGTGGTAGTTGCTGATTCA
1 AGGTGGTAGTTGCTAATTCA
37325568 GAGGCAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.32, T:0.34
Consensus pattern (21 bp):
AGGTGGTAGTTGCTAATTCAA
Found at i:37328621 original size:41 final size:41
Alignment explanation
Indices: 37328575--37328657 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37328565 GAAATGTGGG
37328575 GCCAAAATAAAGCAATAATAAAAGTGGATTAGTTTGAGCTA
1 GCCAAAATAAAGCAATAATAAAAGTGGATTAGTTTGAGCTA
37328616 GCCAAAATAAAGCAATAATAAAAGTGGATTAGTTTGAGCTA
1 GCCAAAATAAAGCAATAATAAAAGTGGATTAGTTTGAGCTA
37328657 G
1 G
37328658 ACATGGGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (41 bp):
GCCAAAATAAAGCAATAATAAAAGTGGATTAGTTTGAGCTA
Found at i:37329013 original size:24 final size:22
Alignment explanation
Indices: 37328969--37329017 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
37328959 TAAGTGAATT
*
37328969 TATAATTTTAATTGATATCATTA
1 TATAAATTTAATTGATATCA-TA
* *
37328992 TATAAATTTATATTTATGTCATA
1 TATAAATTTA-ATTGATATCATA
37329015 TAT
1 TAT
37329018 TATCATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
TATAAATTTAATTGATATCATA
Found at i:37329718 original size:2 final size:2
Alignment explanation
Indices: 37329711--37329739 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37329701 AATAAGTTTT
37329711 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37329740 GAGATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37329956 original size:13 final size:14
Alignment explanation
Indices: 37329940--37329969 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37329930 GAATTTATGT
37329940 AATGGTTATGTG-A
1 AATGGTTATGTGCA
37329953 AATGGTTATGTGCA
1 AATGGTTATGTGCA
37329967 AAT
1 AAT
37329970 ATGTGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (14 bp):
AATGGTTATGTGCA
Found at i:37330384 original size:85 final size:85
Alignment explanation
Indices: 37330241--37330410 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
37330231 TACGAATTTA
*
37330241 CTAAGCTTTAAGCAAGCTTACCTCGTTTGATTTTCTCCCTTGTAGACCGTCAGATTCGAGCTGTC
1 CTAAGCTTTAAGCAAGCTTACCTCGTTTGATTTTCTCCCTCGTAGACCGTCAGATTCGAGCTGTC
*
37330306 GATTGGATTACTCTTGGAGG
66 GATTGGATTACTCTTAGAGG
37330326 CTAAGCTTTAAGCAAGCTTACCTCGTTTGATTTTCTCCCTCGTAGACCGTCAGATTCGAGCTGTC
1 CTAAGCTTTAAGCAAGCTTACCTCGTTTGATTTTCTCCCTCGTAGACCGTCAGATTCGAGCTGTC
37330391 GATTGGATTACTCTTAGAGG
66 GATTGGATTACTCTTAGAGG
37330411 TTACGCTATC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (85 bp):
CTAAGCTTTAAGCAAGCTTACCTCGTTTGATTTTCTCCCTCGTAGACCGTCAGATTCGAGCTGTC
GATTGGATTACTCTTAGAGG
Found at i:37331191 original size:25 final size:26
Alignment explanation
Indices: 37331140--37331192 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
37331130 ATGTTTCTTG
*
37331140 TTGGTTAAGAATTATTTATATATTTA
1 TTGGTTAAGAATTATTTATATAATTA
37331166 TTGG-TAAGAATTATTTAT-TACATTA
1 TTGGTTAAGAATTATTTATATA-ATTA
37331191 TT
1 TT
37331193 CATACGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.76
26 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (26 bp):
TTGGTTAAGAATTATTTATATAATTA
Found at i:37336821 original size:22 final size:24
Alignment explanation
Indices: 37336796--37336844 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
37336786 GTATTTAGTT
37336796 TATAATAAT-TT-TTAATTTATCA
1 TATAATAATATTATTAATTTATCA
* *
37336818 TATAATAATATTATTTATTTATGA
1 TATAATAATATTATTAATTTATCA
37336842 TAT
1 TAT
37336845 TAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 2 0.09
24 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATAATAATATTATTAATTTATCA
Found at i:37343594 original size:23 final size:23
Alignment explanation
Indices: 37343555--37343614 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
37343545 GATTTAATAT
37343555 TTGTATTTGTATTTTTA-AGAATTTA
1 TTGT-TTT-TATTTTTAGA-AATTTA
37343580 TTGTTTTTATTTTTAGAAATTTA
1 TTGTTTTTATTTTTAGAAATTTA
*
37343603 --ATTTTTATTTTT
1 TTGTTTTTATTTTT
37343615 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.33
23 14 0.42
24 4 0.12
25 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (23 bp):
TTGTTTTTATTTTTAGAAATTTA
Found at i:37343608 original size:22 final size:21
Alignment explanation
Indices: 37343564--37343631 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 21
37343554 TTTGTATTTG
*
37343564 TATTTTTAAGAATTTATTGTTTT
1 TATTTTTAA-AATTTAAT-TTTT
37343587 TATTTTTAGAAATTTAA-TTTT
1 TATTTTTA-AAATTTAATTTTT
*
37343608 TATTTTTTAAAATTAAAATTTTT
1 TA-TTTTTAAAATT-TAATTTTT
37343631 T
1 T
37343632 TATTCAATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 11 0.28
22 8 0.21
23 19 0.49
24 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTTTAAAATTTAATTTTT
Found at i:37343620 original size:21 final size:22
Alignment explanation
Indices: 37343583--37343630 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
37343573 GAATTTATTG
*
37343583 TTTTTATTTTTAGAAATT-TAA
1 TTTTTATTTTTAGAAATTAAAA
37343604 TTTTTATTTTTTA-AAATTAAAA
1 TTTTTA-TTTTTAGAAATTAAAA
37343626 TTTTT
1 TTTTT
37343631 TTATTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTATTTTTAGAAATTAAAA
Found at i:37344916 original size:17 final size:19
Alignment explanation
Indices: 37344894--37344932 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
37344884 ATTTTTCTCT
37344894 TTTTCTCTTTTC-TTTT-C
1 TTTTCTCTTTTCATTTTAC
*
37344911 TTTTCTTTTTTCATTTTAC
1 TTTTCTCTTTTCATTTTAC
37344930 TTT
1 TTT
37344933 ATAATGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTCTTTTCATTTTAC
Found at i:37348810 original size:11 final size:11
Alignment explanation
Indices: 37348786--37348840 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
37348776 TAAAATTATT
* *
37348786 AAATTTTAATA
1 AAATTATAAAA
37348797 AAATTATAAAA
1 AAATTATAAAA
*
37348808 AAA-TAT-TAA
1 AAATTATAAAA
*
37348817 AAATTAGAAAA
1 AAATTATAAAA
37348828 GAAATTATAAAA
1 -AAATTATAAAA
37348840 A
1 A
37348841 TCATAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 5 0.14
10 5 0.14
11 15 0.43
12 10 0.29
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (11 bp):
AAATTATAAAA
Found at i:37348840 original size:30 final size:31
Alignment explanation
Indices: 37348797--37348858 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
37348787 AATTTTAATA
37348797 AAATTATAAAAAAAT-ATTAAAAAT-TAGAAAAG
1 AAATTAT-AAAAAATCA-TAAAAATATA-AAAAG
37348829 AAATTAT-AAAAATCATAAAAATATAAAAAG
1 AAATTATAAAAAATCATAAAAATATAAAAAG
37348859 TTTGTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 18 0.64
31 3 0.11
32 7 0.25
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (31 bp):
AAATTATAAAAAATCATAAAAATATAAAAAG
Found at i:37348841 original size:9 final size:9
Alignment explanation
Indices: 37348752--37348898 Score: 61
Period size: 10 Copynumber: 15.7 Consensus size: 9
37348742 ACATGTGGCA
37348752 AAAAATTAT
1 AAAAATTAT
*
37348761 AAACA--AT
1 AAAAATTAT
*
37348768 AAAAGTTAT
1 AAAAATTAT
37348777 -AAAATTAT
1 AAAAATTAT
* *
37348785 -TAAATTTT
1 AAAAATTAT
37348793 AATAAAATTAT
1 -A-AAAATTAT
*
37348804 AAAAAAATATT
1 -AAAAATTA-T
*
37348815 AAAAATTAGAA
1 AAAAATT--AT
37348826 AAGAAATTAT
1 AA-AAATTAT
*
37348836 AAAAATCAT
1 AAAAATTAT
37348845 AAAAA-TAT
1 AAAAATTAT
*
37348853 AAAAAGTTTGT
1 AAAAA--TTAT
*
37348864 AAAATTTTAT
1 AAAA-ATTAT
*
37348874 AAAAATCAT
1 AAAAATTAT
*
37348883 AAAAATGCAT
1 AAAAAT-TAT
37348893 AAAAAT
1 AAAAAT
37348899 GGTCTTTAAC
Statistics
Matches: 105, Mismatches: 19, Indels: 27
0.70 0.13 0.18
Matches are distributed among these distances:
7 5 0.05
8 20 0.19
9 26 0.25
10 31 0.30
11 17 0.16
12 6 0.06
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37348848 original size:21 final size:20
Alignment explanation
Indices: 37348796--37348849 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
37348786 AAATTTTAAT
37348796 AAAATTATAAAAAAATATTA
1 AAAATTATAAAAAAATATTA
*
37348816 AAAATTAGAAAAGAAAT-TATA
1 AAAATTATAAAA-AAATAT-TA
*
37348837 AAAATCATAAAAA
1 AAAATTATAAAAA
37348850 TATAAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAATTATAAAAAAATATTA
Found at i:37357950 original size:28 final size:27
Alignment explanation
Indices: 37357919--37357971 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
37357909 AATTTGATAT
*
37357919 ATATATTTGTATTTTTTATTTATAATAC
1 ATATATTT-TAGTTTTTATTTATAATAC
*
37357947 ATATATTTTGGTTTTTATTTATAAT
1 ATATATTTTAGTTTTTATTTATAAT
37357972 GTACTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (27 bp):
ATATATTTTAGTTTTTATTTATAATAC
Found at i:37359562 original size:12 final size:11
Alignment explanation
Indices: 37359538--37359571 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
37359528 GTTTTGTTTA
37359538 ATTTGATTTTT
1 ATTTGATTTTT
37359549 ATTTGATTTATT
1 ATTTGATTT-TT
*
37359561 ATTTAATTTTT
1 ATTTGATTTTT
37359572 TTATTTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
ATTTGATTTTT
Found at i:37359657 original size:21 final size:20
Alignment explanation
Indices: 37359631--37359674 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
37359621 ATTTTTAATT
37359631 TAATTTAATTTTGTTAGTAAG
1 TAATTTAATTTTGTTAGT-AG
*
37359652 TAATTTTATTTTGTTAGTAG
1 TAATTTAATTTTGTTAGTAG
37359672 TAA
1 TAA
37359675 GTAAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (20 bp):
TAATTTAATTTTGTTAGTAG
Found at i:37360582 original size:22 final size:22
Alignment explanation
Indices: 37360551--37360603 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
37360541 TTATGTCTAT
37360551 CCCACATAACCTTCTTGAATGA
1 CCCACATAACCTTCTTGAATGA
* *
37360573 CCTACATAACCTTCTTGAATGG
1 CCCACATAACCTTCTTGAATGA
37360595 CCCACATAA
1 CCCACATAA
37360604 GGAACAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.26
Consensus pattern (22 bp):
CCCACATAACCTTCTTGAATGA
Found at i:37361104 original size:25 final size:27
Alignment explanation
Indices: 37361074--37361129 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
37361064 TTACTCTACT
*
37361074 AAATAAAAAAATTAAA-T-AACAAATC
1 AAATAAAAAAATTAAATTCAACAAAAC
37361099 AAAT--AAAAATTAAATTCAACAAAAC
1 AAATAAAAAAATTAAATTCAACAAAAC
37361124 AAATAA
1 AAATAA
37361130 CTTAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 15 0.58
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (27 bp):
AAATAAAAAAATTAAATTCAACAAAAC
Found at i:37361110 original size:23 final size:25
Alignment explanation
Indices: 37361080--37361129 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
37361070 TACTAAATAA
*
37361080 AAAAATTAAA-T-AACAAATCAAAT
1 AAAAATTAAATTCAACAAAACAAAT
37361103 AAAAATTAAATTCAACAAAACAAAT
1 AAAAATTAAATTCAACAAAACAAAT
37361128 AA
1 AA
37361130 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (25 bp):
AAAAATTAAATTCAACAAAACAAAT
Found at i:37363609 original size:96 final size:96
Alignment explanation
Indices: 37363445--37363636 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
37363435 GATTATATGT
37363445 GCTCAAGACAAAGAAAGGTTTGTTCTTTGGGTTTTGAAAATTTTATAAATAGTATCTGAGTTCAA
1 GCTCAAGACAAAGAAAGGTTTGTTCTTTGGGTTTTGAAAATTTTATAAATAGTATCTGAGTTCAA
37363510 TTATGAGTACTTTGGCTCTTATCCTTGTGTA
66 TTATGAGTACTTTGGCTCTTATCCTTGTGTA
37363541 GCTCAAGACAAAGAAAGGTTTGTTCTTTGGGTTTTGAAAATTTTATAAATAGTATCTGAGTTCAA
1 GCTCAAGACAAAGAAAGGTTTGTTCTTTGGGTTTTGAAAATTTTATAAATAGTATCTGAGTTCAA
37363606 TTATGAGTACTTTGGCTCTTATCCTTGTGTA
66 TTATGAGTACTTTGGCTCTTATCCTTGTGTA
37363637 TTTGGTTCCT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (96 bp):
GCTCAAGACAAAGAAAGGTTTGTTCTTTGGGTTTTGAAAATTTTATAAATAGTATCTGAGTTCAA
TTATGAGTACTTTGGCTCTTATCCTTGTGTA
Found at i:37367328 original size:246 final size:248
Alignment explanation
Indices: 37366837--37367334 Score: 964
Period size: 247 Copynumber: 2.0 Consensus size: 248
37366827 GTGGGGTTGT
37366837 TCAAGAACTTTTGAGGTGCCCCTGGGTTGGTTCAAATTGTAAAAAAAAAAAAGAAAAGAAAAAGA
1 TCAAGAACTTTTGAGGTGCCCCTGGGTTGGTTCAAATTGT-AAAAAAAAAAAGAAAAGAAAAAGA
37366902 AATTCTTTGTACCATTAATTTCATTAGACCCCAAAATATGTAAATCTGCATGAAATTATTTATGT
65 AATTCTTTGTACCATTAATTTCATTAGACCCCAAAATATGTAAATCTGCATGAAATTATTTATGT
37366967 ATTTTATTTATCACCATTAATTATGTATTTTAAAATCAATTTTTCTCATTTTTCACTCTCTAATC
130 ATTTTATTTATCACCATTAATTATGTATTTTAAAATCAATTTTTCTCATTTTTCACTCTCTAATC
37367032 AACTTCAATTCTAATAAAAATAAAAAATAACTAAAAAGAAGAAATTAATAATAC
195 AACTTCAATTCTAATAAAAATAAAAAATAACTAAAAAGAAGAAATTAATAATAC
37367086 TCAAGAACTTTTGAGGTGCCCCTGGGTTGGTTCAAATTGT-AAAAAAAAAAGAAAAGAAAAAGAA
1 TCAAGAACTTTTGAGGTGCCCCTGGGTTGGTTCAAATTGTAAAAAAAAAAAGAAAAGAAAAAGAA
37367150 ATTCTTTGTACCATTAATTTCATTAGACCCCAAAATATGTAAATCTGCATGAAATTATTTATGTA
66 ATTCTTTGTACCATTAATTTCATTAGACCCCAAAATATGTAAATCTGCATGAAATTATTTATGTA
37367215 TTTTATTTATCACCATTAATTATGTATTTTAAAATCAATTTTTCTCA-TTTTCACTCTCTAATCA
131 TTTTATTTATCACCATTAATTATGTATTTTAAAATCAATTTTTCTCATTTTTCACTCTCTAATCA
*
37367279 ACTTCAATTCTAATAAAAATAAAAAATAACTGAAAAGAAGAAATTAATAATAC
196 ACTTCAATTCTAATAAAAATAAAAAATAACTAAAAAGAAGAAATTAATAATAC
37367332 TCA
1 TCA
37367335 TTCGCATCTA
Statistics
Matches: 248, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
246 72 0.29
247 136 0.55
249 40 0.16
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (248 bp):
TCAAGAACTTTTGAGGTGCCCCTGGGTTGGTTCAAATTGTAAAAAAAAAAAGAAAAGAAAAAGAA
ATTCTTTGTACCATTAATTTCATTAGACCCCAAAATATGTAAATCTGCATGAAATTATTTATGTA
TTTTATTTATCACCATTAATTATGTATTTTAAAATCAATTTTTCTCATTTTTCACTCTCTAATCA
ACTTCAATTCTAATAAAAATAAAAAATAACTAAAAAGAAGAAATTAATAATAC
Found at i:37368203 original size:3 final size:3
Alignment explanation
Indices: 37368195--37368219 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37368185 TCAACAATAA
37368195 CGG CGG CGG CGG CGG CGG CGG CGG C
1 CGG CGG CGG CGG CGG CGG CGG CGG C
37368220 AGTTCCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.64, T:0.00
Consensus pattern (3 bp):
CGG
Found at i:37369906 original size:71 final size:71
Alignment explanation
Indices: 37369825--37369965 Score: 246
Period size: 71 Copynumber: 2.0 Consensus size: 71
37369815 AATTTAAATT
* * *
37369825 AAATTATTAATACTATTAAAATTATTTTGTTAAATTCATATTCATTACGATATCATTTTTGTAGT
1 AAATTATTAATACTATTAAAATTATTTTGTTAAATTCATATTCATTACAATATCATTTTTATAAT
37369890 TATATC
66 TATATC
*
37369896 AAATTGTTAATACTATTAAAATTATTTTGTTAAATTCATATTCATTACAATATCATTTTTATAAT
1 AAATTATTAATACTATTAAAATTATTTTGTTAAATTCATATTCATTACAATATCATTTTTATAAT
37369961 TATAT
66 TATAT
37369966 TATTACCGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (71 bp):
AAATTATTAATACTATTAAAATTATTTTGTTAAATTCATATTCATTACAATATCATTTTTATAAT
TATATC
Found at i:37370082 original size:24 final size:25
Alignment explanation
Indices: 37370040--37370091 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
37370030 CAATGTTAAC
**
37370040 AATTAGAATTGCATTTTTTTTAATAT
1 AATTAGAATTGCA-TTTTTGAAATAT
*
37370066 AATTAGAGTTGCA-TTTTGAAATAT
1 AATTAGAATTGCATTTTTGAAATAT
37370090 AA
1 AA
37370092 AAATACAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (25 bp):
AATTAGAATTGCATTTTTGAAATAT
Found at i:37378490 original size:2 final size:2
Alignment explanation
Indices: 37378483--37378526 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
37378473 ACAAACTAAT
*
37378483 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37378525 TC
1 TC
37378527 CCTTCCCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37383413 original size:105 final size:105
Alignment explanation
Indices: 37383231--37383429 Score: 260
Period size: 105 Copynumber: 1.9 Consensus size: 105
37383221 AAATAAAGGT
* * * * *
37383231 TAATATACTAATTGGTACTTGAGATTAATTTCAATCTTCAATTTAGTATTTGATTTTATTTTCTA
1 TAATATACTAATTGGTACTTAAGATCAATTTCAATCTTCAATTTAGTATTTGATTCTATTTCCCA
*
37383296 ATTTAGCACTTAAGTTTGGCTTTAATGTTAAATTAAATGC
66 ATTTAGCACTTAAATTTGGCTTTAATGTTAAATTAAATGC
* *
37383336 TAATATACTATTTGGTACTTAAGATCAATTTCAATGTTCAATTT-GATATTTGAGTTCT-TTTCC
1 TAATATACTAATTGGTACTTAAGATCAATTTCAATCTTCAATTTAG-TATTTGA-TTCTATTTCC
* *
37383399 CCATTT-GTTACTTAAATTTGGCTTTAATGTT
64 CAATTTAG-CACTTAAATTTGGCTTTAATGTT
37383430 CAAGTTGGCA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
104 2 0.02
105 76 0.94
106 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (105 bp):
TAATATACTAATTGGTACTTAAGATCAATTTCAATCTTCAATTTAGTATTTGATTCTATTTCCCA
ATTTAGCACTTAAATTTGGCTTTAATGTTAAATTAAATGC
Found at i:37384019 original size:23 final size:23
Alignment explanation
Indices: 37383993--37384097 Score: 129
Period size: 23 Copynumber: 4.6 Consensus size: 23
37383983 AGTGCTCGGG
37383993 AAACAGTAAGCACACACAGTGCA
1 AAACAGTAAGCACACACAGTGCA
*
37384016 AAACAGTAAGCACACACAATGCA
1 AAACAGTAAGCACACACAGTGCA
* * * *
37384039 AATCAGTAAGCACATATAGTGCG
1 AAACAGTAAGCACACACAGTGCA
* * *
37384062 AATCAATAAGCACACACAGTGCT
1 AAACAGTAAGCACACACAGTGCA
*
37384085 GAACAGTAAGCAC
1 AAACAGTAAGCAC
37384098 GCTAATGTTC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (23 bp):
AAACAGTAAGCACACACAGTGCA
Found at i:37388285 original size:23 final size:23
Alignment explanation
Indices: 37388259--37388379 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
37388249 ACACTAGCGC
37388259 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
37388282 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
37388305 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
37388330 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
37388353 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
37388376 GCTC
1 GCTC
37388380 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:37388328 original size:48 final size:46
Alignment explanation
Indices: 37388259--37388379 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
37388249 ACACTAGCGC
* *
37388259 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
37388305 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
37388353 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
37388380 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:37388406 original size:38 final size:39
Alignment explanation
Indices: 37388344--37388417 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 39
37388334 TCCGATTAGC
*
37388344 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
*
37388383 ACTTTGTGTACTCTCTG-TTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
37388418 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 18 0.55
39 15 0.45
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:37396814 original size:51 final size:51
Alignment explanation
Indices: 37396741--37396957 Score: 283
Period size: 51 Copynumber: 4.2 Consensus size: 51
37396731 TACACGAAAG
* *
37396741 GGTCCGGTGACTAAGTGTCATCGTGAGTGAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* *
37396792 GGTCC-AGTGACTAAGTGTCATCGTGAGTAAATGAAACCTTTACGGATTACA
1 GGTCCGA-TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
*
37396843 GGTCCGATGACTAAGTATCATCGTGAGGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGT---GAGTAAATGAATCCTTTACGGATTAAA
* * * * * **
37396897 GGTCTGATAACTAAGTGTCATCGTTAGTAAATGAATCCATGACAAATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
37396948 GGTCCGATGA
1 GGTCCGATGA
37396958 GAATATATCA
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
51 97 0.67
52 1 0.01
54 46 0.32
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
Found at i:37396920 original size:105 final size:102
Alignment explanation
Indices: 37396741--37396931 Score: 285
Period size: 105 Copynumber: 1.8 Consensus size: 102
37396731 TACACGAAAG
* * * *
37396741 GGTCCGGTGACTAAGTGTCATCGTGAGTGAATGAATCCTTTACGGATTAAAGGTCCAGTGACTAA
1 GGTCCGATGACTAAGTATCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAA
37396806 GTGTCATCGTGAGTAAATGAAACCTTTACGGATTACA
66 GTGTCATCGTGAGTAAATGAAACCTTTACGGATTACA
*
37396843 GGTCCGATGACTAAGTATCATCGTGAGGAGTAAATGAATCCTTTACGGATTAAAGGT-CTGATAA
1 GGTCCGATGACTAAGTATCATCGT---GAGTAAATGAATCCTTTACGGATTAAAGGTCCAG-TAA
*
37396907 CTAAGTGTCATCGTTAGTAAATGAA
62 CTAAGTGTCATCGTGAGTAAATGAA
37396932 TCCATGACAA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
102 22 0.28
104 2 0.03
105 55 0.70
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (102 bp):
GGTCCGATGACTAAGTATCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAA
GTGTCATCGTGAGTAAATGAAACCTTTACGGATTACA
Found at i:37396951 original size:105 final size:102
Alignment explanation
Indices: 37396741--37396957 Score: 283
Period size: 105 Copynumber: 2.1 Consensus size: 102
37396731 TACACGAAAG
* * * *
37396741 GGTCCGGTGACTAAGTGTCATCGTGAGTGAATGAATCCTTTACGGATTAAAGGTCCAGTGACTAA
1 GGTCCGATGACTAAGTATCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAA
* * ** *
37396806 GTGTCATCGTGAGTAAATGAAACCTTTACGGATTACA
66 GTGTCATCGTGAGTAAATGAAACCATGACAAATTAAA
*
37396843 GGTCCGATGACTAAGTATCATCGTGAGGAGTAAATGAATCCTTTACGGATTAAAGGT-CTGATAA
1 GGTCCGATGACTAAGTATCATCGT---GAGTAAATGAATCCTTTACGGATTAAAGGTCCAG-TAA
* *
37396907 CTAAGTGTCATCGTTAGTAAATGAATCCATGACAAATTAAA
62 CTAAGTGTCATCGTGAGTAAATGAAACCATGACAAATTAAA
37396948 GGTCCGATGA
1 GGTCCGATGA
37396958 GAATATATCA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
102 22 0.22
104 2 0.02
105 75 0.76
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (102 bp):
GGTCCGATGACTAAGTATCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAA
GTGTCATCGTGAGTAAATGAAACCATGACAAATTAAA
Found at i:37396982 original size:105 final size:105
Alignment explanation
Indices: 37396765--37396985 Score: 275
Period size: 105 Copynumber: 2.1 Consensus size: 105
37396755 GTGTCATCGT
* *
37396765 GAGTGAATGAATCCTTTACGGATTAAAGGTCCAGTGACTAAGTGTCATCGTGAGTAAATGAAACC
1 GAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAAGTGTCATCGTGAGTAAATGAAACC
* * ** * * * *
37396830 TTTACGGATTACAGGTCCGATGACTAAGTATCATCGTGAG
66 ATGACAAATTAAAGGTCCGATGACGAAATATCATCGTGAA
* * *
37396870 GAGTAAATGAATCCTTTACGGATTAAAGGT-CTGATAACTAAGTGTCATCGTTAGTAAATGAATC
1 GAGTAAATGAATCCTTTACGGATTAAAGGTCCAG-TAACTAAGTGTCATCGTGAGTAAATGAAAC
37396934 CATGACAAATTAAAGGTCCGATGA-GAATATATCATCGTGAA
65 CATGACAAATTAAAGGTCCGATGACGAA-ATATCATCGTGAA
* *
37396975 TATTAAATGAA
1 GAGTAAATGAA
37396986 ATGAGTTCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
104 4 0.04
105 95 0.96
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (105 bp):
GAGTAAATGAATCCTTTACGGATTAAAGGTCCAGTAACTAAGTGTCATCGTGAGTAAATGAAACC
ATGACAAATTAAAGGTCCGATGACGAAATATCATCGTGAA
Found at i:37403112 original size:30 final size:30
Alignment explanation
Indices: 37403041--37403251 Score: 163
Period size: 30 Copynumber: 7.1 Consensus size: 30
37403031 GGGAATCTCG
37403041 AGGGT-AAAAATGTAATTTTTGAAAGTTT-
1 AGGGTCAAAAATGTAATTTTTGAAAGTTTC
*
37403069 TGAGGTC-AAAATGTAATTTTTGAAAGTTTC
1 AG-GGTCAAAAATGTAATTTTTGAAAGTTTC
37403099 AGGGTCAAAAATGTAATTTTTAGAAA-TTTC
1 AGGGTCAAAAATGTAATTTTT-GAAAGTTTC
* * * *
37403129 AAGCTCAAAATTGGAATTTTT-AGAAG-TTC
1 AGGGTCAAAAATGTAATTTTTGA-AAGTTTC
* * *
37403158 GTGGGT-AAACATGTAATTTTTTG-AAGTTTT
1 -AGGGTCAAAAATGTAA-TTTTTGAAAGTTTC
* ** *
37403188 AGGGTCAAAAAAGTAATTTTAAAGAAGTTTG
1 AGGGTCAAAAATGTAATTTTTGA-AAGTTTC
* *
37403219 AGGGTC-AAAATATAATTTTTAGACAGTTT-
1 AGGGTCAAAAATGTAATTTTT-GAAAGTTTC
37403248 AGGG
1 AGGG
37403252 ACTTTCAGAG
Statistics
Matches: 144, Mismatches: 24, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.01
29 56 0.39
30 69 0.48
31 17 0.12
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (30 bp):
AGGGTCAAAAATGTAATTTTTGAAAGTTTC
Found at i:37403236 original size:89 final size:87
Alignment explanation
Indices: 37403040--37403246 Score: 215
Period size: 89 Copynumber: 2.3 Consensus size: 87
37403030 TGGGAATCTC
* *
37403040 GAGGGTAAAAATGTAATTTTT-GAAAGTTTTGAGGTCAAAATGTAATTTTTGAAAGTTTCAGGGT
1 GAGGGTCAAAAT-TAATTTTTAG-AAGTTGTGAGGTCAAAATGTAATTTTTGAAAGTTTCAGGGT
* *
37403104 CAAAAATGTAATTTTTAGAAATTT
64 CAAAAAAGTAATTTTAAGAAATTT
* * * *
37403128 CAAGCTCAAAATTGGAATTTTTAGAAGTTCGTG-GGT-AAACATGTAATTTTTTG-AAGTTTTAG
1 GAGGGTCAAAATT--AATTTTTAGAAGTT-GTGAGGTCAAA-ATGTAA-TTTTTGAAAGTTTCAG
*
37403190 GGTCAAAAAAGTAATTTTAAAGAAGTTT
61 GGTCAAAAAAGTAATTTT-AAGAAATTT
37403218 GAGGGTCAAAATATAATTTTTAGACAGTT
1 GAGGGTCAAAAT-TAATTTTTAGA-AGTT
37403247 TAGGGACTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
87 1 0.01
88 11 0.11
89 56 0.57
90 29 0.30
91 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.37
Consensus pattern (87 bp):
GAGGGTCAAAATTAATTTTTAGAAGTTGTGAGGTCAAAATGTAATTTTTGAAAGTTTCAGGGTCA
AAAAAGTAATTTTAAGAAATTT
Found at i:37404466 original size:13 final size:14
Alignment explanation
Indices: 37404448--37404485 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
37404438 ATAATTAATA
37404448 ATATTTAATACA-T
1 ATATTTAATACACT
*
37404461 ATATTTATTA-ACT
1 ATATTTAATACACT
37404474 ATATTTAATACA
1 ATATTTAATACA
37404486 ATTAATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTAATACACT
Found at i:37405197 original size:30 final size:29
Alignment explanation
Indices: 37405141--37405214 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
37405131 GACATTATTC
37405141 AAATAAATTTAAATTTAAACTTAAATTTA
1 AAATAAATTTAAATTTAAACTTAAATTTA
** * *
37405170 TGATAAATTTAAATTTCCAATTTAAATTTA
1 AAATAAATTTAAATTT-AAACTTAAATTTA
*
37405200 AAATAAACTTAAATT
1 AAATAAATTTAAATT
37405215 CAAATTCTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 14 0.38
30 23 0.62
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATAAATTTAAATTTAAACTTAAATTTA
Found at i:37405203 original size:7 final size:6
Alignment explanation
Indices: 37405144--37405220 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
37405134 ATTATTCAAA
* * *
37405144 TAAATT TAAATT TAAACT TAAATT T--ATGA TAAATT TAAATT TCCAATT
1 TAAATT TAAATT TAAATT TAAATT TAAAT-T TAAATT TAAATT T-AAATT
* * *
37405192 TAAATT TAAA-A TAAACT TAAATT CAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
37405221 CTGTTGGGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 5 0.09
6 42 0.75
7 7 0.12
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:37406298 original size:22 final size:21
Alignment explanation
Indices: 37406254--37406298 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
37406244 AGAATTAGTT
* *
37406254 AGTGGAATGGCATGAGTATTA
1 AGTGGAATAGCATGAGTAATA
*
37406275 AGTGGATATAGCATGATTAATA
1 AGTGGA-ATAGCATGAGTAATA
37406297 AG
1 AG
37406299 ATTAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (21 bp):
AGTGGAATAGCATGAGTAATA
Found at i:37407312 original size:51 final size:51
Alignment explanation
Indices: 37407236--37407332 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
37407226 GTAGGATTAC
*
37407236 GGATTAAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTAT
1 GGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTAT
*
37407287 GGATTAAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCC
1 GGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCC
37407333 ATGACAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTAT
Found at i:37407344 original size:51 final size:51
Alignment explanation
Indices: 37407238--37407350 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
37407228 AGGATTACGG
* * * ***
37407238 ATTAAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGG
1 ATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAA
*
37407289 ATTAAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAA
1 ATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAA
37407340 ATTAAAGGTCC
1 ATTAAAGGTCC
37407351 AGTGAGAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
ATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAA
Found at i:37409211 original size:18 final size:18
Alignment explanation
Indices: 37409189--37409233 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
37409179 TTTTAAAAAT
37409189 ACTTTTGAGTCAAAAAGC
1 ACTTTTGAGTCAAAAAGC
*
37409207 TCTTTTGAGTCAAAAAGC
1 ACTTTTGAGTCAAAAAGC
37409225 ACTTTTGAG
1 ACTTTTGAG
37409234 AAAAAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (18 bp):
ACTTTTGAGTCAAAAAGC
Found at i:37412345 original size:30 final size:28
Alignment explanation
Indices: 37412311--37412746 Score: 126
Period size: 29 Copynumber: 14.9 Consensus size: 28
37412301 GAGAAAAGTC
*
37412311 AGGGTTAAAAATGGTATTTTGGAAGGTTCG
1 AGGGTTAAAAATGGTATTTTGGAA--ATCG
37412341 AGGG-T-AAAATGGTAATTTTTGGTGAAATCG
1 AGGGTTAAAAATGGT-A-TTTT-G-GAAATCG
* *
37412371 -GGGTTAAAAATGGGATTTTGGAAAGCTCA
1 AGGGTTAAAAATGGTATTTTGGAAA--TCG
*
37412400 AGGG-TAAAACA--GTATTTTTAGTGAAACCG
1 AGGGTTAAAA-ATGGTA-TTTT-G-GAAATCG
* **
37412429 A-GGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGTTAAAAATGGTATTTTGGAAA-TCG
* * *
37412457 AGGGGT-AAAACGGTAATTTTTGGTGAAACCG
1 AGGGTTAAAAATGGT-A-TTTT-G-GAAATCG
* * *
37412488 A-AGTTAAAAATGGAATTTTAGAAAGTTCG
1 AGGGTTAAAAATGGTATTTTGGAAA--TCG
*
37412517 -GGGGT-AAAATGGTCATTTTTGATGAAATCG
1 AGGGTTAAAAATGGT-A-TTTTG--GAAATCG
** *
37412547 -GGGTTAAAAATGAAATTTTGGGAAGATTG
1 AGGGTTAAAAATGGTATTTT-GGAA-ATCG
*
37412576 -GGGGT-AAAATGGTAATTTTTGGTGAAATCG
1 AGGGTTAAAAATGGT-A-TTTT-G-GAAATCG
**
37412606 -GGGTTAAAAATGAAATTTTGGAAAGCTCG
1 AGGGTTAAAAATGGTATTTTGGAAA--TCG
*
37412635 AGGG-T-AAAATGGTAATTTTTGGTGAAATTG
1 AGGGTTAAAAATGGT-A-TTTT-G-GAAATCG
37412665 -GGGTTAAAAATGAG-ATTTTGGAAAGCTCG
1 AGGGTTAAAAATG-GTATTTTGGAAA--TCG
*
37412694 AGGG---GAAATGGTAATTTTTGGTGAAATCG
1 AGGGTTAAAAATGGT-A-TTTT-G-GAAATCG
*
37412723 -GGGTTAAAAATGGAATTTTGGAAA
1 AGGGTTAAAAATGGTATTTTGGAAA
37412747 GTTTGGGGGT
Statistics
Matches: 304, Mismatches: 44, Indels: 119
0.65 0.09 0.25
Matches are distributed among these distances:
26 1 0.00
27 29 0.10
28 51 0.17
29 85 0.28
30 70 0.23
31 52 0.17
32 16 0.05
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (28 bp):
AGGGTTAAAAATGGTATTTTGGAAATCG
Found at i:37412800 original size:59 final size:59
Alignment explanation
Indices: 37412312--37412774 Score: 594
Period size: 59 Copynumber: 7.9 Consensus size: 59
37412302 AGAAAAGTCA
* * *
37412312 GGGTTAAAAATGGTATTTTGGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * ** ** * *
37412371 GGGTTAAAAATGGGATTTTGGAAAGCTCAAGGGTAAAACAGT-ATTTTTAGTGAAACCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
* ** * *
37412429 AGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTGAAACCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
** * * *
37412488 AAGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTCATTTTTGATGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
37412547 GGGTTAAAAATGAAATTTTGGGAAGATT-GGGGGTAAAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * *
37412606 GGGTTAAAAATGAAATTTTGGAAAGCTCGAGGGTAAAATGGTAATTTTTGGTGAAATTG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
*
37412665 GGGTTAAAAAT-GAGATTTTGGAAAGCTCGAGGGG--AAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAATGGA-ATTTTGGAAAGTTCG-GGGGTAAAATGGTAATTTTTGGTGAAATCG
*
37412723 GGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATAGGTAATTTTTGG
1 GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAT-GGTAATTTTTGG
37412775 AAGTTTCGAG
Statistics
Matches: 356, Mismatches: 39, Indels: 17
0.86 0.09 0.04
Matches are distributed among these distances:
57 4 0.01
58 99 0.28
59 236 0.66
60 17 0.05
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:37413542 original size:15 final size:15
Alignment explanation
Indices: 37413522--37413553 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37413512 CCTTTAGAAC
*
37413522 TCAGATCTGGATATT
1 TCAGATCTGGAAATT
37413537 TCAGATCTGGAAATT
1 TCAGATCTGGAAATT
37413552 TC
1 TC
37413554 TAAAGTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (15 bp):
TCAGATCTGGAAATT
Found at i:37414599 original size:17 final size:17
Alignment explanation
Indices: 37414577--37414694 Score: 103
Period size: 17 Copynumber: 6.9 Consensus size: 17
37414567 TTTGGACTTT
*
37414577 AATTTAAATTAATTTTA
1 AATTTAAATTAAATTTA
* *
37414594 AATTTAAAATAAATTTG
1 AATTTAAATTAAATTTA
* * *
37414611 GACTCAAATTCAAATTTAA
1 AATTTAAATT-AAATTT-A
*
37414630 AATTTAATTTAAATTTA
1 AATTTAAATTAAATTTA
*
37414647 AATTTAAA-TAAATCTA
1 AATTTAAATTAAATTTA
* *
37414663 AATTTATATCAAATTTA
1 AATTTAAATTAAATTTA
* *
37414680 ATTTTAAAATAAATT
1 AATTTAAATTAAATT
37414695 AAGAAAGGGC
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
16 14 0.18
17 45 0.58
18 12 0.16
19 6 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:37414640 original size:5 final size:6
Alignment explanation
Indices: 37414577--37414687 Score: 72
Period size: 6 Copynumber: 19.3 Consensus size: 6
37414567 TTTGGACTTT
* * * * * * *
37414577 AATTTA AA-TTA ATTTTA AATTTA AA-ATA AATTTG GACTCA AATTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
37414623 AATTTAA AATTT- AATTTA AATTTA AATTTA AA--TA AATCTA AATTTA
1 AATTT-A AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
37414669 TA-TCA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA AA
37414688 ATAAATTAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
4 4 0.05
5 16 0.20
6 53 0.67
7 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:37420914 original size:25 final size:25
Alignment explanation
Indices: 37420886--37420939 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
37420876 AATATATATC
*
37420886 ATATAATATATGTATATGTAATTTTAT
1 ATATAATATA--TATATGTAATTTCAT
*
37420913 ATATAATATATATGTGTAATTTCAT
1 ATATAATATATATATGTAATTTCAT
37420938 AT
1 AT
37420940 TGTAAACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 15 0.60
27 10 0.40
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (25 bp):
ATATAATATATATATGTAATTTCAT
Found at i:37420939 original size:23 final size:25
Alignment explanation
Indices: 37420884--37420939 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
37420874 CTAATATATA
37420884 TCATATAATATATGTATATGTAATTT
1 TCATATAATATA-GTATATGTAATTT
* *
37420910 TATATATAATATA-TATGTGTAA-TT
1 T-CATATAATATAGTATATGTAATTT
37420934 TCATAT
1 TCATAT
37420940 TGTAAACGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.15
24 3 0.12
25 8 0.31
26 1 0.04
27 10 0.38
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (25 bp):
TCATATAATATAGTATATGTAATTT
Found at i:37421891 original size:16 final size:15
Alignment explanation
Indices: 37421858--37421909 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
37421848 AGATGACTAT
*
37421858 ATAAAAAATTTTATAA
1 ATAAAAAATATTA-AA
37421874 ATAAAAAATATATAAA
1 ATAAAAAATAT-TAAA
**
37421890 ATTATTAAATATTAAA
1 A-TAAAAAATATTAAA
37421906 ATAA
1 ATAA
37421910 TATAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.07
16 18 0.60
17 10 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAAAAATATTAAA
Found at i:37421906 original size:26 final size:24
Alignment explanation
Indices: 37421856--37421914 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
37421846 TAAGATGACT
*
37421856 ATATAAAAAATTTTATAAATAAAAA
1 ATATATAAAATTTTATAAAT-AAAA
*
37421881 ATATATAAAATTATTA-AATATTAAA
1 ATATATAAAATT-TTATAA-ATAAAA
37421906 ATAATATAA
1 AT-ATATAA
37421915 TATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATATAAAATTTTATAAATAAAA
Found at i:37422497 original size:21 final size:22
Alignment explanation
Indices: 37422471--37422513 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37422461 GTAAATCGTG
37422471 ATTTTTAGTTTTAATT-TTAAA
1 ATTTTTAGTTTTAATTATTAAA
* *
37422492 ATTTTTATTTTTATTTATTAAA
1 ATTTTTAGTTTTAATTATTAAA
37422514 TTATTTGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTTTAGTTTTAATTATTAAA
Found at i:37438391 original size:12 final size:13
Alignment explanation
Indices: 37438374--37438402 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37438364 GAGCTACATC
37438374 CTTTCTTTCTTT-
1 CTTTCTTTCTTTG
37438386 CTTTCTTTCTTTG
1 CTTTCTTTCTTTG
37438399 CTTT
1 CTTT
37438403 ATCTTTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.72
Consensus pattern (13 bp):
CTTTCTTTCTTTG
Found at i:37439442 original size:29 final size:29
Alignment explanation
Indices: 37439400--37439458 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37439390 TTCTTTTGAA
37439400 TAATATTAAAATATCACATAAATACATTT
1 TAATATTAAAATATCACATAAATACATTT
37439429 TAATATTAAAATATCACATAAATACATTT
1 TAATATTAAAATATCACATAAATACATTT
37439458 T
1 T
37439459 CCATATGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (29 bp):
TAATATTAAAATATCACATAAATACATTT
Found at i:37444316 original size:41 final size:42
Alignment explanation
Indices: 37444249--37444335 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 42
37444239 GTCACTGCCA
37444249 AAAGCTAAACATTATTACATTATTATTACTAACTCAATGTAGG
1 AAAGCTAAACA-TATTACATTATTATTACTAACTCAATGTAGG
*
37444292 AAAGCTAAAC-TATTGCATTATTATTACTAACTCAATGTAGG
1 AAAGCTAAACATATTACATTATTATTACTAACTCAATGTAGG
37444333 AAA
1 AAA
37444336 ACAAGTGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 33 0.77
43 10 0.23
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (42 bp):
AAAGCTAAACATATTACATTATTATTACTAACTCAATGTAGG
Found at i:37456358 original size:17 final size:19
Alignment explanation
Indices: 37456330--37456366 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
37456320 AATGTGATAA
37456330 TTATACATTTAA-AAATAT
1 TTATACATTTAATAAATAT
37456348 TTATA-ATTTAATAAATAT
1 TTATACATTTAATAAATAT
37456366 T
1 T
37456367 ACGATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATACATTTAATAAATAT
Found at i:37456698 original size:21 final size:23
Alignment explanation
Indices: 37456660--37456707 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
37456650 TTTTCATCAT
37456660 ATTACTAAATTAATTTTAAAATA
1 ATTACTAAATTAATTTTAAAATA
* *
37456683 ATTA-TAATTTAA-TTTAAAATT
1 ATTACTAAATTAATTTTAAAATA
37456704 ATTA
1 ATTA
37456708 GTTAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTACTAAATTAATTTTAAAATA
Found at i:37486821 original size:21 final size:22
Alignment explanation
Indices: 37486797--37486846 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
37486787 AAGATTTAAC
37486797 AAAATTT-ATATT-TATATTATT
1 AAAATTTAATATTCTATATTA-T
37486818 AAAATATTAATATTCTATATTAT
1 AAAAT-TTAATATTCTATATTAT
37486841 AAAATT
1 AAAATT
37486847 ATTAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 3 0.12
23 11 0.42
24 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATTTAATATTCTATATTAT
Found at i:37486849 original size:24 final size:23
Alignment explanation
Indices: 37486797--37486852 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
37486787 AAGATTTAAC
37486797 AAAAT-TT-ATATTTATATTATT
1 AAAATATTAATATTTATATTATT
37486818 AAAATATTAATATTCTATATTA-T
1 AAAATATTAATATT-TATATTATT
37486841 AAAATTATTAAT
1 AAAA-TATTAAT
37486853 TTATTATACG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.16
22 2 0.06
23 10 0.32
24 14 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAAATATTAATATTTATATTATT
Found at i:37486860 original size:24 final size:24
Alignment explanation
Indices: 37486807--37486860 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
37486797 AAAATTTATA
37486807 TTTATATTATTAAAATATTAATAT
1 TTTATATTATTAAAATATTAATAT
*
37486831 TCTATATTA-TAAAATTATTAAT-T
1 TTTATATTATTAAAA-TATTAATAT
37486854 TATTATA
1 T-TTATA
37486861 CGATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTATATTATTAAAATATTAATAT
Found at i:37487140 original size:22 final size:21
Alignment explanation
Indices: 37487110--37487152 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37487100 GAAAAGTTCA
*
37487110 TTTTGTTAACTAACAAATTAT
1 TTTTGTTAACCAACAAATTAT
*
37487131 TTTTCGTTAACCATCAAATTAT
1 TTTT-GTTAACCAACAAATTAT
37487153 AATACATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTGTTAACCAACAAATTAT
Found at i:37488236 original size:18 final size:19
Alignment explanation
Indices: 37488213--37488250 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37488203 AATGATTTAA
*
37488213 TTATAAT-ATTTTAAAATT
1 TTATAATAAATTTAAAATT
37488231 TTATAATAAATTTAAAATT
1 TTATAATAAATTTAAAATT
37488250 T
1 T
37488251 AAACCGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAATAAATTTAAAATT
Found at i:37489760 original size:12 final size:11
Alignment explanation
Indices: 37489752--37489800 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
37489742 ACATATTATT
37489752 ATTTTTATTAA
1 ATTTTTATTAA
* *
37489763 ATTATAATTAA
1 ATTTTTATTAA
*
37489774 ATTATTTATTATC
1 ATT-TTTATTA-A
37489787 ATTTTTATTAA
1 ATTTTTATTAA
37489798 ATT
1 ATT
37489801 ATATTCAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 15 0.50
12 12 0.40
13 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTATTAA
Found at i:37489775 original size:35 final size:35
Alignment explanation
Indices: 37489716--37489803 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
37489706 ATATAAAAAA
* * * *
37489716 ATTTATATTAAAAATATTATTAAATTACATATTATT
1 ATTTTTATT-AAATTATAATTAAATTACATATTATC
**
37489752 ATTTTTATTAAATTATAATTAAATTATTTATTATC
1 ATTTTTATTAAATTATAATTAAATTACATATTATC
37489787 ATTTTTATTAAATTATA
1 ATTTTTATTAAATTATA
37489804 TTCAATGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 38 0.83
36 8 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTTTTATTAAATTATAATTAAATTACATATTATC
Found at i:37491501 original size:105 final size:105
Alignment explanation
Indices: 37491319--37491534 Score: 405
Period size: 105 Copynumber: 2.1 Consensus size: 105
37491309 ATTTTGATAG
*
37491319 TTTAACCTAATCTATAATATTTACACAATATTATTAAATTAAAAAATTGTTTCTAGAAACTAGTT
1 TTTAACCTAATATATAATATTTACACAATATTATTAAATTAAAAAATTGTTTCTAGAAACTAGTT
*
37491384 AATTTTTAAAGAAAATAAACAAGAGGCTTAGATTTCTTAT
66 AATTTTTAAAGAAAATAAACAAGAGCCTTAGATTTCTTAT
37491424 TTTAACCTAATATATAATATTTACACAATATTATTAAATTAAAAAATTGTTTCTAGAAACTAGTT
1 TTTAACCTAATATATAATATTTACACAATATTATTAAATTAAAAAATTGTTTCTAGAAACTAGTT
*
37491489 AATTTTTAAAGAAAATAAACAAGAGCCTTAGATTTCTTCT
66 AATTTTTAAAGAAAATAAACAAGAGCCTTAGATTTCTTAT
37491529 TTTAAC
1 TTTAAC
37491535 AACCTAAAAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (105 bp):
TTTAACCTAATATATAATATTTACACAATATTATTAAATTAAAAAATTGTTTCTAGAAACTAGTT
AATTTTTAAAGAAAATAAACAAGAGCCTTAGATTTCTTAT
Found at i:37495021 original size:70 final size:67
Alignment explanation
Indices: 37494895--37495027 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 67
37494885 ATAAACAATA
* * *
37494895 TAATGGTTTTGCCTTTTAACTTAATGGATAAACATTTATCAAAATGACATAATTTTACTTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAGGATAAACATTTATCAAAATGACATAATTTTACCTTTTAA
37494960 CT
66 CT
* * *
37494962 TAATGGTTTTGACTTTTAACTTTAGAAAGGGTAAACATTTATCAAAATG-CTGTAGTTTTACCTT
1 TAATGGTTTTGACTTTTAAC-TT--AAAGGATAAACATTTATCAAAATGAC-ATAATTTTACCTT
37495026 TT
62 TT
37495028 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 19 0.34
68 2 0.04
69 1 0.02
70 34 0.61
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAGGATAAACATTTATCAAAATGACATAATTTTACCTTTTAA
CT
Found at i:37504640 original size:21 final size:21
Alignment explanation
Indices: 37504610--37504658 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37504600 ATATCCTTAA
37504610 TTTA-AAAAATA-ATTAATAT
1 TTTATAAAAATATATTAATAT
* *
37504629 TATTATAAAAATATTTTCATAT
1 T-TTATAAAAATATATTAATAT
37504651 TTTATAAA
1 TTTATAAA
37504659 TCTTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 14 0.56
22 7 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTATAAAAATATATTAATAT
Done.