Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 22 of 64
Found at i:3160371 original size:19 final size:18
Alignment explanation
Indices: 3160326--3160381 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
3160316 ATTTTAATCA
3160326 GTAAATTTTATTTTATTTT
1 GTAAATTTTA-TTTATTTT
* **
3160345 ATTTATTTTATTTATTTGT
1 GTAAATTTTATTTATTT-T
3160364 GTAAATTTTATTTATTTT
1 GTAAATTTTATTTATTTT
3160382 AATTGATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
GTAAATTTTATTTATTTT
Found at i:3160380 original size:4 final size:5
Alignment explanation
Indices: 3160330--3160361 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
3160320 TAATCAGTAA
3160330 ATTTT ATTTT ATTTT A-TTT ATTTT A-TTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
3160362 GTGTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:3160537 original size:57 final size:59
Alignment explanation
Indices: 3160474--3160607 Score: 184
Period size: 57 Copynumber: 2.3 Consensus size: 59
3160464 TTAAATTATA
* *
3160474 AATTCTACCAACCTATT-AGAAAATTTCATAATGAATTTTTGTAAAAAAT-A-TTTTTTT
1 AATTCTACCAAACTATTGA-AAAATTTCATAATGAATTATTGTAAAAAATAATTTTTTTT
* *
3160531 AATTCTACCAAACTATTGAAAAATTTTATAATGAATTATTGTGAAAAATAATTTTTTTT
1 AATTCTACCAAACTATTGAAAAATTTCATAATGAATTATTGTAAAAAATAATTTTTTTT
* *
3160590 AATCCTACCAAACAATTG
1 AATTCTACCAAACTATTG
3160608 GAGAATTTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 43 0.63
58 2 0.03
59 23 0.34
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (59 bp):
AATTCTACCAAACTATTGAAAAATTTCATAATGAATTATTGTAAAAAATAATTTTTTTT
Found at i:3160615 original size:59 final size:57
Alignment explanation
Indices: 3160493--3160629 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 57
3160483 AACCTATTAG
* * * *
3160493 AAAATTTCATAATGAATTTTTGTAAAAAATATTTTTTTAATTCTACCAAACTATTGA
1 AAAATTTAATAATGAATTATTGTAAAAAATATTTTTTTAATCCTACCAAACAATTGA
* * *
3160550 AAAATTTTATAATGAATTATTGTGAAAAATAATTTTTTTTAATCCTACCAAACAATTGG
1 AAAATTTAATAATGAATTATTGTAAAAAAT-A-TTTTTTTAATCCTACCAAACAATTGA
* *
3160609 AGAATTTAAATATTGAATTAT
1 AAAATTT-AATAATGAATTAT
3160630 GAATTTTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 27 0.40
58 1 0.01
59 29 0.43
60 11 0.16
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (57 bp):
AAAATTTAATAATGAATTATTGTAAAAAATATTTTTTTAATCCTACCAAACAATTGA
Found at i:3160718 original size:102 final size:97
Alignment explanation
Indices: 3160535--3160801 Score: 303
Period size: 100 Copynumber: 2.7 Consensus size: 97
3160525 TTTTTTAATT
* * *
3160535 CTACCAAACTATTGAAAAATTTTATAATGAATTATTGTGAAAAAT-AATT-TTTTTTAATCCTAC
1 CTACCAAACAATTGAAGAA-TTTA-AATGAATTATT-TGAAAAATAAATTATTTTTCAATCCTAC
*
3160598 CAAACAATTGGAGAATTTAAATATTGAATTATGAATT
63 CAAACAATTGGAGAATTTAAATATTGAATTA--AATA
* *
3160635 TTATCAAATC-ATTGAAGAATTTCACAATGAAATT-TTATGAAAAATAAATTATTTTTCAATCCT
1 CTACCAAA-CAATTGAAGAATTT-A-AATG-AATTATT-TGAAAAATAAATTATTTTTCAATCCT
* *
3160698 ACCAAACAATTGGAGGATTTAAATCTTGAATTAAATA
61 ACCAAACAATTGGAGAATTTAAATATTGAATTAAATA
*
3160735 CTACCAAACAATTGGAAG-ACTT-AATGAATTATTTGAAAAAATAAATTATTTTTCAATCCTACC
1 CTACCAAACAATT-GAAGAATTTAAATGAATTATTTG-AAAAATAAATTATTTTTCAATCCTACC
3160798 AAAC
64 AAAC
3160802 GATCTTAAAT
Statistics
Matches: 146, Mismatches: 12, Indels: 21
0.82 0.07 0.12
Matches are distributed among these distances:
96 6 0.04
97 37 0.25
99 4 0.03
100 44 0.30
101 13 0.09
102 42 0.29
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.36
Consensus pattern (97 bp):
CTACCAAACAATTGAAGAATTTAAATGAATTATTTGAAAAATAAATTATTTTTCAATCCTACCAA
ACAATTGGAGAATTTAAATATTGAATTAAATA
Found at i:3160801 original size:97 final size:98
Alignment explanation
Indices: 3160559--3160801 Score: 293
Period size: 102 Copynumber: 2.5 Consensus size: 98
3160549 AAAAATTTTA
* *
3160559 TAATGAATTATTGTGAAAAAT-AATT-TTTTTTAATCCTACCAAACAATTGGAGAATTTAAATAT
1 TAATGAATTATTATGAAAAATAAATTATTTTTCAATCCTACCAAACAATTGGAGAATTTAAATAT
** * *
3160622 TGAATTATGAATTTTATCAAATCATTGAAGAATT
66 TGAATTA-GAATACTACCAAATCATTGAAGAACT
*
3160656 TCACAATGAAATT-TTATGAAAAATAAATTATTTTTCAATCCTACCAAACAATTGGAGGATTTAA
1 T---AATG-AATTATTATGAAAAATAAATTATTTTTCAATCCTACCAAACAATTGGAGAATTTAA
*
3160720 ATCTTGAATTA-AATACTACCAAA-CAATTGGAAG-ACT
62 ATATTGAATTAGAATACTACCAAATC-ATT-GAAGAACT
3160756 TAATGAATTATT-TGAAAAAATAAATTATTTTTCAATCCTACCAAAC
1 TAATGAATTATTATG-AAAAATAAATTATTTTTCAATCCTACCAAAC
3160802 GATCTTAAAT
Statistics
Matches: 128, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
96 6 0.05
97 38 0.30
99 1 0.01
100 29 0.23
101 12 0.09
102 42 0.33
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (98 bp):
TAATGAATTATTATGAAAAATAAATTATTTTTCAATCCTACCAAACAATTGGAGAATTTAAATAT
TGAATTAGAATACTACCAAATCATTGAAGAACT
Found at i:3164827 original size:20 final size:20
Alignment explanation
Indices: 3164786--3164827 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3164776 GGATCAAATC
* *
3164786 AATTTTAATTAATAATATGA
1 AATTTTAATTAATAACAAGA
3164806 AATTTTAA-TAATAAACAAGA
1 AATTTTAATTAAT-AACAAGA
3164826 AA
1 AA
3164828 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTTTAATTAATAACAAGA
Found at i:3173185 original size:64 final size:62
Alignment explanation
Indices: 3173101--3173247 Score: 161
Period size: 63 Copynumber: 2.3 Consensus size: 62
3173091 AATTTTTTAA
** * *
3173101 GGGATTATTTAAAACGTTTTCTACCAAAAAATGCCTTAAATAATCCTTTACA-AAAATTTCTAT
1 GGGATTATTTAAGGCATTTTCTA-CAAAAAATGCCTTAAATAATCATTTACACAAAA-TTCTAT
*** * *
3173164 GGAGATTATTTAAGGCATTTTCTATTTAAAATGCCTTAAATAATTATTTACACAAAATTGTAT
1 GG-GATTATTTAAGGCATTTTCTACAAAAAATGCCTTAAATAATCATTTACACAAAATTCTAT
*
3173227 GGGAATTATTTAAGGTATTTT
1 GGG-ATTATTTAAGGCATTTT
3173248 TGGCCAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.01
63 48 0.68
64 22 0.31
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (62 bp):
GGGATTATTTAAGGCATTTTCTACAAAAAATGCCTTAAATAATCATTTACACAAAATTCTAT
Found at i:3173214 original size:63 final size:63
Alignment explanation
Indices: 3173128--3173247 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
3173118 TTTCTACCAA
*
3173128 AAAATGCCTTAAATAATCCTTTACA-AAAATTTCTAT-GGAGATTATTTAAGGCATTTTCTATTT
1 AAAATGCCTTAAATAATCATTTACACAAAA-TTCTATGGGA-ATTATTTAAGGCATTTTCTATTT
* * *
3173191 AAAATGCCTTAAATAATTATTTACACAAAATTGTATGGGAATTATTTAAGGTATTTT
1 AAAATGCCTTAAATAATCATTTACACAAAATTCTATGGGAATTATTTAAGGCATTTT
3173248 TGGCCAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 44 0.86
64 7 0.14
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (63 bp):
AAAATGCCTTAAATAATCATTTACACAAAATTCTATGGGAATTATTTAAGGCATTTTCTATTT
Found at i:3173477 original size:62 final size:61
Alignment explanation
Indices: 3173342--3173597 Score: 167
Period size: 62 Copynumber: 4.1 Consensus size: 61
3173332 ATATATATTC
* * * * * * *
3173342 AAAAATTTTTACAGGGATTATTTAAGGCATTTTATGGCCAGAAAATGCTTTGAATAATCC-TAT
1 AAAAATTTTT-TAGGGATTATTTAAGGAATTTT-TAGCCA-AAAACGCCTTAAATAATCCATAA
** * * *
3173405 TCAATTTTTTTAGGGATTATTTAAGGAATTTTCTACCCAAAAACGCCTTAAATAATCCATGTA
1 AAAAATTTTTTAGGGATTATTTAAGGAATTTT-TAGCCAAAAACGCCTTAAATAATCCAT-AA
* ** * * * *
3173468 ACAAATTTTTTAAAAGATTATTCAAGGTATTTTTTGCCAAAACACACCTTAAATAATCTC-TAA
1 AAAAATTTTTT-AGGGATTATTTAAGGAATTTTTAGCCAAAA-ACGCCTTAAATAATC-CATAA
** * * * *
3173531 AAAAA-TTTGAATGGGATTATTTAAGGCATTCTATAGGCTAAAACGCCTTAAATAATCCAATAA
1 AAAAATTTTTTA-GGGATTATTTAAGGAATT-TTTAGCCAAAAACGCCTTAAATAATCC-ATAA
3173594 AAAA
1 AAAA
3173598 TTTAATAGCG
Statistics
Matches: 149, Mismatches: 35, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
61 18 0.12
62 56 0.38
63 42 0.28
64 32 0.21
65 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (61 bp):
AAAAATTTTTTAGGGATTATTTAAGGAATTTTTAGCCAAAAACGCCTTAAATAATCCATAA
Found at i:3174741 original size:20 final size:19
Alignment explanation
Indices: 3174708--3174745 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3174698 GTGAGGAGGT
3174708 AAAAGAAAAGAAGGGAAAG
1 AAAAGAAAAGAAGGGAAAG
*
3174727 AAAAGGAAAGTAAGGGAAA
1 AAAAGAAAAG-AAGGGAAA
3174746 TAAAGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAGAAGGGAAAG
Found at i:3175795 original size:16 final size:17
Alignment explanation
Indices: 3175762--3175806 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
3175752 TCATATTTTT
*
3175762 TATAAAATATATATAAA
1 TATAAAATATAAATAAA
3175779 TATAAAAT-TAAATAAA
1 TATAAAATATAAATAAA
*
3175795 TAATAATATATA
1 T-ATAAAATATA
3175807 TTTTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 14 0.58
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAAATAAA
Found at i:3176296 original size:6 final size:6
Alignment explanation
Indices: 3176285--3176339 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
3176275 AAATTTATCT
* *
3176285 AATAAA AAT-AA AATAAA AA-AACA AATAAA AATTAA AA-AAA ATTAAA
1 AATAAA AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA
3176331 AATGAAA AA
1 AAT-AAA AA
3176340 AGGGTAATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
5 10 0.25
6 23 0.57
7 7 0.17
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:3176312 original size:17 final size:19
Alignment explanation
Indices: 3176290--3176324 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3176280 TATCTAATAA
3176290 AAAT-AAAA-TAAAAAAAC
1 AAATAAAAATTAAAAAAAC
3176307 AAATAAAAATTAAAAAAA
1 AAATAAAAATTAAAAAAA
3176325 ATTAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAAAATTAAAAAAAC
Found at i:3176330 original size:17 final size:18
Alignment explanation
Indices: 3176290--3176340 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3176280 TATCTAATAA
3176290 AAAT-AAAATAAAAAAAC
1 AAATAAAAATAAAAAAAC
*
3176307 AAATAAAAATTAAAAAA-
1 AAATAAAAATAAAAAAAC
*
3176324 AATTAAAAATGAAAAAA
1 AAATAAAAAT-AAAAAA
3176341 GGGTAATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAATAAAAATAAAAAAAC
Found at i:3177552 original size:81 final size:81
Alignment explanation
Indices: 3177428--3177666 Score: 320
Period size: 80 Copynumber: 3.0 Consensus size: 81
3177418 ACAATAAACA
* * * *
3177428 AACACACTCAATTATTATGTT-TAATAAAAATTAAAGTAGTATTTCATTGTAGTTATTTATTATT
1 AACACACTCAATTATTGTGTTATAATAAAAATTAACGTAGTATTTAATTGTAGTTGTTTATTATT
3177492 GTCAATTATTTTTTAT
66 GTCAATTATTTTTTAT
* * * * *
3177508 AATACACTCAATTATTGTGTTATAATAAAAGTTAACGTAATATTTTATTGTAGTTGTTTGTTATT
1 AACACACTCAATTATTGTGTTATAATAAAAATTAACGTAGTATTTAATTGTAGTTGTTTATTATT
3177573 GTCAATTA-TTTTTAT
66 GTCAATTATTTTTTAT
* * * * *
3177588 AACACACTCAATTGTTGTGTTATTATAAAAATTAACATAGTATTTAATTGTAATTGTTTATTCTT
1 AACACACTCAATTATTGTGTTATAATAAAAATTAACGTAGTATTTAATTGTAGTTGTTTATTATT
* *
3177653 ATCAATTGTTTTTT
66 GTCAATTATTTTTT
3177667 TTATAAAGAA
Statistics
Matches: 137, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 87 0.64
81 50 0.36
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (81 bp):
AACACACTCAATTATTGTGTTATAATAAAAATTAACGTAGTATTTAATTGTAGTTGTTTATTATT
GTCAATTATTTTTTAT
Found at i:3181506 original size:12 final size:12
Alignment explanation
Indices: 3181489--3181522 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3181479 ATATAAATGA
3181489 TTTAATTAAAAT
1 TTTAATTAAAAT
*
3181501 TTTAATAAAAAT
1 TTTAATTAAAAT
3181513 TTTAAATTAA
1 TTT-AATTAA
3181523 TAGATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAATTAAAAT
Found at i:3189799 original size:26 final size:27
Alignment explanation
Indices: 3189759--3189811 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
3189749 ATTTGAATAA
*
3189759 TTAAATCTCAAATAATACAAACAAATG
1 TTAAATCTCAAATAATACAAAAAAATG
3189786 TTAAATC-CAAATAATACAAAAAAATG
1 TTAAATCTCAAATAATACAAAAAAATG
3189812 CTCATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (27 bp):
TTAAATCTCAAATAATACAAAAAAATG
Found at i:3191199 original size:125 final size:124
Alignment explanation
Indices: 3191048--3191724 Score: 445
Period size: 125 Copynumber: 5.5 Consensus size: 124
3191038 ATAAGTGCAG
* * * * *
3191048 TAATTGATAATT-TTATT-TTTTCAAACAATCAAATATTGCGTTGATTTGTTTCATAATGTAGTA
1 TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTTTCATAATGTAGTA
** *
3191111 ATTGATGCTTGTATTTATTTTAAAAAATTAATTATTGCATTGCTATGTTGTATAACACAA
66 ATTGATAATTGTATTTATTTTAAAAAATTAATTATTGCATTGATATGTT-TATAACACAA
* * * * * * * *
3191171 T-ATTCGATAATTGTAATTATTTTGAAACATTCAGTTACTACCTTGAATTGATT-ATAAATGCAA
1 TAATT-GATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTTTCAT-AATGTAG
* * * * * * * *
3191234 TAATTAATAATTTTATTT-TTTTCAAACAATTAAATACTACGTTGAT-TCGTTTCATAACACAT
64 TAATTGATAATTGTATTTATTTT-AAAAAATTAATTATTGCATTGATAT-GTTT-ATAACACAA
* * * * * * * *
3191296 TAATTGATACTTGTATTTA-TTTCAAAAAATCAATTCCTGCACTGCTATGTTGT-ATAATGTAGT
1 TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTT-TCATAATGTAGT
* * * * * *
3191359 ATTTGATAATTGTAATTATTTTGAAACATTCAATTACTATG--TTGCAT-TGCTTATAAACACAG
65 AATTGATAATTGTATTTATTTTAAAAAATT-AATTA-T-TGCATTG-ATATGTTTAT-AACACAA
* * * *
3191421 TAATTGATAATTTTATTTTTTTTCAAACAATCAAAT-CTACATTGATTTGTTTCATAATGTAGTA
1 TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTTTCATAATGTAGTA
* * * * * * * *
3191485 ATTAATACTTGTATTTATTTTAGAAAATCAATTACTGCATTGTTGTGTTATATAGCAC--
66 ATTGATAATTGTATTTATTTTAAAAAATTAATTATTGCATTGATATGTT-TATAACACAA
* * * * * ** *
3191543 T-GTTGATTATTGTAATTGTTTTGAAACATTCAATTACTATGTTGCATTTG--TAATAAATGTAG
1 TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTG-ATTTGTTTCAT-AATGTAG
* * * * * *
3191605 TAATTGATAATTTTATTTTTTTTCAAACAATCAAATATTGCATTGATTTGTTTTATAACACAA
64 TAATTGATAATTGTATTTATTTT-AAAAAATTAATTATTGCATTGATATG-TTTATAACACAA
* * * * * *
3191668 TGATTTATACTTGTATTTA-TTTCAAAAAATCAATTACTGCATTGATTTGTTTCATAA
1 TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTTTCATAA
3191725 CTTTGTCATA
Statistics
Matches: 416, Mismatches: 107, Indels: 60
0.71 0.18 0.10
Matches are distributed among these distances:
121 29 0.07
122 38 0.09
123 41 0.10
124 81 0.19
125 192 0.46
126 34 0.08
127 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATTGATAATTGTAATTATTTTCAAACAATCAATTACTACATTGATTTGTTTCATAATGTAGTA
ATTGATAATTGTATTTATTTTAAAAAATTAATTATTGCATTGATATGTTTATAACACAA
Found at i:3191260 original size:187 final size:187
Alignment explanation
Indices: 3190942--3191711 Score: 856
Period size: 187 Copynumber: 4.1 Consensus size: 187
3190932 CAATATTTGA
* ** * *
3190942 TTCAAAAAATCAATTATTGTGTTGCTATTTTGTATAACACAAT-TTATGATAATTGTAACTACTT
1 TTCAAAAAATCAATTACTGCATTGCTATGTTGTATAACACAATATT-TGATAATTGTAATTA-TT
* * * * *
3191006 TTGAAATATTTAATTAC-AGCATTGAATCGGTTATAAGTGCAGTAATTGATAATTTTA--TTTTT
64 TTGAAACATTCAATTACTA-CGTTGAAT-TGTTATAAATGCAGTAATTGATAATTTTATTTTTTT
* * * *** *
3191068 TCAAACAATCAAATATTGCGTTGATTTGTTTCATAATGTAGTAATTGATGCTTGTATTTAT
127 TCAAACAATCAAATACTACATTGATTTGTTTCATAACACAGTAATTGATACTTGTATTTAT
* * * *
3191129 TTTAAAAAATTAATTATTGCATTGCTATGTTGTATAACACAATATTCGATAATTGTAATTATTTT
1 TTCAAAAAATCAATTACTGCATTGCTATGTTGTATAACACAATATTTGATAATTGTAATTATTTT
* * * *
3191194 GAAACATTCAGTTACTACCTTGAATTGATTATAAATGCAATAATTAATAATTTTA-TTTTTTTCA
66 GAAACATTCAATTACTACGTTGAATTG-TTATAAATGCAGTAATTGATAATTTTATTTTTTTTCA
* * * *
3191258 AACAATTAAATACTACGTTGATTCGTTTCATAACACATTAATTGATACTTGTATTTAT
130 AACAATCAAATACTACATTGATTTGTTTCATAACACAGTAATTGATACTTGTATTTAT
* * *** *
3191316 TTCAAAAAATCAATTCCTGCACTGCTATGTTGTATAATGTAGTATTTGATAATTGTAATTATTTT
1 TTCAAAAAATCAATTACTGCATTGCTATGTTGTATAACACAATATTTGATAATTGTAATTATTTT
* * **
3191381 GAAACATTCAATTACTATGTTGCATTGCTTATAAACACAGTAATTGATAATTTTATTTTTTTTCA
66 GAAACATTCAATTACTACGTTGAATTG-TTATAAATGCAGTAATTGATAATTTTATTTTTTTTCA
*** *
3191446 AACAATCAAAT-CTACATTGATTTGTTTCATAATGTAGTAATTAATACTTGTATTTAT
130 AACAATCAAATACTACATTGATTTGTTTCATAACACAGTAATTGATACTTGTATTTAT
* * * * * * * * *
3191503 TTTAGAAAATCAATTACTGCATTGTTGTGTTATATAGCAC--T-GTTGATTATTGTAATTGTTTT
1 TTCAAAAAATCAATTACTGCATTGCTATGTTGTATAACACAATATTTGATAATTGTAATTATTTT
* * * *
3191565 GAAACATTCAATTACTATGTTGCATTTGTAATAAATGTAGTAATTGATAATTTTATTTTTTTTCA
66 GAAACATTCAATTACTACGTTG-AATTGTTATAAATGCAGTAATTGATAATTTTATTTTTTTTCA
* * * * * *
3191630 AACAATCAAATATTGCATTGATTTGTTTTATAACACAATGATTTATACTTGTATTTAT
130 AACAATCAAATACTACATTGATTTGTTTCATAACACAGTAATTGATACTTGTATTTAT
3191688 TTCAAAAAATCAATTACTGCATTG
1 TTCAAAAAATCAATTACTGCATTG
3191712 ATTTGTTTCA
Statistics
Matches: 494, Mismatches: 82, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
184 84 0.17
185 64 0.13
186 47 0.10
187 278 0.56
188 21 0.04
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.45
Consensus pattern (187 bp):
TTCAAAAAATCAATTACTGCATTGCTATGTTGTATAACACAATATTTGATAATTGTAATTATTTT
GAAACATTCAATTACTACGTTGAATTGTTATAAATGCAGTAATTGATAATTTTATTTTTTTTCAA
ACAATCAAATACTACATTGATTTGTTTCATAACACAGTAATTGATACTTGTATTTAT
Found at i:3191633 original size:63 final size:62
Alignment explanation
Indices: 3191035--3191718 Score: 315
Period size: 62 Copynumber: 11.0 Consensus size: 62
3191025 CATTGAATCG
* * * * * * *
3191035 GTTATAAGTGCAGTAATTGATAATTTTA-TT-TTTTCAAACAATCAAATATTGCGTTGATTT
1 GTTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
** * * * * * *
3191095 GTT-TCATAATGTAGTAATTGATGCTTGTATTTATTTT-AAAAAATTAATTATTGCATTGCTAT
1 GTTAT-A-AATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* *** * * * * * * *
3191157 GTTGTATAACACAAT-ATTCGATAATTGTAATTATTTTGAAACATTCAGTTACTACCTTGAATT
1 GTTATA-AATGTAGTAATT-GATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* * * * * * * *
3191220 GATTATAAATGCAATAATTAATAATTTTATTT-TTTTCAAACAATTAAATACTACGTTGATTC
1 G-TTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* * * * * * * * *
3191282 GTTTCATAACA--CATTAATTGATACTTGTATTTA-TTTCAAAAAATCAATTCCTGCACTGCTAT
1 G-TT-ATAA-ATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* * * * * **
3191344 GTTGTATAATGTAGTATTTGATAATTGTAATTATTTTGAAACATTCAATTACTATGTTGCA-TT
1 GTTATA-AATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTG-ATTT
*** * * *
3191407 GCTTATAAACACAGTAATTGATAATTTTATTTTTTTTCAAACAATCAAAT-CTACATTGATTT
1 G-TTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* * *
3191469 GTT-TCATAATGTAGTAATTAATACTTGTATTTATTTT-AGAA-AATCAATTACTGCATTG-TTG
1 GTTAT-A-AATGTAGTAATTGATAATTGTATTTATTTTCA-AACAATCAATTACTACATTGATT-
3191530 T
62 T
* * * * * * * * * **
3191531 GTTATATA-GCACT-GTTGATTATTGTAATTGTTTTGAAACATTCAATTACTATGTTGCATTT
1 GTTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTG-ATTT
* * * * * *
3191592 GTAATAAATGTAGTAATTGATAATTTTATTTTTTTTCAAACAATCAAATATTGCATTGATTT
1 GTTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
* *** * * * * * *
3191654 GTTTTATAACACAATGATTTATACTTGTATTTA-TTTCAAAAAATCAATTACTGCATTGATTT
1 GTTATA-AATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
3191716 GTT
1 GTT
3191719 TCATAACTTT
Statistics
Matches: 454, Mismatches: 138, Indels: 62
0.69 0.21 0.09
Matches are distributed among these distances:
59 18 0.04
60 25 0.06
61 45 0.10
62 212 0.47
63 142 0.31
64 12 0.03
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (62 bp):
GTTATAAATGTAGTAATTGATAATTGTATTTATTTTCAAACAATCAATTACTACATTGATTT
Found at i:3192338 original size:17 final size:17
Alignment explanation
Indices: 3192308--3192352 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3192298 AATTTTAAAT
* *
3192308 TTTTTTAATTAATTTTA
1 TTTTTAAATCAATTTTA
3192325 TTTTTAAATCAATTTTA
1 TTTTTAAATCAATTTTA
*
3192342 TTTATAAATCA
1 TTTTTAAATCA
3192353 TTTACACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATCAATTTTA
Found at i:3194462 original size:4 final size:4
Alignment explanation
Indices: 3194453--3194495 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
3194443 ACAAGATAAC
*
3194453 AATA AATA AATA AATA AATA AACA AATAA AGATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AAT-A A-ATA AATA AATA AA
3194496 GCTATATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 25 0.74
5 4 0.12
6 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:3195089 original size:17 final size:17
Alignment explanation
Indices: 3195069--3195227 Score: 97
Period size: 17 Copynumber: 9.1 Consensus size: 17
3195059 AGATTTTAAT
3195069 ATTCATAAGAATTAAAG
1 ATTCATAAGAATTAAAG
3195086 ATTCATAAGAATTCAAAG
1 ATTCATAAGAATT-AAAG
*** * * *
3195104 ATTTGCAATACTCAAAG
1 ATTCATAAGAATTAAAG
** *
3195121 ATTCGCAAGAATTCAAAA
1 ATTCATAAGAATT-AAAG
3195139 ATTCATAAG-ATTCAAAG
1 ATTCATAAGAATT-AAAG
* * * *
3195156 ATTCACAAGACTAAAAA
1 ATTCATAAGAATTAAAG
3195173 ATTCATAAGAATTCAAA-
1 ATTCATAAGAATT-AAAG
* *
3195190 ATTTATGAGAATTTAAAG
1 ATTCATAAGAA-TTAAAG
* *
3195208 ATTCAAAAAAATTTAAAG
1 ATTCATAAGAA-TTAAAG
3195226 AT
1 AT
3195228 CCACAATTAT
Statistics
Matches: 109, Mismatches: 27, Indels: 11
0.74 0.18 0.07
Matches are distributed among these distances:
17 66 0.61
18 43 0.39
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (17 bp):
ATTCATAAGAATTAAAG
Found at i:3195152 original size:52 final size:53
Alignment explanation
Indices: 3195069--3195212 Score: 159
Period size: 52 Copynumber: 2.8 Consensus size: 53
3195059 AGATTTTAAT
* * ** * * *
3195069 ATTCATAAGAATT-AAAGATTCATAAGAATTCAAAGATTTGCAATACTCAAAG
1 ATTCACAAGAATTCAAAAATTCATAAGAATTCAAAGATTCACAAGACTAAAAA
*
3195121 ATTCGCAAGAATTCAAAAATTCATAAG-ATTCAAAGATTCACAAGACTAAAAA
1 ATTCACAAGAATTCAAAAATTCATAAGAATTCAAAGATTCACAAGACTAAAAA
* * * *
3195173 ATTCATAAGAATTC-AAAATTTATGAGAATTTAAAGATTCA
1 ATTCACAAGAATTCAAAAATTCATAAGAATTCAAAGATTCA
3195213 AAAAAATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 10 0.13
52 55 0.71
53 12 0.16
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.28
Consensus pattern (53 bp):
ATTCACAAGAATTCAAAAATTCATAAGAATTCAAAGATTCACAAGACTAAAAA
Found at i:3195154 original size:35 final size:36
Alignment explanation
Indices: 3195069--3195233 Score: 124
Period size: 35 Copynumber: 4.7 Consensus size: 36
3195059 AGATTTTAAT
* *
3195069 ATTCATAAGAATT-AAAGATTCATAAGAATTCAAAG
1 ATTCATAAGAATTCAAAGATTCACAAGAATTCAAAA
*** * * *
3195104 ATTTGCAA-TACTCAAAGATTCGCAAGAATTCAAAA
1 ATTCATAAGAATTCAAAGATTCACAAGAATTCAAAA
* *
3195139 ATTCATAAG-ATTCAAAGATTCACAAG-ACTAAAAA
1 ATTCATAAGAATTCAAAGATTCACAAGAATTCAAAA
* ** * *
3195173 ATTCATAAGAATTCAAA-ATTTATGAGAATTTAAAG
1 ATTCATAAGAATTCAAAGATTCACAAGAATTCAAAA
* * * *
3195208 ATTCAAAAAAATTTAAAGATCCACAA
1 ATTCATAAGAATTCAAAGATTCACAA
3195234 TTATAATTTT
Statistics
Matches: 97, Mismatches: 28, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
34 23 0.24
35 70 0.72
36 4 0.04
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (36 bp):
ATTCATAAGAATTCAAAGATTCACAAGAATTCAAAA
Found at i:3195375 original size:45 final size:45
Alignment explanation
Indices: 3195261--3195541 Score: 173
Period size: 45 Copynumber: 6.2 Consensus size: 45
3195251 TGCAATTGTA
* * *
3195261 AAGA-TCATAT-CTAAAATTTAAAGATTCACA-TTCAAAAATTTTTT
1 AAGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAA--TTTT
* * *** *
3195305 TAGATTCATATCTAACTTTTTAAAGA-TCACATTTGAAAAATTTT
1 AAGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAATTTT
* *
3195349 AATGATTCATATCCAAAAATTCAAAGATTTACATTTGAGAAATTTT
1 AA-GATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAATTTT
* *** * * * *
3195395 AAAAATTTGCATCCAAAATTTCAAAGA-TCACATTCGAAAAGTCTT
1 -AAGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAATTTT
* * * ** *
3195440 AGAGATTCACATTC-AATATTCAAAGATTGTCATTTAAAAAATTTTT
1 A-AGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAA-TTTT
* * * *
3195486 GAGATTCACATCCAAAAATTCAAAAATTCTCATTTG-AAAATTCTT
1 AAGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAATT-TT
3195531 AAAGATT-ATAT
1 -AAGATTCATAT
3195542 TCTTAGAGAT
Statistics
Matches: 180, Mismatches: 45, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
44 21 0.12
45 80 0.44
46 77 0.43
47 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (45 bp):
AAGATTCATATCCAAAAATTCAAAGATTCACATTTGAAAAATTTT
Found at i:3195537 original size:46 final size:45
Alignment explanation
Indices: 3195326--3195537 Score: 180
Period size: 46 Copynumber: 4.7 Consensus size: 45
3195316 CTAACTTTTT
* * *
3195326 AAAGA-TCACATTTGAAAAATTTTAATGATTCATATCCAAAAATTC
1 AAAGATTCTCATTTG-AAAATTTTAAAGATTCACATCCAAAAATTC
* ** *
3195371 AAAGATT-TACATTTGAGAAATTTTAAAAATTTGCATCCAAAATTTC
1 AAAGATTCT-CATTTGA-AAATTTTAAAGATTCACATCCAAAAATTC
* * * * * *
3195417 AAAGA-TCACATTCGAAAAGTCTTAGAGATTCACATTC-AATATTC
1 AAAGATTCTCATTTGAAAA-TTTTAAAGATTCACATCCAAAAATTC
* * **
3195461 AAAGATTGTCATTTAAAAAATTTTTGAGATTCACATCCAAAAATTC
1 AAAGATTCTCATTT-GAAAATTTTAAAGATTCACATCCAAAAATTC
*
3195507 AAAAATTCTCATTTGAAAATTCTTAAAGATT
1 AAAGATTCTCATTTGAAAATT-TTAAAGATT
3195538 ATATTCTTAG
Statistics
Matches: 128, Mismatches: 30, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
44 13 0.10
45 51 0.40
46 64 0.50
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.34
Consensus pattern (45 bp):
AAAGATTCTCATTTGAAAATTTTAAAGATTCACATCCAAAAATTC
Found at i:3195543 original size:15 final size:15
Alignment explanation
Indices: 3195525--3195554 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3195515 TCATTTGAAA
3195525 ATTCTTAAAGATTAT
1 ATTCTTAAAGATTAT
*
3195540 ATTCTTAGAGATTAT
1 ATTCTTAAAGATTAT
3195555 GCTTTAAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
ATTCTTAAAGATTAT
Found at i:3195679 original size:22 final size:22
Alignment explanation
Indices: 3195636--3195680 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3195626 TTTGAAAAGG
* *
3195636 TACCTAGAGGTTTTGAAGATCA
1 TACCTAGAGGTCTTGAAAATCA
3195658 TACCTAGAGGTCTT-ACAAATCA
1 TACCTAGAGGTCTTGA-AAATCA
3195680 T
1 T
3195681 GCCCGAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (22 bp):
TACCTAGAGGTCTTGAAAATCA
Found at i:3196097 original size:70 final size:71
Alignment explanation
Indices: 3195982--3196140 Score: 180
Period size: 70 Copynumber: 2.3 Consensus size: 71
3195972 AGCAATAATA
*** *
3195982 CAAATGCAAC-ATTCAAAA-TAGTGATTCAAATGTTTGTTAAATGATGCAAATATATGTCCAAAT
1 CAAATGCAACTA-TCAAAACTAGTGATTCAAATGTTCACTAAATGATGCAAATACATGTCCAAAT
3196045 CATCATG
65 CATCATG
* * * * *
3196052 CAAATGCAACTATCAAAACTA-TGATTCAAATGTTCACTAAGTGATGTAGATGCATGTTCAAATC
1 CAAATGCAACTATCAAAACTAGTGATTCAAATGTTCACTAAATGATGCAAATACATGTCCAAATC
*
3196116 ATGATG
66 ATCATG
* *
3196122 CAAATGTAATTATCAAAAC
1 CAAATGCAACTATCAAAAC
3196141 AAAACATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
70 72 0.96
71 3 0.04
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (71 bp):
CAAATGCAACTATCAAAACTAGTGATTCAAATGTTCACTAAATGATGCAAATACATGTCCAAATC
ATCATG
Found at i:3199488 original size:20 final size:20
Alignment explanation
Indices: 3199450--3199488 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3199440 GTGATCAAAC
*
3199450 CAAGGATCATTTTCTTTTCA
1 CAAGGATCATTTTCCTTTCA
3199470 CAAGGAT-ATTTGTCCTTTC
1 CAAGGATCATTT-TCCTTTC
3199489 CACTTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (20 bp):
CAAGGATCATTTTCCTTTCA
Found at i:3202034 original size:21 final size:22
Alignment explanation
Indices: 3202005--3202053 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
3201995 TTCTAGTTTC
3202005 TTTTC-TTGCA-TTTCATAAT-A
1 TTTTCATTGCATTTTCAT-ATCA
3202025 TTTTCATTGCATTTTCATATCA
1 TTTTCATTGCATTTTCATATCA
3202047 TTTTCAT
1 TTTTCAT
3202054 ATTTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 14 0.54
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTCATTGCATTTTCATATCA
Found at i:3202061 original size:11 final size:11
Alignment explanation
Indices: 3202015--3202055 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
3202005 TTTTCTTGCA
3202015 TTTCATAAT-AT
1 TTTCAT-ATCAT
3202026 TTTCAT-TGCAT
1 TTTCATAT-CAT
3202037 TTTCATATCAT
1 TTTCATATCAT
3202048 TTTCATAT
1 TTTCATAT
3202056 TTTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (11 bp):
TTTCATATCAT
Found at i:3202986 original size:38 final size:38
Alignment explanation
Indices: 3202920--3202993 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
3202910 ACCTTCAATG
* * *
3202920 ACCCATAAAATCCTAAACCACCTTCCAAATCCTAAATA
1 ACCCATAAAACCCTAAACCACCTACCAAACCCTAAATA
*
3202958 ACCCATGAAACCCTAAACCA-CTCACCAAACCCTAAA
1 ACCCATAAAACCCTAAACCACCT-ACCAAACCCTAAA
3202994 CTAAACCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.06
38 29 0.94
ACGTcount: A:0.45, C:0.38, G:0.01, T:0.16
Consensus pattern (38 bp):
ACCCATAAAACCCTAAACCACCTACCAAACCCTAAATA
Found at i:3203041 original size:13 final size:13
Alignment explanation
Indices: 3202995--3203082 Score: 76
Period size: 13 Copynumber: 6.9 Consensus size: 13
3202985 AACCCTAAAC
*
3202995 TAAACCTTAACC-
1 TAAACCTAAACCA
* * *
3203007 TTAACCTGAACCT
1 TAAACCTAAACCA
3203020 TAAACCT-AACCA
1 TAAACCTAAACCA
3203032 TAAACGCTAAACCA
1 TAAAC-CTAAACCA
*
3203046 TAACCCTAAACCA
1 TAAACCTAAACCA
3203059 TAAACC-AAACC-
1 TAAACCTAAACCA
*
3203070 CAAACCTTAAACC
1 TAAACC-TAAACC
3203083 CAATCCAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.08
12 24 0.38
13 26 0.41
14 9 0.14
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.18
Consensus pattern (13 bp):
TAAACCTAAACCA
Found at i:3203083 original size:13 final size:13
Alignment explanation
Indices: 3203065--3203106 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
3203055 ACCATAAACC
3203065 AAACCCAAACCTT
1 AAACCCAAACCTT
*
3203078 AAACCCAATCC--
1 AAACCCAAACCTT
3203089 AAA-CCAAACCTT
1 AAACCCAAACCTT
3203101 AAACCC
1 AAACCC
3203107 TAAATCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (13 bp):
AAACCCAAACCTT
Found at i:3203090 original size:18 final size:18
Alignment explanation
Indices: 3203039--3203094 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
3203029 CCATAAACGC
3203039 TAAACCATAACCCTAAACCA
1 TAAACCA-AACCC-AAACCA
*
3203059 TAAACCAAACCCAAACCT
1 TAAACCAAACCCAAACCA
* *
3203077 TAAACCCAATCCAAACCA
1 TAAACCAAACCCAAACCA
3203095 AACCTTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 20 0.62
19 5 0.16
20 7 0.22
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (18 bp):
TAAACCAAACCCAAACCA
Found at i:3206273 original size:30 final size:31
Alignment explanation
Indices: 3206215--3206273 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
3206205 ATAAGATAAG
3206215 AAAACAAAAAAATAATAAATAAATAATAAAC
1 AAAACAAAAAAATAATAAATAAATAATAAAC
* *
3206246 AAAA-AAAACAAATAA-AGATATATAATAA
1 AAAACAAAA-AAATAATAAATAAATAATAA
3206274 GAAAATGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (31 bp):
AAAACAAAAAAATAATAAATAAATAATAAAC
Found at i:3206916 original size:23 final size:24
Alignment explanation
Indices: 3206888--3206963 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 24
3206878 TATTTTTATA
3206888 TATAATTGATTATGTATGTATTTT
1 TATAATTGATTATGTATGTATTTT
* * *
3206912 T-TAA-TAATT-TAGGATTTATTTTAT
1 TATAATTGATTAT-GTATGTA-TTT-T
3206936 ATATAATTGATTATGTATGTATTTT
1 -TATAATTGATTATGTATGTATTTT
3206961 TAT
1 TAT
3206964 TTATGTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 1 0.03
22 9 0.23
23 6 0.15
24 5 0.13
25 2 0.05
26 6 0.15
27 9 0.23
28 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (24 bp):
TATAATTGATTATGTATGTATTTT
Found at i:3206946 original size:49 final size:50
Alignment explanation
Indices: 3206862--3206961 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 50
3206852 ATATTTTCAC
3206862 TTAACAATTTAGGATTTATTTTTATATATAATTGATTATGTATGTATTTT
1 TTAACAATTTAGGATTTATTTTTATATATAATTGATTATGTATGTATTTT
*
3206912 TTAATAATTTAGGATTTA-TTTTATATATAATTGATTATGTATGTATTTT
1 TTAACAATTTAGGATTTATTTTTATATATAATTGATTATGTATGTATTTT
3206961 T
1 T
3206962 ATTTATGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 32 0.65
50 17 0.35
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (50 bp):
TTAACAATTTAGGATTTATTTTTATATATAATTGATTATGTATGTATTTT
Found at i:3207252 original size:12 final size:11
Alignment explanation
Indices: 3207231--3207272 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
3207221 TTATTATAGA
3207231 ATTTATTATTT
1 ATTTATTATTT
3207242 ATTTATGTATTT
1 ATTTAT-TATTT
3207254 ATTTCATT-TTT
1 ATTT-ATTATTT
*
3207265 AGTTATTA
1 ATTTATTA
3207273 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 3 0.11
11 12 0.44
12 10 0.37
13 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:3208788 original size:28 final size:26
Alignment explanation
Indices: 3208747--3208798 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
3208737 GTATAAGCTC
* *
3208747 AAAAAAATTTATTCCTAATTTTTTTT
1 AAAAAAATTTATTCATAATATTTTTT
3208773 AAAAAAATATTAATTCATAATATTTT
1 AAAAAAAT-TT-ATTCATAATATTTT
3208799 CCTCTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 2 0.09
28 12 0.55
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAAAAATTTATTCATAATATTTTTT
Found at i:3208932 original size:26 final size:30
Alignment explanation
Indices: 3208901--3208968 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
3208891 TGTAAGTATT
3208901 ATATTA-ATTAATAAA-TTTAT-AA-TTAA
1 ATATTAGATTAATAAATTTTATAAATTTAA
* *
3208927 ATATTAGACTAA-AAATTTTTTAAATTTAA
1 ATATTAGATTAATAAATTTTATAAATTTAA
*
3208956 ATATTATATTAAT
1 ATATTAGATTAAT
3208969 TTGGTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.27
27 8 0.24
28 2 0.06
29 14 0.42
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
ATATTAGATTAATAAATTTTATAAATTTAA
Found at i:3209021 original size:29 final size:29
Alignment explanation
Indices: 3208964--3209017 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3208954 AAATATTATA
* *
3208964 TTAATTTGGTTTCAATTAATATTTTAATT
1 TTAATATGGTTTCAATTAAAATTTTAATT
3208993 TTAATATGGTTTC-A-TAAAATTTTAA
1 TTAATATGGTTTCAATTAAAATTTTAA
3209018 AATTATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 1 0.04
29 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (29 bp):
TTAATATGGTTTCAATTAAAATTTTAATT
Found at i:3209745 original size:62 final size:61
Alignment explanation
Indices: 3209640--3209906 Score: 188
Period size: 62 Copynumber: 4.3 Consensus size: 61
3209630 ATTATTGGGC
* * *
3209640 CAAAAATACCTTTAATAATCCTA-TC-TAAAAAATTGAAAGGGATTATTCAAGGCGTTTTTGG
1 CAAAAATACCTTGAATAAT-CTACTCAT-AAAAATTTAAAAGGATTATTCAAGGCGTTTTTGG
* * * * * *
3209701 CTAAAAATGCCTTCAATAATCTACTCATAAAAATTTAAAAGGATTATTAAATGCGTTTCTGA
1 C-AAAAATACCTTGAATAATCTACTCATAAAAATTTAAAAGGATTATTCAAGGCGTTTTTGG
* *** * * *
3209763 CAAAAATACCTTTAATAA-C--CTCATTTAATTTTTTGTAAAGGATTATTCAAAGTGTTTTTTGG
1 CAAAAATACCTTGAATAATCTACTCA--TAAAAATTT-AAAAGGATTATTCAAGGCG-TTTTTGG
* * * * *
3209825 ACAAAAACACATTGAATAAT-TACATTATAAAAA-TTAAAAGGGATTATTTAAGGTGTTTTTGG
1 -CAAAAATACCTTGAATAATCTAC-TCATAAAAATTTAAAA-GGATTATTCAAGGCGTTTTTGG
* *
3209887 CTAAAATGCCTTGAATAATC
1 CAAAAATACCTTGAATAATC
3209907 CCAAAAATAT
Statistics
Matches: 159, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
58 4 0.03
60 7 0.04
61 49 0.31
62 62 0.39
63 31 0.19
64 3 0.02
65 1 0.01
66 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (61 bp):
CAAAAATACCTTGAATAATCTACTCATAAAAATTTAAAAGGATTATTCAAGGCGTTTTTGG
Found at i:3210188 original size:17 final size:17
Alignment explanation
Indices: 3210166--3210198 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3210156 ACTATATGCC
*
3210166 AATATTTTTTTATAAAT
1 AATATTTTTATATAAAT
3210183 AATATTTTTATATAAA
1 AATATTTTTATATAAA
3210199 ATATTCCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTTTTATATAAAT
Found at i:3211361 original size:30 final size:31
Alignment explanation
Indices: 3211319--3211384 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
3211309 CATAATAAGA
* *
3211319 TTTATATAATTGTTTAGACTGTATATAATTG
1 TTTATATAATTGTTTACACTATATATAATTG
*
3211350 TTTATAT-ATTGTTTACATTATATATAATTG
1 TTTATATAATTGTTTACACTATATATAATTG
3211380 TTTAT
1 TTTAT
3211385 TTTTTACCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (31 bp):
TTTATATAATTGTTTACACTATATATAATTG
Found at i:3212033 original size:3 final size:3
Alignment explanation
Indices: 3212025--3212084 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
3212015 GTTTTTTACT
3212025 TTA TTA TTA TTA TTA TTA TTA TTA TTGA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
3212071 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
3212085 GCTTTTCTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3218530 original size:68 final size:68
Alignment explanation
Indices: 3218412--3218538 Score: 173
Period size: 68 Copynumber: 1.9 Consensus size: 68
3218402 GCATTACACT
* * **
3218412 AATGAATAAGATGTTTATAAAATTATTTTTGCTGGTATATAAATAAATGATTACCTTCTATATAT
1 AATGAATAAGATGTTTATAAAATTATTTCTACTAATATATAAATAAATGATTACCTTCTATATAT
3218477 ATG
66 ATG
** * **
3218480 AATGAATGGGATGTTTATAAAATTATTTCTACTAATATATGAATGGATGATTACCTTCT
1 AATGAATAAGATGTTTATAAAATTATTTCTACTAATATATAAATAAATGATTACCTTCT
3218539 TACCTTCTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTCTACTAATATATAAATAAATGATTACCTTCTATATAT
ATG
Found at i:3219084 original size:15 final size:15
Alignment explanation
Indices: 3219064--3219099 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3219054 GGTGTAACTC
*
3219064 TTTATCTATATTTGT
1 TTTATCGATATTTGT
*
3219079 TTTATCGATGTTTGT
1 TTTATCGATATTTGT
3219094 TTTATC
1 TTTATC
3219100 AAACTTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (15 bp):
TTTATCGATATTTGT
Found at i:3219512 original size:50 final size:52
Alignment explanation
Indices: 3219378--3219515 Score: 145
Period size: 55 Copynumber: 2.6 Consensus size: 52
3219368 ATAAAATATA
* *
3219378 ATAAAAAAATTAAAATATATAAGTCTATACTGATAATCTCTAACCATCAGTAT
1 ATAAAAAAATTAAAA-ATATAAGTTTATACTGACAATCTCTAACCATCAGTAT
* * * * * *
3219431 AGGCAAAAAAATTAAAGCATACAATTTTATACTGACAGTCTTTAACCATC-G-AT
1 A--TAAAAAAATTAAA-AATATAAGTTTATACTGACAATCTCTAACCATCAGTAT
*
3219484 ATAAAAAATTTAAAAATATAAGTTTATACTGA
1 ATAAAAAAATTAAAAATATAAGTTTATACTGA
3219516 TGGATGCTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
50 15 0.22
51 11 0.16
53 4 0.06
54 1 0.01
55 38 0.55
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (52 bp):
ATAAAAAAATTAAAAATATAAGTTTATACTGACAATCTCTAACCATCAGTAT
Found at i:3221865 original size:19 final size:20
Alignment explanation
Indices: 3221829--3221872 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3221819 ATTGCCTAGC
3221829 TTTTTTAATAATTAATAAAT
1 TTTTTTAATAATTAATAAAT
*
3221849 ATTTTTTAAT-A-TCATAAAT
1 -TTTTTTAATAATTAATAAAT
3221868 TTTTT
1 TTTTT
3221873 CAAAAATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 1 0.05
21 9 0.41
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAATAATTAATAAAT
Found at i:3222066 original size:22 final size:22
Alignment explanation
Indices: 3222031--3222086 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
3222021 ATGATATAAA
3222031 TATATATTATTATTCAT-TTAAT
1 TATATATTATTATT-ATATTAAT
3222053 TATATA-TATGTATTATATTAA-
1 TATATATTAT-TATTATATTAAT
*
3222074 TA-AAATTATTATT
1 TATATATTATTATT
3222087 TAATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 6 0.20
21 10 0.33
22 14 0.47
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATATATTATTATTATATTAAT
Found at i:3222568 original size:28 final size:25
Alignment explanation
Indices: 3222519--3222569 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
3222509 TATACAAATA
*
3222519 TATATTTTATTGTTTGTTTTAATTT
1 TATATTTTATTGTTTGTATTAATTT
3222544 TATATTTATATATGTATTGTATTAAT
1 TATATTT-TAT-TGT-TTGTATTAAT
3222570 AAAAATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 3 0.14
28 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (25 bp):
TATATTTTATTGTTTGTATTAATTT
Found at i:3224728 original size:24 final size:23
Alignment explanation
Indices: 3224696--3224747 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
3224686 CCTTTATGAG
*
3224696 TTTTTTTTTAAT-CTTTTTCTT-T
1 TTTTTTTTTTATCCTTTTT-TTAT
3224718 TTTTTTGTTTTATCCTTTTTTTAT
1 TTTTTT-TTTTATCCTTTTTTTAT
3224742 TTTTTT
1 TTTTTT
3224748 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 7 0.27
24 13 0.50
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTTATCCTTTTTTTAT
Found at i:3224736 original size:23 final size:23
Alignment explanation
Indices: 3224696--3224747 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3224686 CCTTTATGAG
*
3224696 TTTTTTTTTAATCTTTTTCTT-T
1 TTTTTTTTTAATCCTTTTCTTAT
* *
3224718 TTTTTTGTTTTATCCTTTTTTTAT
1 TTTTTT-TTTAATCCTTTTCTTAT
3224742 TTTTTT
1 TTTTTT
3224748 AAATTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 12 0.48
24 7 0.28
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTAATCCTTTTCTTAT
Found at i:3239733 original size:35 final size:35
Alignment explanation
Indices: 3239687--3239758 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
3239677 TAAGATATAA
*
3239687 AATCAAGGTAGACCGTAAGATATGCCAAATGTCAT
1 AATCAAGGTAGACCGTAAGATATACCAAATGTCAT
3239722 AATCAAGGTAGACCGTAAGATATACCAAATGTCAT
1 AATCAAGGTAGACCGTAAGATATACCAAATGTCAT
3239757 AA
1 AA
3239759 AATTTAGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (35 bp):
AATCAAGGTAGACCGTAAGATATACCAAATGTCAT
Found at i:3250665 original size:30 final size:30
Alignment explanation
Indices: 3250629--3250690 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
3250619 ACTATCATAC
3250629 TATATCTTCTGAAGTGTTTATGACTTTATG
1 TATATCTTCTGAAGTGTTTATGACTTTATG
3250659 TATATCTTCTGAAGTGTTTATGACTTTATG
1 TATATCTTCTGAAGTGTTTATGACTTTATG
3250689 TA
1 TA
3250691 AATGTACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (30 bp):
TATATCTTCTGAAGTGTTTATGACTTTATG
Found at i:3252208 original size:21 final size:21
Alignment explanation
Indices: 3252184--3252251 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
3252174 TCCGAAATTA
*
3252184 ATAAGATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
* *
3252205 ATAAAATATTATTTATAAAAT
1 ATAAAATATTATTTTTTAAAT
*
3252226 ATAAAATATTATTTTTTTAAT
1 ATAAAATATTATTTTTTAAAT
3252247 ATAAA
1 ATAAA
3252252 TATAAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3252269 original size:43 final size:42
Alignment explanation
Indices: 3252184--3252275 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
3252174 TCCGAAATTA
* ** *
3252184 ATAAGATATTATTTTTTAAATATAAAATATTATTTATAAAAT
1 ATAAAATATTATTTTTTAAATATAAAATAAAATTAATAAAAT
*
3252226 ATAAAATATTATTTTTTTAATATAAATATAAAATTAAATAAATAT
1 ATAAAATATTATTTTTTAAATATAAA-ATAAAATT-AATAAA-AT
3252271 ATAAA
1 ATAAA
3252276 TAATTAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 24 0.57
43 6 0.14
44 5 0.12
45 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (42 bp):
ATAAAATATTATTTTTTAAATATAAAATAAAATTAATAAAAT
Found at i:3252283 original size:16 final size:16
Alignment explanation
Indices: 3252242--3252283 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3252232 TATTATTTTT
3252242 TTAATATAAATATAAAA
1 TTAAT-TAAATATAAAA
*
3252259 TTAAATAAATATATAAA
1 TTAATTAAATATA-AAA
3252276 -TAATTAAA
1 TTAATTAAA
3252284 AAAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAATTAAATATAAAA
Found at i:3253858 original size:28 final size:29
Alignment explanation
Indices: 3253801--3253895 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 29
3253791 GACGCATTTC
* *
3253801 ATAAATTTTA-AATTTTATTATTTTATTTAA
1 ATAAATTATATAA-TTT-TTATTATATTTAA
3253831 ATAAATTATAT-ATTTTTATTATATTTAA
1 ATAAATTATATAATTTTTATTATATTTAA
* * * *
3253859 ACAAA-AATATAATTTTTAATTTGTATCTAA
1 ATAAATTATATAATTTTT-A-TTATATTTAA
3253889 ATAAATT
1 ATAAATT
3253896 CTTTACATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 4 0.08
28 22 0.42
29 4 0.08
30 22 0.42
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (29 bp):
ATAAATTATATAATTTTTATTATATTTAA
Found at i:3253975 original size:30 final size:30
Alignment explanation
Indices: 3253926--3253996 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
3253916 TGTGTGAAAT
*
3253926 AAAGATTTATTTAAATATAAATCAAAAGATA
1 AAAGATTTATTTAAATAT-AATAAAAAGATA
* * *
3253957 AAAG-TTTATTTGATTATAATAAAAATATA
1 AAAGATTTATTTAAATATAATAAAAAGATA
*
3253986 AAA-ACTTATTT
1 AAAGATTTATTT
3253997 TAAAAAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 19 0.56
30 11 0.32
31 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (30 bp):
AAAGATTTATTTAAATATAATAAAAAGATA
Found at i:3261055 original size:20 final size:21
Alignment explanation
Indices: 3261008--3261061 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
3260998 CGCCTAGAAC
* *
3261008 TGATCGATCCCTTTCTTGAGG
1 TGATCGATCCCTTGCCTGAGG
*
3261029 GGATCGATCCCTTGCCTG-GG
1 TGATCGATCCCTTGCCTGAGG
3261049 TGATCGATCCCTT
1 TGATCGATCCCTT
3261062 TTCTAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (21 bp):
TGATCGATCCCTTGCCTGAGG
Found at i:3261930 original size:43 final size:43
Alignment explanation
Indices: 3261882--3261965 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
3261872 CATTTTGAAT
* *
3261882 AACTCCCCCTTCATTTATGCATCCTAATCCTACACATCTCATA
1 AACTCCCCCTTAATTTATGCATCCTAATCCAACACATCTCATA
*
3261925 AACTCCCCCTTAATTTATGCATGCTAATCCAACACATCTCA
1 AACTCCCCCTTAATTTATGCATCCTAATCCAACACATCTCA
3261966 ACAAACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.31
Consensus pattern (43 bp):
AACTCCCCCTTAATTTATGCATCCTAATCCAACACATCTCATA
Found at i:3262202 original size:21 final size:21
Alignment explanation
Indices: 3262155--3262208 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
3262145 TTTCTTCATT
*
3262155 TTGTTTATGCTCTTTATACCAA
1 TTGTTTAAGCTCTTTATA-CAA
*
3262177 ATGTTTAAGCTCTTATATA-AA
1 TTGTTTAAGCTCTT-TATACAA
3262198 TTGTTATAAGC
1 TTGTT-TAAGC
3262209 ATACAAGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (21 bp):
TTGTTTAAGCTCTTTATACAA
Found at i:3262377 original size:19 final size:19
Alignment explanation
Indices: 3262353--3262390 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3262343 TAATATGCAC
3262353 AATGAAGTTCACATACATG
1 AATGAAGTTCACATACATG
3262372 AATGAAGTTCACATACATG
1 AATGAAGTTCACATACATG
3262391 TATTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AATGAAGTTCACATACATG
Found at i:3263296 original size:59 final size:62
Alignment explanation
Indices: 3263152--3263311 Score: 193
Period size: 59 Copynumber: 2.6 Consensus size: 62
3263142 TGCTTTTATA
* * * * *
3263152 CAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATG-TTTTTTCTTGATAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAATGCTCTTTTCTTGATAAATTTTAATTT
* * * *
3263214 TAAGAAAAATCGGTACTTCCAACTTTTCCTCAAAATGCTCTTTTC-T-A-AAATTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGCTCTTTTCTTGATAAATTTTAATTT
*
3263273 CAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATGCT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGCT
3263312 TTCGAAAATT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 44 0.53
60 1 0.01
61 7 0.08
62 31 0.37
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (62 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGCTCTTTTCTTGATAAATTTTAATTT
Found at i:3263396 original size:71 final size:71
Alignment explanation
Indices: 3263261--3263405 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
3263251 CTCTTTTCTA
* *
3263261 AAATTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATGCTTTCGAAAATTTTTA
1 AAATTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTCGAAAAATTTTA
3263326 TTTTAG
66 TTTTAG
* * * * **
3263332 AAATTTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCTTCAAAATATTTTTTAAAAATTTTA
1 AAATTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTCGAAAAATTTTA
*
3263397 TTTTCG
66 TTTTAG
3263403 AAA
1 AAA
3263406 AAAATTGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (71 bp):
AAATTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTCGAAAAATTTTA
TTTTAG
Found at i:3263410 original size:57 final size:59
Alignment explanation
Indices: 3263326--3263458 Score: 184
Period size: 57 Copynumber: 2.3 Consensus size: 59
3263316 AAAATTTTTA
* * *
3263326 TTTTAGAAATTTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCTTC-AAA-ATATT
1 TTTTAAAAATTTTATTTTGAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATATT
*
3263383 TTTTAAAAATTTTATTTTCGAA-AAAAATTGATACTTTCAACTTTTCCTCAAAATATATT
1 TTTTAAAAATTTTATTTT-GAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATATT
*
3263442 TTTTGAAAA-TTTATTTT
1 TTTTAAAAATTTTATTTT
3263459 ATATTTTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
57 42 0.62
58 13 0.19
59 13 0.19
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (59 bp):
TTTTAAAAATTTTATTTTGAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATATT
Found at i:3264446 original size:26 final size:25
Alignment explanation
Indices: 3264416--3264480 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
3264406 TCCTATATCT
*
3264416 TAAAATAATAATAA-AATCAAAAAAA
1 TAAAATAA-AATAAGAATAAAAAAAA
*
3264441 TCAAAATAAAAACAAGAATAAAAAAAA
1 T-AAAAT-AAAATAAGAATAAAAAAAA
3264468 TAAAATAAAATAA
1 TAAAATAAAATAA
3264481 CCAACAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 7 0.21
26 14 0.41
27 13 0.38
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (25 bp):
TAAAATAAAATAAGAATAAAAAAAA
Found at i:3264474 original size:5 final size:5
Alignment explanation
Indices: 3264416--3264480 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
3264406 TCCTATATCT
* *
3264416 TAAAA TAATAA TAAAA TCAAA -AAAA TCAAAA TAAAAA CAAGAA TAAAA
1 TAAAA TAA-AA TAAAA TAAAA TAAAA T-AAAA T-AAAA TAA-AA TAAAA
3264464 -AAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAA
3264481 CCAACAGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 7 0.14
5 25 0.50
6 18 0.36
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:3264887 original size:44 final size:44
Alignment explanation
Indices: 3264696--3264887 Score: 181
Period size: 44 Copynumber: 4.3 Consensus size: 44
3264686 TTTATTTTTT
* *
3264696 TTTAGAAAAAA-AAATAAAGCTCCTCTAAAT-AGATGCTCAATGAC
1 TTTA-AAAAAATAAATAAAGCTCCTCT-AATCAGAGGCTCAACGAC
* * * *
3264740 TTTGAGAAAAATAAACAAAGCTCTTCTAATCAGAGGCTTAACGAC
1 TTT-AAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
* * * * * * *
3264785 TTTTAAAAAATAAACAAGGCTCATCAAATCAGAGGCTTAATGAC
1 TTTAAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
** * * *
3264829 TTTGGAAAAATAAATAAAGCTCCTTTAATTAGAGGCCCAACGAC
1 TTTAAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
3264873 TTTAAAAAAATAAAT
1 TTTAAAAAAATAAAT
3264888 TGCTCTTCGA
Statistics
Matches: 120, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
44 92 0.77
45 28 0.23
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (44 bp):
TTTAAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC
Found at i:3265111 original size:22 final size:23
Alignment explanation
Indices: 3265067--3265113 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
3265057 AAGGATTCAA
*
3265067 ATTTGCAAGATCTCAAGATTCGC
1 ATTTGCAAGATCTCAAGACTCGC
3265090 ATTTGCAA-AT-TGCAAGACTCGC
1 ATTTGCAAGATCT-CAAGACTCGC
3265112 AT
1 AT
3265114 GCAATGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 13 0.59
23 8 0.36
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (23 bp):
ATTTGCAAGATCTCAAGACTCGC
Found at i:3265422 original size:20 final size:21
Alignment explanation
Indices: 3265379--3265429 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
3265369 GTTTCACATC
*
3265379 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
3265400 TCAAATATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
3265420 TCAAAGATTC
1 TCAAAGATTC
3265430 ACTTCGACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:3265480 original size:78 final size:79
Alignment explanation
Indices: 3265338--3265572 Score: 292
Period size: 78 Copynumber: 3.0 Consensus size: 79
3265328 CTCATTCTAG
* * ** * * *
3265338 TTCAAAGATTCACATCCTAACAAACTTTAAGGTTTCACATCTCAAAGATTCTTATTTGAAATTCA
1 TTCAAAGATTCACATTC-GACAAA-TTTTGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCA
* *
3265403 AATATTCTCATTTGAA
64 AAAATTCTCATTTAAA
*
3265419 TTCAAAGATTCAC-TTCGACAAATTTTGGGTTTCACACCTCAAACATTCTCATTTAAAATTCAAA
1 TTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAA
3265483 AATTCTCATTTAAA
66 AATTCTCATTTAAA
* * * * * *
3265497 TTCGAAGATTCACATTCGATAAATTTTTGGTTTCATACCTCAAAGATTCTCATTTAACACTCAAA
1 TTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAA
*
3265562 GATTCTCATTT
66 AATTCTCATTT
3265573 TAGGGTTTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 60 0.44
79 60 0.44
80 2 0.01
81 13 0.10
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (79 bp):
TTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAA
AATTCTCATTTAAA
Found at i:3265512 original size:20 final size:21
Alignment explanation
Indices: 3265457--3265496 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3265447 GTTTCACACC
*
3265457 TCAAACATTCTCATTTAAAAT
1 TCAAAAATTCTCATTTAAAAT
3265478 TCAAAAATTCTCATTTAAA
1 TCAAAAATTCTCATTTAAA
3265497 TTCGAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAAAAATTCTCATTTAAAAT
Found at i:3265597 original size:14 final size:14
Alignment explanation
Indices: 3265578--3265626 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3265568 CATTTTAGGG
3265578 TTTAAAAATTCTCA
1 TTTAAAAATTCTCA
*
3265592 TTTAAAGATT-TC-
1 TTTAAAAATTCTCA
*
3265604 -TTAAAGATTCTCA
1 TTTAAAAATTCTCA
3265617 TTTAAGAAAT
1 TTTAA-AAAT
3265627 CAAGATTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 9 0.31
12 2 0.07
13 2 0.07
14 13 0.45
15 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (14 bp):
TTTAAAAATTCTCA
Found at i:3266741 original size:24 final size:23
Alignment explanation
Indices: 3266714--3266803 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
3266704 TTAAGTCTTC
*
3266714 TTTTTTCTTTTAATCT-TTTTTTGA
1 TTTTTTCTTTT--TCTCTTTTTTCA
**
3266738 TTTTTTGATTTTCTCTTTTTTCA
1 TTTTTTCTTTTTCTCTTTTTTCA
* *
3266761 TTTTTTC--TCT-TATTTTTTCA
1 TTTTTTCTTTTTCTCTTTTTTCA
*
3266781 TTTTTTTCATTTTCTCATTTTTT
1 -TTTTTTCTTTTTCTC-TTTTTT
3266804 TCATCCATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
20 9 0.17
21 9 0.17
22 3 0.06
23 15 0.29
24 10 0.19
25 6 0.12
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTTCTTTTTCTCTTTTTTCA
Found at i:3266783 original size:8 final size:8
Alignment explanation
Indices: 3266730--3266803 Score: 60
Period size: 8 Copynumber: 8.8 Consensus size: 8
3266720 CTTTTAATCT
*
3266730 TTTTTTGA
1 TTTTTTCA
*
3266738 TTTTTTGA
1 TTTTTTCA
*
3266746 TTTTCTC-
1 TTTTTTCA
3266753 TTTTTTCA
1 TTTTTTCA
3266761 TTTTTTCTCTTA
1 -TTTTT-TC--A
3266773 TTTTTTCA
1 TTTTTTCA
3266781 TTTTTTTCA
1 -TTTTTTCA
*
3266790 TTTTCTCA
1 TTTTTTCA
3266798 TTTTTT
1 TTTTTT
3266804 TCATCCATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.11
8 26 0.47
9 13 0.24
10 4 0.07
11 5 0.09
12 1 0.02
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:3266798 original size:17 final size:17
Alignment explanation
Indices: 3266729--3266807 Score: 81
Period size: 17 Copynumber: 4.6 Consensus size: 17
3266719 TCTTTTAATC
* *
3266729 TTTTTTTGATTTTTTGA
1 TTTTTTTCATTTTTTCA
*
3266746 -TTTTCTC-TTTTTTCA
1 TTTTTTTCATTTTTTCA
3266761 TTTTTTCTCTTATTTTTTCA
1 TTTTTT-TC--ATTTTTTCA
*
3266781 TTTTTTTCATTTTCTCA
1 TTTTTTTCATTTTTTCA
3266798 TTTTTTTCAT
1 TTTTTTTCAT
3266808 CCATTTTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.13
16 9 0.17
17 20 0.38
19 2 0.04
20 14 0.27
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:3266815 original size:29 final size:28
Alignment explanation
Indices: 3266753--3266807 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
3266743 TGATTTTCTC
*
3266753 TTTTTTCATTTTTTCTCTTATTTTTTCAT
1 TTTTTTCA-TTTTTCTCATATTTTTTCAT
3266782 TTTTTTCA-TTTTCTCAT-TTTTTTCAT
1 TTTTTTCATTTTTCTCATATTTTTTCAT
3266808 CCATTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 8 0.32
29 8 0.32
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTTCATTTTTCTCATATTTTTTCAT
Found at i:3270873 original size:61 final size:57
Alignment explanation
Indices: 3270808--3270964 Score: 149
Period size: 61 Copynumber: 2.7 Consensus size: 57
3270798 TTTATACAAG
* * *
3270808 GAAAATTGATACTTTCAACTTTTCCTAAAAATGTTTTTTCTTAATAATTTTTATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTT-TTAA-AA-TGTTA-CTTTAAA
* * * *
3270869 GAAAA-TCAGTA-TTTCAAACTTTTCCTCAAAATGCTCTTTTTTGAAATGTTACTTTCAA
1 GAAAATTGA-TACTTTC-AACTTTTCCTCAAAATG-TTTTTTTTAAAATGTTACTTTAAA
*
3270927 GAAAAATTGATACTTTCAAC-TTTCCTCAAAATGCTTTT
1 G-AAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTT
3270965 GAAAATTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
57 3 0.04
58 19 0.24
59 13 0.16
60 14 0.17
61 26 0.32
62 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTAAAATGTTACTTTAAA
Found at i:3271109 original size:60 final size:60
Alignment explanation
Indices: 3270982--3271172 Score: 321
Period size: 60 Copynumber: 3.2 Consensus size: 60
3270972 TTTATTTTAG
* * * **
3270982 AAATTTTATTTTTAAGGAAAATTGATACTTTCAATTTTTCCTTAAAA-ATATTTTTTAAA
1 AAATTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
*
3271041 AAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
1 AAATTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
3271101 AAATTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
1 AAATTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
3271161 AAATTTTATTTT
1 AAATTTTATTTT
3271173 ATATTTTTTT
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 43 0.35
60 81 0.65
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (60 bp):
AAATTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAATATATTTTTTTGA
Found at i:3271265 original size:22 final size:22
Alignment explanation
Indices: 3271221--3271277 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
3271211 AAATACTCTT
*
3271221 AAAAAAATAAACAAACACATAA
1 AAAAAAATAAAAAAACACATAA
*
3271243 ATAAAAAATAAAAAAATAC-TAA
1 A-AAAAAATAAAAAAACACATAA
*
3271265 AAAAAAATCAAAA
1 AAAAAAATAAAAA
3271278 TAGCTTGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.35
22 5 0.16
23 15 0.48
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAAAAATAAAAAAACACATAA
Found at i:3271550 original size:15 final size:15
Alignment explanation
Indices: 3271530--3271576 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
3271520 CAGATCTTCC
3271530 CTTCCCCTTCTCTTT
1 CTTCCCCTTCTCTTT
*
3271545 CTTCCCTCATCT-TTT
1 CTTCCC-CTTCTCTTT
* *
3271560 CTTCTCTTTCTCTTT
1 CTTCCCCTTCTCTTT
3271575 CT
1 CT
3271577 ACCTGGATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 3 0.12
15 19 0.73
16 4 0.15
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (15 bp):
CTTCCCCTTCTCTTT
Found at i:3271886 original size:14 final size:15
Alignment explanation
Indices: 3271861--3271889 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3271851 TTGCCTTTTA
3271861 TTTTTTGCTTTTTCT
1 TTTTTTGCTTTTTCT
3271876 TTTTTTG-TTTTTCT
1 TTTTTTGCTTTTTCT
3271890 CCTTCATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTTGCTTTTTCT
Found at i:3272139 original size:5 final size:5
Alignment explanation
Indices: 3272120--3272182 Score: 67
Period size: 5 Copynumber: 12.6 Consensus size: 5
3272110 CCTATTATCT
* * *
3272120 TAAAA TAATAA TAAAA TAAAA -AAAA CAAAA TAAAA -ACAA TAATAA AAAAA
1 TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA
3272170 TAAAA TAAAA TAA
1 TAAAA TAAAA TAA
3272183 CTAACAGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
4 7 0.14
5 33 0.67
6 9 0.18
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:3276538 original size:60 final size:60
Alignment explanation
Indices: 3276412--3276538 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
3276402 TTATCCATTT
* *
3276412 AATTAATATGTGAATTAAAATATTGTTTCTTCTTTAAATTGTAATTATTTTACATTACCT
1 AATTAATATGTGAATTAAAATATTGCTTCTTCTTTAAATTGTAATTATTTTACATTACCA
* * * **
3276472 ATTTAATATGTGAATTAAAA-ACTTGCTTCTT-TTTAAAATTGTAATTGTTTTATATTTTCA
1 AATTAATATGTGAATTAAAATA-TTGCTTCTTCTTT-AAATTGTAATTATTTTACATTACCA
3276532 AATTAAT
1 AATTAAT
3276539 GTTCGTAACA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
59 4 0.07
60 53 0.93
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (60 bp):
AATTAATATGTGAATTAAAATATTGCTTCTTCTTTAAATTGTAATTATTTTACATTACCA
Found at i:3278315 original size:38 final size:37
Alignment explanation
Indices: 3278263--3278336 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
3278253 CTCATAAACC
*
3278263 ACACCAGCGCAAATCCAAGAAAAAAAAAACGAAATCAG
1 ACACCAGCGCAAATCAAAG-AAAAAAAAACGAAATCAG
* *
3278301 ACACCAGCAG-AAATCAAAGAAAGAAAGACGAAATCA
1 ACACCAGC-GCAAATCAAAGAAAAAAAAACGAAATCA
3278337 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 15 0.47
38 16 0.50
39 1 0.03
ACGTcount: A:0.58, C:0.22, G:0.15, T:0.05
Consensus pattern (37 bp):
ACACCAGCGCAAATCAAAGAAAAAAAAACGAAATCAG
Found at i:3278358 original size:12 final size:12
Alignment explanation
Indices: 3278335--3278381 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
3278325 AAGACGAAAT
*
3278335 CAAAAAAAAAAA
1 CAAAAAGAAAAA
*
3278347 AAAAAAGGAAAAA
1 CAAAAA-GAAAAA
3278360 CAAAAAGAAAAA
1 CAAAAAGAAAAA
*
3278372 C-TAAAGAAAA
1 CAAAAAGAAAA
3278382 GTTTTCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 8 0.27
12 12 0.40
13 10 0.33
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.02
Consensus pattern (12 bp):
CAAAAAGAAAAA
Found at i:3278763 original size:25 final size:25
Alignment explanation
Indices: 3278717--3278768 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
3278707 GTTCATACTA
*
3278717 TTTTAGAGAGAGGCAAAAAAAATTGAT
1 TTTTAGAGAGA-G-AAAAAAAAATGAT
3278744 TTTTAGAGAGA-AAAATAAAAATGAT
1 TTTTAGAGAGAGAAAA-AAAAATGAT
3278769 AATGAGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 8 0.35
27 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.27
Consensus pattern (25 bp):
TTTTAGAGAGAGAAAAAAAAATGAT
Found at i:3279126 original size:55 final size:54
Alignment explanation
Indices: 3279065--3279264 Score: 196
Period size: 53 Copynumber: 3.7 Consensus size: 54
3279055 AAAATACTTC
* *
3279065 AAATTTTGAGGAAAAAATTGAAATATCAAATTTTCCTTGAACAAAAGTAATTTCA
1 AAATTTTGAGGAAAAAATTGAAATATC-AATTTTCCTTAAATAAAAGTAATTTCA
* *
3279120 AAATTTTGAGGAAAAAATAGAAATAT-AGTTTTCCTTAAATAATAA-TAATTTCA
1 AAATTTTGAGGAAAAAATTGAAATATCAATTTTCCTTAAATAA-AAGTAATTTCA
** * * * * * * *
3279173 AAAAATTAAGGAGAAAGTTCAAATATC-ATTTT-TTTAAATGAAAGTAATTTTA
1 AAATTTTGAGGAAAAAATTGAAATATCAATTTTCCTTAAATAAAAGTAATTTCA
*
3279225 AAATTTT--GGAGAAAAATTGAAATATCAATCTTTTCTTAAA
1 AAATTTTGAGGA-AAAAATTGAAATATCAAT-TTTCCTTAAA
3279265 ATTAATTTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
50 3 0.03
51 14 0.12
52 21 0.18
53 47 0.40
54 7 0.06
55 25 0.21
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (54 bp):
AAATTTTGAGGAAAAAATTGAAATATCAATTTTCCTTAAATAAAAGTAATTTCA
Found at i:3279175 original size:53 final size:54
Alignment explanation
Indices: 3279048--3279175 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 54
3279038 TTTTAGTTTT
* * *
3279048 TTAAACAAAAAT-ACTTC-AAATTTTGAGGAAAAAATTGAAATATCAAATTTTCC
1 TTAAACAAAAGTAATTTCAAAATTTTGAGGAAAAAATAGAAATAT-AAATTTTCC
* *
3279101 TTGAACAAAAGTAATTTCAAAATTTTGAGGAAAAAATAGAAATAT-AGTTTTCC
1 TTAAACAAAAGTAATTTCAAAATTTTGAGGAAAAAATAGAAATATAAATTTTCC
*
3279154 TTAAATAATAA-TAATTTCAAAA
1 TTAAACAA-AAGTAATTTCAAAA
3279176 AATTAAGGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 34 0.52
54 6 0.09
55 25 0.38
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (54 bp):
TTAAACAAAAGTAATTTCAAAATTTTGAGGAAAAAATAGAAATATAAATTTTCC
Found at i:3280351 original size:23 final size:22
Alignment explanation
Indices: 3280325--3280367 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
3280315 AATAATGAAA
3280325 TAGATATTATTTAAACTATAAAG
1 TAGATATTATTTAAAC-ATAAAG
3280348 TAGATATTATTTAAACATAA
1 TAGATATTATTTAAACATAA
3280368 TATTCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TAGATATTATTTAAACATAAAG
Found at i:3288037 original size:69 final size:69
Alignment explanation
Indices: 3287961--3288309 Score: 277
Period size: 70 Copynumber: 5.0 Consensus size: 69
3287951 AAAATTAATT
*
3287961 TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGCTAAAAACCTACCAACATATTGG
1 TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGATAAAAACCTACCAACATATTGG
3288026 AGAA
66 AGAA
* * * * *
3288030 TTTTGTTGATATGAAATTTAATTTTAAAAAATTAATTTTAAGATAAAAATCTTACTAACATATTA
1 TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGATAAAAA-CCTACCAACATATT-
*
3288095 GG-GGA
64 GGAGAA
** * * *
3288100 TTTTGTTGATTTGAAATTCT-ATTTTTCAAAAA--AACAATTGAAATAAAAATCTTA-CAACGTA
1 TTTTGTTGATTTGAAATT-TAATTTTT-AAAAATTAA-TTTTGAGATAAAAA-CCTACCAACATA
*
3288161 TTAGA-AGA
62 TTGGAGA-A
* * * * *
3288169 TTTTGTTGATATGAAATTCAATTTTTAAAAAAATTAATTTTGAGACAAAATCCTACCAACTTACC
1 TTTTGTTGATTTGAAATTTAATTTTT--AAAAATTAATTTTGAGATAAAAACCTACCAACATA--
3288234 TT-G-G-A
62 TTGGAGAA
* * * * * * * * *
3288239 TTTTATTGGTTTAAAATTTAATTTTTGAAAATTAACTTTGTGAT-AAATCCTACTAATATATTGG
1 TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGATAAAAACCTACCAACATATTGG
*
3288303 AGGA
66 AGAA
3288307 TTT
1 TTT
3288310 ATATGGATTT
Statistics
Matches: 223, Mismatches: 39, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
65 2 0.01
66 1 0.00
67 14 0.06
68 19 0.09
69 78 0.35
70 81 0.36
71 23 0.10
72 3 0.01
73 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (69 bp):
TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGATAAAAACCTACCAACATATTGG
AGAA
Found at i:3288220 original size:70 final size:70
Alignment explanation
Indices: 3287961--3288218 Score: 294
Period size: 69 Copynumber: 3.7 Consensus size: 70
3287951 AAAATTAATT
* * * *
3287961 TTTTGTTGATTTGAAATTTAATTTTT-AAAAATTAATTTTGAGCTAAAAA-CCTACCAACATATT
1 TTTTGTTGATATGAAATTCAATTTTTAAAAAATTAATTTTGAGATAAAAATCTTA-CAACATATT
3288024 -GGAGAA
65 AGGAG-A
* *
3288030 TTTTGTTGATATGAAATTTAA-TTTTAAAAAATTAATTTTAAGATAAAAATCTTACTAACATATT
1 TTTTGTTGATATGAAATTCAATTTTTAAAAAATTAATTTTGAGATAAAAATCTTAC-AACATATT
*
3288094 AGGGGA
65 AGGAGA
* * ** * *
3288100 TTTTGTTGATTTGAAATTCTATTTTTCAAAAAAACAA--TTGAAATAAAAATCTTACAACGTATT
1 TTTTGTTGATATGAAATTCAATTTTT-AAAAAATTAATTTTGAGATAAAAATCTTACAACATATT
*
3288163 AGAAGA
65 AGGAGA
*
3288169 TTTTGTTGATATGAAATTCAATTTTTAAAAAAATTAATTTTGAGACAAAA
1 TTTTGTTGATATGAAATTCAATTTTT-AAAAAATTAATTTTGAGATAAAA
3288219 TCCTACCAAC
Statistics
Matches: 159, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
68 4 0.03
69 85 0.53
70 46 0.29
71 16 0.10
72 8 0.05
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (70 bp):
TTTTGTTGATATGAAATTCAATTTTTAAAAAATTAATTTTGAGATAAAAATCTTACAACATATTA
GGAGA
Found at i:3288285 original size:139 final size:137
Alignment explanation
Indices: 3287961--3288285 Score: 322
Period size: 139 Copynumber: 2.3 Consensus size: 137
3287951 AAAATTAATT
* * * * *
3287961 TTTTGTTGATTTGAAATTTAATTTTTAAAAATTAATTTTGAGCTAAAAACCTACCAACATATTGG
1 TTTTATTGATTTAAAATTTAATTTTTAAAAATTAACTTTGAGATAAAAACCTACCAACATATTGA
* * *
3288026 AGAATTTTGTTGATATGAAATTTAATTTTAAAAAATTAATTTTAAGATAAAAATCTTACTAACAT
66 AGAATTTTGTTGATATGAAATTCAATTTTAAAAAATTAATTTTAAGATAAAAATCCTACCAACAT
3288091 ATTAGGGGA
131 ATT--GGGA
* * * * * *
3288100 TTTTGTTGATTTGAAATTCT-ATTTTTCAAAAA--AACAATTGAAATAAAAATCTTA-CAACGTA
1 TTTTATTGATTTAAAATT-TAATTTTT-AAAAATTAAC-TTTGAGATAAAAA-CCTACCAACATA
* *
3288161 TTAGAAG-ATTTTGTTGATATGAAATTCAATTTTTAAAAAAATTAATTTTGAGA-CAAAATCCTA
62 TT-GAAGAATTTTGTTGATATGAAATTCAA-TTTT-AAAAAATTAATTTTAAGATAAAAATCCTA
*
3288224 CCAACTTACCTT-GGA
124 CCAACATA--TTGGGA
* * *
3288239 TTTTATTGGTTTAAAATTTAATTTTTGAAAATTAACTTTGTGATAAA
1 TTTTATTGATTTAAAATTTAATTTTTAAAAATTAACTTTGAGATAAA
3288286 TCCTACTAAT
Statistics
Matches: 154, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
138 7 0.05
139 95 0.62
140 33 0.21
141 17 0.11
142 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (137 bp):
TTTTATTGATTTAAAATTTAATTTTTAAAAATTAACTTTGAGATAAAAACCTACCAACATATTGA
AGAATTTTGTTGATATGAAATTCAATTTTAAAAAATTAATTTTAAGATAAAAATCCTACCAACAT
ATTGGGA
Found at i:3288420 original size:64 final size:63
Alignment explanation
Indices: 3288339--3288478 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 63
3288329 TTTTGAAAAA
* * * *
3288339 TAAATTCAT-AAATTCCTATCAAATTATTAAAAGATTTTATAAGTTTAAAAATAATTTTTAAGAT
1 TAAATTTATGAAA-TCCTACCAAACTATTAAAAGATTATATAAGTTTAAAAATAATTTTTAA-AT
* * * ** *
3288403 TAAATTTATGAAATCCTACCCAACTATTAGATGATTATATGGGTTTGAAAATAATTTTTAAAT
1 TAAATTTATGAAATCCTACCAAACTATTAAAAGATTATATAAGTTTAAAAATAATTTTTAAAT
*
3288466 T-AATTTTTGAAAT
1 TAAATTTATGAAAT
3288479 TAAATTCATG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 11 0.17
63 3 0.05
64 47 0.73
65 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (63 bp):
TAAATTTATGAAATCCTACCAAACTATTAAAAGATTATATAAGTTTAAAAATAATTTTTAAAT
Found at i:3288478 original size:13 final size:13
Alignment explanation
Indices: 3288446--3288481 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
3288436 ATTATATGGG
*
3288446 TTTGAAAATAATT
1 TTTGAAATTAATT
3288459 TTT-AAATTAATT
1 TTTGAAATTAATT
3288471 TTTGAAATTAA
1 TTTGAAATTAA
3288482 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTGAAATTAATT
Found at i:3293116 original size:26 final size:26
Alignment explanation
Indices: 3293086--3293155 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 26
3293076 AATAAATAAG
**
3293086 AAAATAATTACACAAAATGGTTATT-C
1 AAAATAATTACACAAAATAATT-TTAC
3293112 AAAATAATTACACAAAATAATTTTAC
1 AAAATAATTACACAAAATAATTTTAC
3293138 AAAATAAATTTACACAAA
1 AAAAT-AA-TTACACAAA
3293156 CATACTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 2 0.05
26 26 0.67
27 2 0.05
28 9 0.23
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAATAATTACACAAAATAATTTTAC
Found at i:3293127 original size:13 final size:13
Alignment explanation
Indices: 3293086--3293155 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
3293076 AATAAATAAG
3293086 AAAATAATTACAC
1 AAAATAATTACAC
** **
3293099 AAAATGGTTATTC
1 AAAATAATTACAC
3293112 AAAATAATTACAC
1 AAAATAATTACAC
**
3293125 AAAATAATTTTAC
1 AAAATAATTACAC
3293138 AAAATAAATTTACAC
1 AAAAT-AA-TTACAC
3293153 AAA
1 AAA
3293156 CATACTTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 34 0.79
14 2 0.05
15 7 0.16
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATAATTACAC
Found at i:3295257 original size:22 final size:23
Alignment explanation
Indices: 3295216--3295269 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
3295206 AAATTTTTTG
*
3295216 TTTTATATATTATTTTAATAGGAT
1 TTTTATATATTATTTAAATA-GAT
3295240 TTTTA-ATA-TATTTAAATAGAT
1 TTTTATATATTATTTAAATAGAT
*
3295261 TTATATATA
1 TTTTATATA
3295270 AAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 12 0.44
23 3 0.11
24 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTTATATATTATTTAAATAGAT
Found at i:3295326 original size:22 final size:23
Alignment explanation
Indices: 3295288--3295330 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3295278 ATTTAATTTT
3295288 ATAAAAATATAAAATATATAAAA
1 ATAAAAATATAAAATATATAAAA
*
3295311 ATAATAATA-AAAATATATAA
1 ATAAAAATATAAAATATATAA
3295331 TTCGATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
ATAAAAATATAAAATATATAAAA
Found at i:3295357 original size:13 final size:13
Alignment explanation
Indices: 3295336--3295365 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3295326 TATAATTCGA
3295336 TTTAGTTCAATTT
1 TTTAGTTCAATTT
*
3295349 TTTATTTCAATTT
1 TTTAGTTCAATTT
3295362 TTTA
1 TTTA
3295366 CATCTCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTAGTTCAATTT
Found at i:3295528 original size:22 final size:22
Alignment explanation
Indices: 3295503--3295568 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
3295493 TTCTCACCCT
3295503 TACATGAAGGTTTTGAAAAAGA
1 TACATGAAGGTTTTGAAAAAGA
**
3295525 TACATGGAA-GTTTTGATGAAGA
1 TACAT-GAAGGTTTTGAAAAAGA
* * * *
3295547 AACCTAAAGGTTTTCAAAAAGA
1 TACATGAAGGTTTTGAAAAAGA
3295569 GATTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (22 bp):
TACATGAAGGTTTTGAAAAAGA
Found at i:3297436 original size:10 final size:10
Alignment explanation
Indices: 3297423--3297454 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
3297413 CATTTCTTCA
3297423 TTTTTTTTCT
1 TTTTTTTTCT
3297433 TTTTTTTTCCT
1 TTTTTTTT-CT
3297444 TTTTTTTTCT
1 TTTTTTTTCT
3297454 T
1 T
3297455 ACACACTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:3297438 original size:12 final size:12
Alignment explanation
Indices: 3297391--3297451 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
3297381 TCAAAACTTG
*
3297391 TTTCTTTTTATT
1 TTTCTTTTTTTT
* **
3297403 TTTCTCTTTTCA
1 TTTCTTTTTTTT
*
3297415 TTTCTTCATTTTT
1 TTTCTT-TTTTTT
3297428 TTTC-TTTTTTT
1 TTTCTTTTTTTT
*
3297439 TTCCTTTTTTTT
1 TTTCTTTTTTTT
3297451 T
1 T
3297452 CTTACACACT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
11 8 0.22
12 22 0.59
13 7 0.19
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:3297452 original size:11 final size:11
Alignment explanation
Indices: 3297423--3297452 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3297413 CATTTCTTCA
3297423 TTTTTTTT-CT
1 TTTTTTTTCCT
3297433 TTTTTTTTCCT
1 TTTTTTTTCCT
3297444 TTTTTTTTC
1 TTTTTTTTC
3297453 TTACACACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTCCT
Found at i:3301351 original size:15 final size:15
Alignment explanation
Indices: 3301333--3301377 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
3301323 AACAAGATAT
*
3301333 CAATTTCACAAGCCA
1 CAATGTCACAAGCCA
* *
3301348 CAATGTCAAAAGCAA
1 CAATGTCACAAGCCA
3301363 CAATGTCACAAGCCA
1 CAATGTCACAAGCCA
3301378 TACGAGGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.29, G:0.11, T:0.16
Consensus pattern (15 bp):
CAATGTCACAAGCCA
Found at i:3310895 original size:17 final size:17
Alignment explanation
Indices: 3310875--3310908 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3310865 AATATAAAAT
3310875 AAAGAAAATTAAGTGAA
1 AAAGAAAATTAAGTGAA
* *
3310892 AAAGAACATTTAGTGAA
1 AAAGAAAATTAAGTGAA
3310909 GACAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAGAAAATTAAGTGAA
Found at i:3314979 original size:17 final size:17
Alignment explanation
Indices: 3314957--3314994 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3314947 TATTAATAAA
*
3314957 AATATATTTAATT-TATT
1 AATATATGT-ATTATATT
3314974 AATATATGTATTATATT
1 AATATATGTATTATATT
3314991 AATA
1 AATA
3314995 AAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATATATGTATTATATT
Found at i:3319145 original size:17 final size:17
Alignment explanation
Indices: 3319119--3319151 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3319109 TAATATCAAC
3319119 TAATGAACAAAAAAAAT
1 TAATGAACAAAAAAAAT
*
3319136 TAATGTACAAAAAAAA
1 TAATGAACAAAAAAAA
3319152 AAAGTTGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
TAATGAACAAAAAAAAT
Found at i:3323590 original size:15 final size:15
Alignment explanation
Indices: 3323570--3323606 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
3323560 TCAAAAGTAT
3323570 AAGAGTTTGAATCAC
1 AAGAGTTTGAATCAC
3323585 AAGAGTTTGAATCAC
1 AAGAGTTTGAATCAC
3323600 AAGAGTT
1 AAGAGTT
3323607 AGAGGTTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (15 bp):
AAGAGTTTGAATCAC
Found at i:3326447 original size:32 final size:31
Alignment explanation
Indices: 3326403--3326467 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
3326393 TTGGAAATTG
* *
3326403 AAGTAAGGCATTCAATTAGCCTTTTCTATTTA
1 AAGTAAGACATTCAACTAGCCTTTT-TATTTA
* *
3326435 AAGTAAGACATTCTACTAGCCTTTTTGTTTA
1 AAGTAAGACATTCAACTAGCCTTTTTATTTA
3326466 AA
1 AA
3326468 TCCAATCTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (31 bp):
AAGTAAGACATTCAACTAGCCTTTTTATTTA
Found at i:3329479 original size:15 final size:17
Alignment explanation
Indices: 3329449--3329483 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
3329439 TTAGGCAGTA
3329449 CTAGGTTTTCTGGGATT
1 CTAGGTTTTCTGGGATT
3329466 CTAGG-TTT-TGGGATT
1 CTAGGTTTTCTGGGATT
3329481 CTA
1 CTA
3329484 AGATCGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 3 0.17
17 5 0.28
ACGTcount: A:0.14, C:0.11, G:0.29, T:0.46
Consensus pattern (17 bp):
CTAGGTTTTCTGGGATT
Found at i:3330043 original size:25 final size:25
Alignment explanation
Indices: 3329988--3330036 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
3329978 ATAATTATAT
3329988 AAAAAAAACCTTTTCAAATAAGTCA
1 AAAAAAAACCTTTTCAAATAAGTCA
*
3330013 AAAAAAAATCTTTTCAAATAAGTC
1 AAAAAAAACCTTTTCAAATAAGTC
3330037 TTCAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAAAAACCTTTTCAAATAAGTCA
Found at i:3330100 original size:43 final size:43
Alignment explanation
Indices: 3330013--3330107 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 43
3330003 AAATAAGTCA
3330013 AAAAAAAATCTTTTCAAATAAGTCTTCAAAATAATAATAAAAAAAAC
1 AAAAAAAATCTTTT---ATAAGTCTTCAAAATAATAAT-AAAAAAAC
* * *
3330060 AAAAAAAATCTTTT-TAAGTTTTCAAAA-AATATTTATAAAAAC
1 AAAAAAAATCTTTTATAAGTCTTCAAAATAATA-ATAAAAAAAC
3330102 AAAAAA
1 AAAAAA
3330108 TCCTTTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
42 17 0.39
43 13 0.30
47 14 0.32
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.28
Consensus pattern (43 bp):
AAAAAAAATCTTTTATAAGTCTTCAAAATAATAATAAAAAAAC
Found at i:3334136 original size:1 final size:1
Alignment explanation
Indices: 3334132--3334205 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
3334122 AAAGGTATCC
* * * ** * * * **
3334132 AAAAAAAAAAAAAAAGAAAAAAAGAAAAAGAAAAAGCAAAAAAAAAAGAAACAAGAAAAAAAATG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3334197 AAAAAAAAA
1 AAAAAAAAA
3334206 GTGACAAAGG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.01
Consensus pattern (1 bp):
A
Done.