Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 274 of 332
Found at i:91529581 original size:24 final size:22
Alignment explanation
Indices: 91529546--91529589 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
91529536 AGAGTAAATA
91529546 TTTTAATATTAAAGTATTTTATAC
1 TTTTAATATTAAA--ATTTTATAC
91529570 TTTTAA-ATTTAAAATTTTAT
1 TTTTAATA-TTAAAATTTTAT
91529590 TACCTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAATATTAAAATTTTATAC
Found at i:91530888 original size:21 final size:20
Alignment explanation
Indices: 91530854--91530892 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91530844 TAAAAAAAAA
91530854 TTATTTTGTTACTATTTTTT
1 TTATTTTGTTACTATTTTTT
*
91530874 TTATTTTTTTCACTATTTT
1 TTATTTTGTT-ACTATTTT
91530893 GCTACCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTATTTTGTTACTATTTTTT
Found at i:91531741 original size:39 final size:40
Alignment explanation
Indices: 91531698--91531783 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
91531688 AAAATTTTTA
*
91531698 TTTAATGCAATAAAATATTTATTATATTTATTTGTA-T-TT
1 TTTAATACAATAAAATATTTATTATATTTATTT-TAGTGTT
*
91531737 TTTAATATAATAAAATATTTATTATATTTATTTTAGTGTT
1 TTTAATACAATAAAATATTTATTATATTTATTTTAGTGTT
91531777 TTTAATA
1 TTTAATA
91531784 TAAATACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 2 0.05
39 32 0.74
40 9 0.21
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (40 bp):
TTTAATACAATAAAATATTTATTATATTTATTTTAGTGTT
Found at i:91532200 original size:21 final size:21
Alignment explanation
Indices: 91532174--91532215 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
91532164 CCTTTAAATT
91532174 TTTTTTATGTATTAATCATAA
1 TTTTTTATGTATTAATCATAA
91532195 TTTTTTATGTATTAATCATAA
1 TTTTTTATGTATTAATCATAA
91532216 ATCAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTTTATGTATTAATCATAA
Found at i:91536585 original size:22 final size:23
Alignment explanation
Indices: 91536567--91536611 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
91536557 CAAATCAAGT
91536567 CTCTAAGATTACAAAATCATATC
1 CTCTAAGATTACAAAATCATATC
*
91536590 CTCTAAGATTAC-ATATCATATC
1 CTCTAAGATTACAAAATCATATC
91536612 TAAGATTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
CTCTAAGATTACAAAATCATATC
Found at i:91536595 original size:23 final size:22
Alignment explanation
Indices: 91536555--91536611 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
91536545 AAAGGGTATC
91536555 TACAAATCA-AGT-CTCTAAGAT
1 TACAAATCATA-TCCTCTAAGAT
91536576 TACAAAATCATATCCTCTAAGAT
1 TAC-AAATCATATCCTCTAAGAT
*
91536599 TACATATCATATC
1 TACAAATCATATC
91536612 TAAGATTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 13 0.41
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (22 bp):
TACAAATCATATCCTCTAAGAT
Found at i:91536615 original size:19 final size:20
Alignment explanation
Indices: 91536567--91536624 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
91536557 CAAATCAAGT
*
91536567 CTCTAAGATTACAAAATCATA
1 CTCTAAGATTAC-ATATCATA
91536588 TCCTCTAAGATTACATATCATA
1 --CTCTAAGATTACATATCATA
*
91536610 -TCTAAGATTGCATAT
1 CTCTAAGATTACATAT
91536625 ATTTGAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.42
22 7 0.21
23 12 0.36
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (20 bp):
CTCTAAGATTACATATCATA
Found at i:91538641 original size:30 final size:29
Alignment explanation
Indices: 91538605--91538664 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
91538595 CAAATTTCAG
91538605 GAGCCACAAGGGTCGGA-CACACGGCCATGT
1 GAGCCACAAGGG-C-GACCACACGGCCATGT
* *
91538635 GAGCCACACGGGCTACCACACGGCCATGT
1 GAGCCACAAGGGCGACCACACGGCCATGT
91538664 G
1 G
91538665 CCAAATCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 15 0.56
30 11 0.41
ACGTcount: A:0.25, C:0.33, G:0.32, T:0.10
Consensus pattern (29 bp):
GAGCCACAAGGGCGACCACACGGCCATGT
Found at i:91539351 original size:26 final size:26
Alignment explanation
Indices: 91539322--91539372 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
91539312 TAAAAAAAAC
91539322 ACAAAAATAAATACCAAAATGGGTTT
1 ACAAAAATAAATACCAAAATGGGTTT
*
91539348 ACAAAAATAAATACTAAAATGGGTT
1 ACAAAAATAAATACCAAAATGGGTT
91539373 ATTTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (26 bp):
ACAAAAATAAATACCAAAATGGGTTT
Found at i:91543144 original size:3 final size:3
Alignment explanation
Indices: 91543136--91543184 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
91543126 TGAATTCCTA
* * *
91543136 TCT TCT TCT TCT TCT TTT TAT TCT TTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
91543184 T
1 T
91543185 TGTTAGGAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:91547847 original size:3 final size:3
Alignment explanation
Indices: 91547832--91547873 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
91547822 AATCTTGATA
*
91547832 TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
91547874 AAAATTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:91549254 original size:21 final size:18
Alignment explanation
Indices: 91549228--91549268 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 18
91549218 ATAGAACATA
91549228 AAGAATTATTTAAAATTTATT
1 AAGAATTA--TAAAATTT-TT
91549249 AAGAATTATAAAATTTTT
1 AAGAATTATAAAATTTTT
91549267 AA
1 AA
91549269 AATAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
21 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
AAGAATTATAAAATTTTT
Found at i:91549381 original size:10 final size:9
Alignment explanation
Indices: 91549353--91549409 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
91549343 TAAAAAATAT
*
91549353 TTATAAATA
1 TTATAAAAA
*
91549362 TT-TATAAA
1 TTATAAAAA
91549370 TTATAAATAA
1 TTATAAA-AA
*
91549380 TTATTAAAA
1 TTATAAAAA
*
91549389 TTTTCAAAAA
1 TTAT-AAAAA
91549399 TTATAAAAA
1 TTATAAAAA
91549408 TT
1 TT
91549410 GTATATACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
8 6 0.16
9 17 0.45
10 15 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
TTATAAAAA
Found at i:91549391 original size:27 final size:29
Alignment explanation
Indices: 91549347--91549409 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
91549337 AAAATATAAA
* *
91549347 AAATATTTATAAATA-TTT-ATAAATTAT
1 AAATAATTATAAATATTTTCAAAAATTAT
91549374 AAATAATTATTAAA-ATTTTCAAAAATTAT
1 AAATAATTA-TAAATATTTTCAAAAATTAT
91549403 AAA-AATT
1 AAATAATT
91549410 GTATATACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 9 0.29
28 11 0.35
29 11 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATAATTATAAATATTTTCAAAAATTAT
Found at i:91549688 original size:11 final size:11
Alignment explanation
Indices: 91549666--91549765 Score: 55
Period size: 11 Copynumber: 8.7 Consensus size: 11
91549656 TGACATTATT
91549666 TTTTTAATATAA
1 TTTTTAA-ATAA
91549678 TTTTTAAATAA
1 TTTTTAAATAA
* *
91549689 TTTCTAAAAAA
1 TTTTTAAATAA
*
91549700 TATAATTTCTAATAA
1 T-T--TTT-AAATAA
* *
91549715 ATTTT-AATAC
1 TTTTTAAATAA
91549725 TTTTTAAATAA
1 TTTTTAAATAA
91549736 TTTTCTACAAT-A
1 TTTT-TA-AATAA
91549748 TTTTT--ATAA
1 TTTTTAAATAA
91549757 TTATTTAAA
1 TT-TTTAAA
91549766 AAACCACGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
8 2 0.03
9 3 0.04
10 11 0.16
11 23 0.34
12 19 0.28
13 3 0.04
14 3 0.04
15 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:91549704 original size:16 final size:16
Alignment explanation
Indices: 91549685--91549716 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
91549675 TAATTTTTAA
91549685 ATAATTTCTAAAAAAT
1 ATAATTTCTAAAAAAT
*
91549701 ATAATTTCTAATAAAT
1 ATAATTTCTAAAAAAT
91549717 TTTAATACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTTCTAAAAAAT
Found at i:91549826 original size:11 final size:11
Alignment explanation
Indices: 91549812--91549854 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
91549802 TTTTAAATAA
91549812 TTATTAATTTT
1 TTATTAATTTT
91549823 TTATTAATTTT
1 TTATTAATTTT
*
91549834 TTA--GATTTT
1 TTATTAATTTT
91549843 TT-TTAATTTT
1 TTATTAATTTT
91549853 TT
1 TT
91549855 TGCCACATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.25
10 7 0.25
11 14 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATTAATTTT
Found at i:91552686 original size:26 final size:26
Alignment explanation
Indices: 91552657--91552764 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
91552647 TGGTACAAAT
91552657 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
91552683 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91552709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91552735 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91552761 TGAT
1 TGAT
91552765 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91554281 original size:26 final size:26
Alignment explanation
Indices: 91554252--91554304 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
91554242 TTTACAGTTT
91554252 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
91554278 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
91554304 T
1 T
91554305 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:91556797 original size:14 final size:14
Alignment explanation
Indices: 91556765--91556798 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91556755 TGTTTATATG
91556765 TAAAATAATTTCCA
1 TAAAATAATTTCCA
* *
91556779 GAAAATAATTTCTA
1 TAAAATAATTTCCA
91556793 TAAAAT
1 TAAAAT
91556799 GAGTTACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAAATAATTTCCA
Found at i:91561517 original size:46 final size:45
Alignment explanation
Indices: 91561452--91561814 Score: 433
Period size: 46 Copynumber: 7.9 Consensus size: 45
91561442 TTATCTTTGA
* * * *
91561452 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTGT
* *
91561498 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTGT
*** * *
91561544 CACACTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CTGT
*
91561590 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGT
** * * * * *
91561635 CACATTACCATTGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGT
* *
91561681 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGT
* *
91561727 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCT-GT
91561773 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTC
91561815 ATTTCAGAGA
Statistics
Matches: 283, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.00
45 39 0.14
46 243 0.86
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTGT
Found at i:91561614 original size:92 final size:92
Alignment explanation
Indices: 91561457--91561816 Score: 499
Period size: 92 Copynumber: 3.9 Consensus size: 92
91561447 TTTGACATGA
* * * * * *
91561457 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCATGTTGCCATGGTATCTTTCAAC
* * *
91561522 CATGGTCTTATTCATTTTATGTCACAC
66 CATGGTCTTATACATTTCATGTCACAT
** **
91561549 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCATGTTGCCATGGTATCTTTCAAC
*
91561614 CATGGTCTTATTC-TTTCATGTCACAT
66 CATGGTCTTATACATTTCATGTCACAT
* * * *
91561640 TACCATTGTATCTTTCAACCATGGTTTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCATGTTGCCATGGTATCTTTCAAC
* * **
91561705 CATGGTCTTACACATTTCATATCATGT
66 CATGGTCTTATACATTTCATGTCACAT
91561732 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CTAATCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCT-ATCATGTTGCCATGGTATCTTTCAA
91561796 CCATGGTCTTATACATTTCAT
65 CCATGGTCTTATACATTTCAT
91561817 TTCAGAGAGC
Statistics
Matches: 240, Mismatches: 26, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
91 80 0.33
92 160 0.67
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCTATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATACATTTCATGTCACAT
Found at i:91561744 original size:183 final size:184
Alignment explanation
Indices: 91561467--91561816 Score: 524
Period size: 183 Copynumber: 1.9 Consensus size: 184
91561457 TGCCATAGTG
* * *
91561467 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * ** **
91561532 TTCATTTTATGTCACACTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTG
66 CACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCAATCATGTTG
*
91561597 CCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGTCACATTACCATTGTA
131 CCATGGTATCTTTCAACCATGGTCTTATACATTTCATGTCACATTACCATTGTA
*
91561650 TCTTTCAACCATGGTTTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
*** *
91561714 ACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAATCATGTT
65 ACACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCAATCATGTT
91561779 GCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
130 GCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
91561817 TTCAGAGAGC
Statistics
Matches: 148, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
182 4 0.03
183 138 0.93
184 6 0.04
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (184 bp):
TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCCAATCATGTTG
CCATGGTATCTTTCAACCATGGTCTTATACATTTCATGTCACATTACCATTGTA
Found at i:91565351 original size:29 final size:29
Alignment explanation
Indices: 91565290--91565379 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
91565280 CACATACCTG
* *
91565290 TATATGGCCCACTAGG-CCTAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
91565318 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
91565347 TATATGGCCCATCAAGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
91565376 TATA
1 TATA
91565380 ATCATGCTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 15 0.27
29 41 0.73
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:91571339 original size:16 final size:16
Alignment explanation
Indices: 91571307--91571336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91571297 TTCTCTTGTG
91571307 TTTGTTATGTTTATTA
1 TTTGTTATGTTTATTA
91571323 TTTGTTAT-TTTATT
1 TTTGTTATGTTTATT
91571337 TATGGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (16 bp):
TTTGTTATGTTTATTA
Found at i:91571339 original size:25 final size:25
Alignment explanation
Indices: 91571311--91571361 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
91571301 CTTGTGTTTG
91571311 TTAT-GTTTA-TTATTTGTTATTTTAT
1 TTATGGTTTATTTA-TT-TTATTTTAT
*
91571336 TTATGGTTTGTTTATTTTATTTTAT
1 TTATGGTTTATTTATTTTATTTTAT
91571361 T
1 T
91571362 CTTGTGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 14 0.61
26 6 0.26
27 3 0.13
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.73
Consensus pattern (25 bp):
TTATGGTTTATTTATTTTATTTTAT
Found at i:91583684 original size:12 final size:12
Alignment explanation
Indices: 91583667--91583691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91583657 GAGACCTTCT
91583667 AAAAAAAAGAAA
1 AAAAAAAAGAAA
91583679 AAAAAAAAGAAA
1 AAAAAAAAGAAA
91583691 A
1 A
91583692 TAGAGAGGCC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:91584728 original size:89 final size:88
Alignment explanation
Indices: 91584628--91584820 Score: 199
Period size: 88 Copynumber: 2.2 Consensus size: 88
91584618 ACCAGCCTTA
* * * * * * *
91584628 TCTCTCTGAAATTGCAGCGGGGTAGACTGAAGAAAGTAAATCTTATCTTCTTGAAGTTCCAGCAG
1 TCTCCCTGAAATTACAGCGGAGTAAACTGAAGAAA-CAAACCTTATCTCCTTGAAGTTCCA-CAG
*
91584693 -AGTAGATCGAAGCTACAAATCTCT
64 AAATAGATCGAAGCTACAAATCTCT
** * ** * ** *
91584717 TCTCCCTGAAATTACATTGGAGTAAATTGAAGCCACCAACCTTATCTCCTTGAAGTTTTACCGAA
1 TCTCCCTGAAATTACAGCGGAGTAAACTGAAGAAACAAACCTTATCTCCTTGAAGTTCCACAGAA
*
91584782 ATAGATCGAAGTTACAAATCTCT
66 ATAGATCGAAGCTACAAATCTCT
91584805 TCTCCCTGAAATTACA
1 TCTCCCTGAAATTACA
91584821 TTGGAACAGA
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
87 2 0.02
88 57 0.67
89 26 0.31
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (88 bp):
TCTCCCTGAAATTACAGCGGAGTAAACTGAAGAAACAAACCTTATCTCCTTGAAGTTCCACAGAA
ATAGATCGAAGCTACAAATCTCT
Found at i:91584740 original size:44 final size:44
Alignment explanation
Indices: 91584695--91584842 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 44
91584685 TCCAGCAGAG
* *
91584695 TAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAG
1 TAGATCGAAGCCACAAATCTCTTCTCCCTGAAATTACATTGGAA
* * * * * * ** ** *
91584739 TAAATTGAAGCCACCAACCT-TATCTCCTTGAAGTTTTACCGAAA
1 TAGATCGAAGCCACAAATCTCT-TCTCCCTGAAATTACATTGGAA
**
91584783 TAGATCGAAGTTACAAATCTCTTCTCCCTGAAATTACATTGGAA
1 TAGATCGAAGCCACAAATCTCTTCTCCCTGAAATTACATTGGAA
*
91584827 CAGATCGAAGCCACAA
1 TAGATCGAAGCCACAA
91584843 TCCTTATTTC
Statistics
Matches: 73, Mismatches: 29, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 1 0.01
44 71 0.97
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (44 bp):
TAGATCGAAGCCACAAATCTCTTCTCCCTGAAATTACATTGGAA
Found at i:91586708 original size:16 final size:17
Alignment explanation
Indices: 91586689--91586732 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
91586679 TTACCTTAAA
91586689 ATTTTTATATA-CATTT
1 ATTTTTATATACCATTT
*
91586705 A-TTTTATCTTACCATTT
1 ATTTTTAT-ATACCATTT
91586722 ATTTTTATATA
1 ATTTTTATATA
91586733 TATCCTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 8 0.35
18 6 0.26
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTATATACCATTT
Found at i:91586939 original size:16 final size:16
Alignment explanation
Indices: 91586907--91586936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91586897 TTCTCTTGTG
91586907 TTTGTTATGTTTATTA
1 TTTGTTATGTTTATTA
91586923 TTTGTTAT-TTTATT
1 TTTGTTATGTTTATT
91586937 TATGGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (16 bp):
TTTGTTATGTTTATTA
Found at i:91586939 original size:25 final size:25
Alignment explanation
Indices: 91586911--91586961 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
91586901 CTTGTGTTTG
91586911 TTAT-GTTTA-TTATTTGTTATTTTAT
1 TTATGGTTTATTTA-TT-TTATTTTAT
*
91586936 TTATGGTTTGTTTATTTTATTTTAT
1 TTATGGTTTATTTATTTTATTTTAT
91586961 T
1 T
91586962 CTTGTGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 14 0.61
26 6 0.26
27 3 0.13
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.73
Consensus pattern (25 bp):
TTATGGTTTATTTATTTTATTTTAT
Found at i:91589975 original size:22 final size:22
Alignment explanation
Indices: 91589924--91589984 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
91589914 AAAGAGTCGA
**
91589924 ATTAAATTATAATTTTTATTAT
1 ATTAAATTATAATTTTTAAAAT
*
91589946 AGTAAAATTATAATTTTTAAAAT
1 A-TTAAATTATAATTTTTAAAAT
91589969 ATTAAATTGA-AATTTT
1 ATTAAATT-ATAATTTT
91589985 ATCATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTAAATTATAATTTTTAAAAT
Found at i:91590796 original size:27 final size:27
Alignment explanation
Indices: 91590731--91590787 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
91590721 ATATTTTTCC
91590731 AAAAAAATT--AAAATATATATAAATT
1 AAAAAAATTAAAAAATATATATAAATT
*
91590756 AAAAAAATTAAAAAATATATATATATT
1 AAAAAAATTAAAAAATATATATAAATT
91590783 AAAAA
1 AAAAA
91590788 CGTATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 9 0.31
27 20 0.69
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAAAATTAAAAAATATATATAAATT
Found at i:91598911 original size:27 final size:27
Alignment explanation
Indices: 91598873--91598929 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
91598863 AAGAGCAGAC
*
91598873 AAAAATTTTTAAAATTGATAACTTATT
1 AAAAAATTTTAAAATTGATAACTTATT
91598900 AAAAAATTTTAAAATTGATAACTTATT
1 AAAAAATTTTAAAATTGATAACTTATT
91598927 AAA
1 AAA
91598930 CAATGGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (27 bp):
AAAAAATTTTAAAATTGATAACTTATT
Found at i:91598940 original size:27 final size:27
Alignment explanation
Indices: 91598883--91598940 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
91598873 AAAAATTTTT
***
91598883 AAAATTGATAACTTATTAAAAAATTTT
1 AAAATTGATAACTTATTAAAAAATGGA
*
91598910 AAAATTGATAACTTATTAAACAATGGA
1 AAAATTGATAACTTATTAAAAAATGGA
91598937 AAAA
1 AAAA
91598941 CAAACAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTGATAACTTATTAAAAAATGGA
Found at i:91602687 original size:14 final size:14
Alignment explanation
Indices: 91602668--91602694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91602658 AGATATTGTT
91602668 AATGCTGTCAAGTC
1 AATGCTGTCAAGTC
91602682 AATGCTGTCAAGT
1 AATGCTGTCAAGT
91602695 TTGAAAGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (14 bp):
AATGCTGTCAAGTC
Found at i:91606752 original size:33 final size:33
Alignment explanation
Indices: 91606715--91606780 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
91606705 CAGTTATTAA
* *
91606715 TCAAATGCAGTCT-GGCCTAAGCTCATTACAGAT
1 TCAAATACAGTCTAGGCCTAAGCCCATT-CAGAT
* *
91606748 TCAAATACAGTTTAGGCCTTAGCCCATTCAGAT
1 TCAAATACAGTCTAGGCCTAAGCCCATTCAGAT
91606781 ACAGTATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (33 bp):
TCAAATACAGTCTAGGCCTAAGCCCATTCAGAT
Found at i:91610956 original size:25 final size:26
Alignment explanation
Indices: 91610909--91610963 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
91610899 TTTTAATCCT
*
91610909 TTTTAAATTTTTATATAATTTATTTA
1 TTTTAAATTTATATATAATTTATTTA
91610935 TTTTAAATATTATATAT-A-TTATTTA
1 TTTTAAAT-TTATATATAATTTATTTA
91610960 TTTT
1 TTTT
91610964 TACTATAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.41
26 9 0.33
27 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTAAATTTATATATAATTTATTTA
Found at i:91610964 original size:26 final size:27
Alignment explanation
Indices: 91610908--91610965 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
91610898 ATTTTAATCC
*
91610908 TTTTTAAATTTTTATATAATTTATTTA
1 TTTTTAAATTTATATATAATTTATTTA
91610935 -TTTTAAATATTATATAT-A-TTATTTA
1 TTTTTAAAT-TTATATATAATTTATTTA
91610960 TTTTTA
1 TTTTTA
91610966 CTATAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.25
26 14 0.50
27 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTTAAATTTATATATAATTTATTTA
Found at i:91611041 original size:12 final size:12
Alignment explanation
Indices: 91610998--91611164 Score: 83
Period size: 12 Copynumber: 13.6 Consensus size: 12
91610988 TAAAAAGTTA
91610998 TTATATATATTAT
1 TTAT-TATATTAT
*
91611011 TT-TTATTTTTAT
1 TTATTA-TATTAT
*
91611023 TT-GTATATTAT
1 TTATTATATTAT
91611034 TTATTATATTAT
1 TTATTATATTAT
*
91611046 TTACATTTTATTAT
1 TT--ATTATATTAT
* *
91611060 ATATTTTGATTTAT
1 TTATTAT-A-TTAT
** *
91611074 ACATTTTATTAT
1 TTATTATATTAT
* * *
91611086 ATATCATTTTA-
1 TTATTATATTAT
91611097 TTATATATATTAT
1 TTAT-TATATTAT
*
91611110 TCATTATATTATTT
1 TTATTATATTA--T
*
91611124 TTATTTTATTAT
1 TTATTATATTAT
* *
91611136 ATATTATA-TAA
1 TTATTATATTAT
91611147 TTATT-TATTAT
1 TTATTATATTAT
91611158 TTATTAT
1 TTATTAT
91611165 TATGTATAAT
Statistics
Matches: 120, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
10 2 0.02
11 25 0.21
12 56 0.47
13 7 0.06
14 30 0.25
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:91611057 original size:19 final size:19
Alignment explanation
Indices: 91611033--91611137 Score: 67
Period size: 19 Copynumber: 5.5 Consensus size: 19
91611023 TTGTATATTA
91611033 TTTATTATATTATTTACAT
1 TTTATTATATTATTTACAT
**
91611052 TTTATTATA-TATTTTGAT
1 TTTATTATATTATTTACAT
* *
91611070 TTATACATTTTATTATATATCAT
1 TT-T--ATTATATTATTTA-CAT
91611093 TTTATTATA-TATATT--A-
1 TTTATTATATTAT-TTACAT
* **
91611109 TTCATTATATTATTTTTAT
1 TTTATTATATTATTTACAT
91611128 TTTATTATAT
1 TTTATTATAT
91611138 ATTATATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
16 10 0.15
17 4 0.06
18 10 0.15
19 22 0.33
20 6 0.09
21 5 0.08
22 5 0.08
23 4 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTATTATATTATTTACAT
Found at i:91611057 original size:26 final size:26
Alignment explanation
Indices: 91611028--91611144 Score: 107
Period size: 26 Copynumber: 4.6 Consensus size: 26
91611018 TTTATTTGTA
*
91611028 TATTATTTATTATATTATTTACATTT
1 TATTATATATTATATTATTTACATTT
* *
91611054 TATTATATATTTTGATT-TATACATTT
1 TATTATATATTAT-ATTATTTACATTT
* * * *
91611080 TATTATATATCATTTTA-TTATA-TA
1 TATTATATATTATATTATTTACATTT
**
91611104 TATTAT-TCATTATATTATTTTTATTT
1 TATTATAT-ATTATATTATTTACATTT
91611130 TATTATATATTATAT
1 TATTATATATTATAT
91611145 AATTATTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.19
25 9 0.12
26 44 0.61
27 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTATATATTATATTATTTACATTT
Found at i:91611059 original size:14 final size:14
Alignment explanation
Indices: 91611040--91611118 Score: 83
Period size: 14 Copynumber: 5.6 Consensus size: 14
91611030 TTATTTATTA
*
91611040 TATTATTTACATTT
1 TATTATATACATTT
91611054 TATTATAT--ATTT
1 TATTATATACATTT
91611066 TGATT-TATACATTT
1 T-ATTATATACATTT
91611080 TATTATATATCATTT
1 TATTATATA-CATTT
*
91611095 TATTATATATATTAT
1 TATTATATACATT-T
91611110 TCATTATAT
1 T-ATTATAT
91611119 TATTTTTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.14
13 6 0.11
14 19 0.34
15 16 0.29
16 7 0.12
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (14 bp):
TATTATATACATTT
Found at i:91611097 original size:60 final size:60
Alignment explanation
Indices: 91610942--91611167 Score: 149
Period size: 58 Copynumber: 3.9 Consensus size: 60
91610932 TTATTTTAAA
* * * **
91610942 TATTATATATATTATTTAT--TTTTA-CTATA-AACA-TTATT-TATATATGTA-AAAAGT
1 TATTATATATATTATTTATAATTTTATTTATATATCATTTATTATATATAT-TATACATTT
* * * *
91610996 TATTATATATATTATTTTTATTTTTATTTGTATATTATTTATTATAT-TATT-TACATTT
1 TATTATATATATTATTTATAATTTTATTTATATATCATTTATTATATATATTATACATTT
* * *
91611054 TATTATATATTTTGATTTATACATTTTA-TTATATATCATTTTATTATATATATTATTCATTA
1 TATTATATATATT-ATTTATA-ATTTTATTTATATATCA-TTTATTATATATATTATACATTT
* * *
91611116 TATTAT-T-T-TTATTT-T-ATTATATATTATATAATTATTTATTATTTATTATTAT
1 TATTATATATATTATTTATAATTTTAT-TTATAT-ATCATTTATTATATA-TATTAT
91611168 GTATAATTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
54 18 0.13
55 5 0.04
56 5 0.04
57 20 0.14
58 31 0.22
59 24 0.17
60 19 0.14
61 5 0.04
62 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (60 bp):
TATTATATATATTATTTATAATTTTATTTATATATCATTTATTATATATATTATACATTT
Found at i:91611123 original size:29 final size:29
Alignment explanation
Indices: 91610995--91611164 Score: 79
Period size: 26 Copynumber: 5.7 Consensus size: 29
91610985 ATGTAAAAAG
* * *
91610995 TTATTATATATATTATTTTTATTTTTATTT
1 TTATTATAT-TATTATTATTATATATATTT
* *
91611025 GTATATTAT-TTATTA-TATTATTTACA-TT
1 -T-TATTATATTATTATTATTATATATATTT
*
91611053 TTATTATA-TATT-TTGATT-TATACA-TT
1 TTATTATATTATTATT-ATTATATATATTT
91611079 TTATTATATATCATT-TTATTATATATATTAT
1 TTATTATAT-T-ATTATTATTATATATATT-T
* *
91611110 TCATTATATTATTTTTATTTTATTATATATTAT
1 TTATTATATTATTATTA--TTA-TATATATT-T
*
91611143 ATAATTAT-TTATTATTTATTAT
1 -TTATTATATTATTA-TTATTAT
91611165 TATGTATAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 32
0.74 0.05 0.21
Matches are distributed among these distances:
26 26 0.23
27 4 0.03
28 6 0.05
29 21 0.18
30 10 0.09
31 12 0.10
32 12 0.10
33 15 0.13
34 9 0.08
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (29 bp):
TTATTATATTATTATTATTATATATATTT
Found at i:91611597 original size:37 final size:41
Alignment explanation
Indices: 91611556--91611638 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 41
91611546 TATTTTTATG
91611556 TTATTTA-TTGTT-TTTT-A-TATATTTGCATGAAA-ATTGA
1 TTATTTAGTTGTTATTTTAAGTATATTTGCATGAAATATT-A
91611593 TTATTTATGTTGTTATTTTAAGTTATATTTGCATGAAATATTA
1 TTATTTA-GTTGTTATTTTAAG-TATATTTGCATGAAATATTA
91611636 TTA
1 TTA
91611639 CATATGTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
37 7 0.18
39 5 0.13
40 4 0.10
41 1 0.03
43 19 0.49
44 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (41 bp):
TTATTTAGTTGTTATTTTAAGTATATTTGCATGAAATATTA
Found at i:91615189 original size:16 final size:16
Alignment explanation
Indices: 91615168--91615200 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
91615158 TAAAATTAAC
91615168 AGAGAGAGAGAGAAAG
1 AGAGAGAGAGAGAAAG
*
91615184 AGAGAGTGAGAGAAAG
1 AGAGAGAGAGAGAAAG
91615200 A
1 A
91615201 CAAAATCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (16 bp):
AGAGAGAGAGAGAAAG
Found at i:91631670 original size:33 final size:33
Alignment explanation
Indices: 91631633--91631765 Score: 171
Period size: 33 Copynumber: 4.0 Consensus size: 33
91631623 TTGAACAGAA
*
91631633 TGATGAAGCTATCCC-GATAGATATTCCAATCAC
1 TGATGAAGCTA-CCCTGATAGATGTTCCAATCAC
* *
91631666 TGATGAAGCTACCCTAATAGATGTTCCAATCAA
1 TGATGAAGCTACCCTGATAGATGTTCCAATCAC
* * *
91631699 TGATGAAGCTGCCCCTG-TAGATGGTCCAATCAT
1 TGATGAAGCT-ACCCTGATAGATGTTCCAATCAC
*
91631732 TGATGAAGCTGCCCTGATAGATGTTCCAATCAC
1 TGATGAAGCTACCCTGATAGATGTTCCAATCAC
91631765 T
1 T
91631766 TATGTTGAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
32 8 0.09
33 75 0.86
34 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (33 bp):
TGATGAAGCTACCCTGATAGATGTTCCAATCAC
Found at i:91638716 original size:45 final size:45
Alignment explanation
Indices: 91638652--91638742 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
91638642 AAAACATGTC
91638652 TCATTTTGAAAAAGTAAAAAACACATAGTTTTTTACTTTCTATTA
1 TCATTTTGAAAAAGTAAAAAACACATAGTTTTTTACTTTCTATTA
91638697 TCATTTTGAAAAAGTAAAAAACACATAGTTTTTTACTTTCTATTA
1 TCATTTTGAAAAAGTAAAAAACACATAGTTTTTTACTTTCTATTA
91638742 T
1 T
91638743 TACCTTAAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (45 bp):
TCATTTTGAAAAAGTAAAAAACACATAGTTTTTTACTTTCTATTA
Found at i:91643158 original size:33 final size:33
Alignment explanation
Indices: 91643121--91643253 Score: 158
Period size: 33 Copynumber: 4.0 Consensus size: 33
91643111 AGTTGAATAG
*
91643121 AATGATGAAGCTGCCCCGATAGATATTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* ** *
91643154 AATGATGAAGCTACCCTAATAGATGTTCCCATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* * *
91643187 AATGATGAAGATGCCCCGGTAGATGGTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* * * *
91643220 ATTAATGAAGCTGGCCTGATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
91643253 A
1 A
91643254 CTTATGTTGA
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (33 bp):
AATGATGAAGCTGCCCCGATAGATGTTCCAATC
Found at i:91643204 original size:66 final size:66
Alignment explanation
Indices: 91643121--91643253 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 66
91643111 AGTTGAATAG
* * * *
91643121 AATGATGAAGCTGCCCCGATAGATATTCCAATCAATGATGAAGCTACCCTAATAGATGTTCCCAT
1 AATGATGAAGATGCCCCGATAGATAGTCCAATCAATAATGAAGCTACCCTAATAGATGTTCCAAT
91643186 C
66 C
* * * ** *
91643187 AATGATGAAGATGCCCCGGTAGATGGTCCAATCATTAATGAAGCTGGCCTGATAGATGTTCCAAT
1 AATGATGAAGATGCCCCGATAGATAGTCCAATCAATAATGAAGCTACCCTAATAGATGTTCCAAT
91643252 C
66 C
91643253 A
1 A
91643254 CTTATGTTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (66 bp):
AATGATGAAGATGCCCCGATAGATAGTCCAATCAATAATGAAGCTACCCTAATAGATGTTCCAAT
C
Found at i:91646250 original size:47 final size:46
Alignment explanation
Indices: 91646175--91646398 Score: 226
Period size: 46 Copynumber: 4.8 Consensus size: 46
91646165 ATTCGTGTGT
* *
91646175 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
* *
91646221 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
* * *
91646269 GGGCTAGTGTAAGACATGTCTGGGACATGTAAT-GGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATG-CATCGGCCACGAGATG-A
* *
91646316 -AGGCTA-TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGA
1 GA-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
*
91646361 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
91646399 TTGAGATATG
Statistics
Matches: 150, Mismatches: 14, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
44 1 0.01
45 5 0.03
46 62 0.41
47 52 0.35
48 29 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:91646405 original size:47 final size:49
Alignment explanation
Indices: 91646177--91646445 Score: 228
Period size: 47 Copynumber: 5.7 Consensus size: 49
91646167 TCGTGTGTGA
* * * *
91646177 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C-ACATTATGAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGATAAG
* * *
91646222 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG--AGG
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGATAAG
**
91646271 GCTAGTGTAAGA-CATGTCTGGGACATGTAAT-GGCCTCGAGATG-TAAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGATAAG
*
91646318 GCTA-TGTAAGA-CATGTCTGGGACAT-GCATTGGCTACGAGATGAT-AG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGATAAG
* * *
91646364 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGAT-ATGA-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGATAAG
* * ** *
91646410 GCTAGTATAAGACCGTGTCTAAGACATAGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
91646446 ACCTTACCCT
Statistics
Matches: 185, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
45 5 0.03
46 63 0.34
47 87 0.47
48 27 0.15
49 1 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGATAAG
Found at i:91646436 original size:140 final size:141
Alignment explanation
Indices: 91646177--91646436 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 141
91646167 TCGTGTGTGA
*
91646177 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCTAGTGTAAGACCATGTC
* * **
91646242 TGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGTAATGGCCT
66 TGGGACATGGCATCGGCATTGAGACGAGAGCTAGTATAAGACATGTCTAAGACATGTAATGGCCT
91646307 CGAGATGTAAG
131 CGAGATGTAAG
** * *
91646318 GCTA-TGTAAGACATGTCTGGGACATGCATTGGCTACGA-GATGATAG-TCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCT-AGTGTAAGACCATG
* *
91646380 TCTGGGACATGGCATCGGC-TTGAGA-TATGAGCTAGTATAAGACCGTGTCTAAGACAT
64 TCTGGGACATGGCATCGGCATTGAGACGA-GAGCTAGTATAAGA-CATGTCTAAGACAT
91646437 AGCATCGGCA
Statistics
Matches: 104, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 79 0.76
141 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (141 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGACGAGAGCTAGTATAAGACATGTCTAAGACATGTAATGGCCT
CGAGATGTAAG
Found at i:91647505 original size:6 final size:6
Alignment explanation
Indices: 91647494--91647532 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
91647484 TCCTCTTATC
91647494 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TT
91647533 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:91647512 original size:13 final size:13
Alignment explanation
Indices: 91647489--91647542 Score: 74
Period size: 13 Copynumber: 4.1 Consensus size: 13
91647479 TTGAATCCTC
91647489 TTATCTTTTTATTT
1 TTAT-TTTTTATTT
91647503 TTATTTTTTATTT
1 TTATTTTTTATTT
91647516 TTA-TTTTTATTT
1 TTATTTTTTATTT
*
91647528 TTATTATTTTCTTT
1 TTATT-TTTTATTT
91647542 T
1 T
91647543 GAAAGACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 12 0.32
13 13 0.35
14 12 0.32
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:91649892 original size:27 final size:28
Alignment explanation
Indices: 91649855--91649994 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
91649845 AGCATGGCTG
* *
91649855 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
91649881 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
91649909 CCAGA-ACATATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
91649936 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
91649963 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
91649990 CCAGA
1 CCAGA
91649995 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 16 0.16
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:91649955 original size:54 final size:55
Alignment explanation
Indices: 91649855--91649994 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
91649845 AGCATGGCTG
* * *
91649855 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
91649909 CCAGAACATATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
91649963 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
91649995 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 57 0.76
55 18 0.24
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:91650129 original size:26 final size:27
Alignment explanation
Indices: 91650095--91650172 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
91650085 GTCAAAATTA
*
91650095 ACCCTAGGGGTATAACGGTAATTTTAC
1 ACCCTAGGGGTATAACAGTAATTTTAC
*
91650122 ACCC-AGGGGTATAACAGTAATTTTCC
1 ACCCTAGGGGTATAACAGTAATTTTAC
* * * *
91650148 ATACATAGGGGTATTATAGTAATTT
1 A-CCCTAGGGGTATAACAGTAATTT
91650173 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 21 0.49
27 5 0.12
28 17 0.40
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
ACCCTAGGGGTATAACAGTAATTTTAC
Found at i:91651649 original size:26 final size:25
Alignment explanation
Indices: 91651613--91651772 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 25
91651603 CATGAAATTC
91651613 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAAC-CA
91651639 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
91651665 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
91651691 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
91651717 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
*
91651743 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
91651769 TTAT
1 TTAT
91651773 AAATTTGTAT
Statistics
Matches: 127, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
25 4 0.03
26 120 0.94
27 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:91651694 original size:52 final size:52
Alignment explanation
Indices: 91651613--91651772 Score: 277
Period size: 52 Copynumber: 3.1 Consensus size: 52
91651603 CATGAAATTC
*
91651613 TTATCATGAAACATTTACCTAACAC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAAC-CTATTATCATGAAACATTTACCTAACCCA
91651665 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
* *
91651717 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
91651769 TTAT
1 TTAT
91651773 AAATTTGTAT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
51 1 0.01
52 103 0.99
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:91651746 original size:78 final size:78
Alignment explanation
Indices: 91651613--91651772 Score: 293
Period size: 78 Copynumber: 2.1 Consensus size: 78
91651603 CATGAAATTC
91651613 TTATCATGAAACATTTACCTAACACATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACACATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
91651678 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
91651691 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACACATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
91651756 TTTACCTAACCTA
66 TTTACCTAACCTA
91651769 TTAT
1 TTAT
91651773 AAATTTGTAT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACACATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:91655473 original size:40 final size:39
Alignment explanation
Indices: 91655429--91655530 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 39
91655419 GTTACCATAA
91655429 TGAATCAGGAATAAATCCTATCCACTTTAAATAT-TTATAG
1 TGAATCAGGAATAAATCCTAT-CACTTT-AATATCTTATAG
* *
91655469 TGAATCAGGAAT-AA---T-TCACTTTAATTTCTTTTAG
1 TGAATCAGGAATAAATCCTATCACTTTAATATCTTATAG
*
91655503 TGAATCAAGAATAAATCCTATTCACTTT
1 TGAATCAGGAATAAATCCTA-TCACTTT
91655531 TAATTCTCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
33 4 0.08
34 22 0.42
35 3 0.06
36 1 0.02
38 1 0.02
39 2 0.04
40 19 0.37
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (39 bp):
TGAATCAGGAATAAATCCTATCACTTTAATATCTTATAG
Found at i:91655964 original size:25 final size:26
Alignment explanation
Indices: 91655921--91655972 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
91655911 ATTTCTCCCT
*
91655921 TTTCTTTCTTTCCCTTTTTTC-TTTC
1 TTTCTTTCTTCCCCTTTTTTCGTTTC
91655946 TTTCTTTC-TCCCCTGTTTTTCGTTTC
1 TTTCTTTCTTCCCCT-TTTTTCGTTTC
91655972 T
1 T
91655973 ATTTTGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 14 0.58
26 5 0.21
ACGTcount: A:0.00, C:0.29, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTCTTTCTTCCCCTTTTTTCGTTTC
Found at i:91656005 original size:11 final size:12
Alignment explanation
Indices: 91655985--91656015 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
91655975 TTTGTTCTTC
*
91655985 TTCTTTTTTTTT
1 TTCTTTTTTTGT
91655997 TTCTTTTTTTGT
1 TTCTTTTTTTGT
91656009 TTCTTTT
1 TTCTTTT
91656016 GTTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (12 bp):
TTCTTTTTTTGT
Found at i:91656225 original size:5 final size:5
Alignment explanation
Indices: 91656197--91656225 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
91656187 TTACTTTATT
91656197 TAAT- TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA
91656226 ATATTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:91665970 original size:25 final size:24
Alignment explanation
Indices: 91665880--91666034 Score: 93
Period size: 25 Copynumber: 6.4 Consensus size: 24
91665870 GCCATATAAA
*
91665880 GGGAAGCTCATA-AGAGCTATAATC
1 GGGAAGCTC-TAGAGAGCCATAATC
* *
91665904 AGGAAGCTC-ATGCGAGCCAATAA-C
1 GGGAAGCTCTA-GAGAGCC-ATAATC
* * * *
91665928 GGGTAGCTCCAAAAAGCCATTAATC
1 GGGAAGCTCTAGAGAGCCA-TAATC
* *
91665953 GGGAAGCTCTGGATAGCCATATATC
1 GGGAAGCTCTAGAGAGCCATA-ATC
* * * *
91665978 GAGAAGTTCAAGCGAGCCAT-ATC
1 GGGAAGCTCTAGAGAGCCATAATC
*
91666001 GGGAAGCTCTAGAGAGCAATTAATC
1 GGGAAGCTCTAGAGAGCCA-TAATC
*
91666026 AGGAAGCTC
1 GGGAAGCTC
91666035 ATGAAAGAGC
Statistics
Matches: 97, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
22 1 0.01
23 18 0.19
24 30 0.31
25 48 0.49
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCTAGAGAGCCATAATC
Found at i:91674326 original size:19 final size:20
Alignment explanation
Indices: 91674278--91674326 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
91674268 GGTGATTAGA
*
91674278 TGTTTTAACAATATTCTTAAT
1 TGTTTTAAAAATATTCTT-AT
*
91674299 TG-TTT-AAAATATTGTT-T
1 TGTTTTAAAAATATTCTTAT
91674316 TGTTTTAAAAA
1 TGTTTTAAAAA
91674327 AAATAGCGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 13 0.54
20 3 0.12
21 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (20 bp):
TGTTTTAAAAATATTCTTAT
Found at i:91677353 original size:15 final size:17
Alignment explanation
Indices: 91677323--91677355 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
91677313 TTAAAAACAT
91677323 ATTATTATTATTATTAA
1 ATTATTATTATTATTAA
91677340 ATTATT-TT-TTATTAA
1 ATTATTATTATTATTAA
91677355 A
1 A
91677356 ATTCGTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTATTATTATTAA
Found at i:91681248 original size:9 final size:9
Alignment explanation
Indices: 91681159--91681247 Score: 115
Period size: 9 Copynumber: 9.7 Consensus size: 9
91681149 AATTTCATTG
91681159 AATTTTTAA
1 AATTTTTAA
* **
91681168 TATTTTTTG
1 AATTTTTAA
*
91681177 GATTTTTAGA
1 AATTTTTA-A
*
91681187 AAGTTTTAA
1 AATTTTTAA
91681196 AATTTTTAA
1 AATTTTTAA
91681205 AATTTTTAA
1 AATTTTTAA
91681214 AATTTTTAA
1 AATTTTTAA
91681223 AATTTTTAA
1 AATTTTTAA
91681232 AATTTTTAA
1 AATTTTTAA
91681241 ATATTTT
1 A-ATTTT
91681248 ATAATTAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
9 58 0.84
10 11 0.16
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (9 bp):
AATTTTTAA
Found at i:91681466 original size:7 final size:7
Alignment explanation
Indices: 91681436--91681512 Score: 52
Period size: 8 Copynumber: 10.6 Consensus size: 7
91681426 GGTTTTTACT
91681436 AAAATAA
1 AAAATAA
* *
91681443 TATAATAT
1 -AAAATAA
91681451 AAAAT-A
1 AAAATAA
91681457 AAAATAA
1 AAAATAA
91681464 AAAAT-A
1 AAAATAA
*
91681470 TAAATAA
1 AAAATAA
91681477 AAAATATA
1 AAAATA-A
91681485 AAAA-AA
1 AAAATAA
91681491 GGAAAACTAA
1 --AAAA-TAA
91681501 AAAATATA
1 AAAATA-A
91681509 AAAA
1 AAAA
91681513 ATACTAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
6 11 0.20
7 19 0.35
8 23 0.42
10 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (7 bp):
AAAATAA
Found at i:91681482 original size:20 final size:20
Alignment explanation
Indices: 91681436--91681479 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
91681426 GGTTTTTACT
*
91681436 AAAATAATATAATATAAAATA
1 AAAATAA-AAAATATAAAATA
91681457 AAAATAAAAAATAT-AAATA
1 AAAATAAAAAATATAAAATA
91681476 AAAA
1 AAAA
91681480 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 6 0.27
21 7 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATAAAAAATATAAAATA
Found at i:91681487 original size:20 final size:19
Alignment explanation
Indices: 91681435--91681487 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
91681425 GGGTTTTTAC
*
91681435 TAAAATAATATAATATAAAA
1 TAAAA-AATATAAAATAAAA
*
91681455 T-AAAAATAAAAAATATAAA
1 TAAAAAATATAAAATA-AAA
91681474 TAAAAAATATAAAA
1 TAAAAAATATAAAA
91681488 AAAGGAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 7 0.25
20 12 0.43
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAAAATATAAAATAAAA
Found at i:91681489 original size:24 final size:24
Alignment explanation
Indices: 91681436--91681513 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
91681426 GGTTTTTACT
*
91681436 AAAATAATATAATATAAAATAA-A-A
1 AAAAAAATATAA-ATAAAA-AATATA
91681460 ATAAAAAATATAAATAAAAAATATA
1 A-AAAAAATATAAATAAAAAATATA
**
91681485 AAAAAAGGA-AAACTAAAAAATATA
1 AAAAAAATATAAA-TAAAAAATATA
91681509 AAAAA
1 AAAAA
91681514 TACTAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 5 0.11
24 30 0.64
25 12 0.26
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (24 bp):
AAAAAAATATAAATAAAAAATATA
Found at i:91681524 original size:15 final size:14
Alignment explanation
Indices: 91681436--91681524 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 14
91681426 GGTTTTTACT
* *
91681436 AAAATAATATAATAT
1 AAAAT-ATAAAATAA
91681451 AAAATA-AAAATAA
1 AAAATATAAAATAA
91681464 AAAATAT-AAATAA
1 AAAATATAAAATAA
*
91681477 AAAATATAAAAAAA
1 AAAATATAAAATAA
*
91681491 GGAAAACTAAAAAATATAA
1 --AAAA-T-ATAAA-ATAA
91681510 AAAATACTAAAATAA
1 AAAATA-TAAAATAA
91681525 TACATTTGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
13 24 0.40
14 6 0.10
15 10 0.17
16 8 0.13
17 5 0.08
18 4 0.07
19 3 0.05
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATATAAAATAA
Found at i:91681613 original size:25 final size:26
Alignment explanation
Indices: 91681552--91681621 Score: 70
Period size: 30 Copynumber: 2.5 Consensus size: 26
91681542 ATACTAAAAT
91681552 AATATAAAAATAAAATACGAAAATAGG
1 AATA-AAAAATAAAATACGAAAATAGG
*
91681579 ATACTTTAAAAAATAAAATCCGAAAATA-G
1 A-A---TAAAAAATAAAATACGAAAATAGG
*
91681608 AATAAATAATAAAA
1 AATAAAAAATAAAA
91681622 ACAAATGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 11 0.30
27 1 0.03
28 2 0.05
29 2 0.05
30 19 0.51
31 2 0.05
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (26 bp):
AATAAAAAATAAAATACGAAAATAGG
Found at i:91681669 original size:114 final size:112
Alignment explanation
Indices: 91681544--91681748 Score: 256
Period size: 114 Copynumber: 1.8 Consensus size: 112
91681534 AACATTATAT
91681544 ACTAAAAT-A-ATA-TAAAA-ATAAAATACGAAAATAGGATACTTTAAAAAATAAAATCCGAAAA
1 ACTAAAATAATATATTAAAACATAAAATACGAAAATA--ATA---TAAAAAATAAAATCCGAAAA
* * *
91681605 TAGAATAAATAATAAAAACAAATGGCCAAAACCAGATATAATATAAAAAAAAC
61 TAAAAT-AATAAAAAAAACAAACGGCCAAAACCAGATATAATATAAAAAAAAC
* ** *
91681658 ACTAAAATAATATATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATCCGAAAATAAA
1 ACTAAAATAATATA-TTAAAACATAAAATACGAAAATAATATAAAAAATAAAATCCGAAAATAAA
91681723 ATAATAAAAAAAACAAACGGCCAAAA
65 ATAATAAAAAAAACAAACGGCCAAAA
91681749 TAAGAGTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
113 22 0.28
114 33 0.42
115 1 0.01
116 3 0.04
117 3 0.04
118 5 0.06
119 12 0.15
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (112 bp):
ACTAAAATAATATATTAAAACATAAAATACGAAAATAATATAAAAAATAAAATCCGAAAATAAAA
TAATAAAAAAAACAAACGGCCAAAACCAGATATAATATAAAAAAAAC
Found at i:91681971 original size:154 final size:155
Alignment explanation
Indices: 91681699--91682337 Score: 984
Period size: 154 Copynumber: 4.2 Consensus size: 155
91681689 TAAAATAATA
**
91681699 TAAAAAATAAAATCCGAAAATAAAAT-AATAAAAAAAACAAACGGCCAAAATAAGAGTTTTTTAC
1 TAAAAAATAAAATCCGAAAATAAAATAAATAAAAAAAACAAACGGCCAAAACCAGAGTTTTTTAC
* * *
91681763 TAAATTAATATAAAAAAAATACTAAAATATTACATTTGAAACATTATGTGCTAAAATAATATAAA
66 TAAATTAATAT-AAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAA
91681828 AAATAAAATACGAAAATAGTATATTT
130 AAATAAAATACGAAAATAGTATATTT
* * *
91681854 TAAAAAATAAAATTCAAAAATAAAATAAATAATAAAAACAAA-GGACCAAAACCAGAGTTTTTTA
1 TAAAAAATAAAATCCGAAAATAAAATAAATAAAAAAAACAAACGG-CCAAAACCAGAGTTTTTTA
* *
91681918 CTAAATTAATAT-AAAAAATACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAA
65 CTAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAA
91681982 AAATAAAATACGAAAATAGTATATTT
130 AAATAAAATACGAAAATAGTATATTT
*
91682008 TAAAAAATAAAATCCGAAAATAAAAT---T---AAAAA-AAA-GGCCAAAACCAAAGTTTTTTAC
1 TAAAAAATAAAATCCGAAAATAAAATAAATAAAAAAAACAAACGGCCAAAACCAGAGTTTTTTAC
*
91682065 TAAATTAATATAAAAAAACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAA
66 TAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAA
*
91682130 AAATAAAATAAGAAAATAGTATATTT
130 AAATAAAATACGAAAATAGTATATTT
**
91682156 TAAAAAATAAAATCCGAAAATAAAAT---TAAAAAAAACAAACGGCCAAAATTAGAGTTTTTTAC
1 TAAAAAATAAAATCCGAAAATAAAATAAATAAAAAAAACAAACGGCCAAAACCAGAGTTTTTTAC
*
91682218 TAAATTAATATAAAAAAACACTAAAATAATACATTTTAAACATTA-GTACTAAAATAATATAAAA
66 TAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA
*
91682282 AATAAAATACGAAAATAATATATTT
131 AATAAAATACGAAAATAGTATATTT
*
91682307 TAAAAAATAAAATCCAAAAATAAAATAAATA
1 TAAAAAATAAAATCCGAAAATAAAATAAATA
91682338 CCAAAATATA
Statistics
Matches: 451, Mismatches: 21, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
146 30 0.07
147 53 0.12
148 60 0.13
151 58 0.13
152 18 0.04
153 62 0.14
154 101 0.22
155 26 0.06
156 43 0.10
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (155 bp):
TAAAAAATAAAATCCGAAAATAAAATAAATAAAAAAAACAAACGGCCAAAACCAGAGTTTTTTAC
TAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA
AATAAAATACGAAAATAGTATATTT
Found at i:91682312 original size:299 final size:304
Alignment explanation
Indices: 91681699--91682333 Score: 982
Period size: 299 Copynumber: 2.1 Consensus size: 304
91681689 TAAAATAATA
*
91681699 TAAAAAATAAAATCCGAAAATAAAATAATAAAAAAAACAAACGGCCAAAATAAGAGTTTTTTACT
1 TAAAAAATAAAATCCGAAAATAAAAT-AT--AAAAAACAAACGGCCAAAACAAGAGTTTTTTACT
* * *
91681764 AAATTAATATAAAAAAAATACTAAAATATTACATTTGAAACATTATGTGCTAAAATAATATAAAA
63 AAATTAATATAAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA
* * *
91681829 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCAAAAATAAAATAAATAATAAAAACA
128 AATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAT--ATAAAAAAAACA
* *
91681894 AAGGACCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAATAATACATTTGAAAT
191 AAGGACCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAAC
*
91681959 ATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTT
256 ATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
91682008 TAAAAAATAAAATCCGAAAATAAAAT-T-AAAAA-AAA-GGCCAAAACCAA-AGTTTTTTACTAA
1 TAAAAAATAAAATCCGAAAATAAAATATAAAAAACAAACGGCCAAAA-CAAGAGTTTTTTACTAA
*
91682068 ATTAATAT-AAAAAAACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAA
65 ATTAATATAAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAA
*
91682132 ATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT-TAAAAAAAACAAAC
129 ATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATATAAAAAAAACAAA-
** *
91682196 GG-CCAAAATTAGAGTTTTTTACTAAATTAATATAAAAAAACACTAAAATAATACATTTTAAACA
193 GGACCAAAACCAGAGTTTTTTACTAAATTAATAT-AAAAAACACTAAAATAATACATTTGAAACA
91682260 TTA-GTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
257 TTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
*
91682307 TAAAAAATAAAATCCAAAAATAAAATA
1 TAAAAAATAAAATCCGAAAATAAAATA
91682334 AATACCAAAA
Statistics
Matches: 305, Mismatches: 16, Indels: 19
0.90 0.05 0.06
Matches are distributed among these distances:
299 109 0.36
300 32 0.10
301 46 0.15
302 81 0.27
303 5 0.02
304 5 0.02
307 1 0.00
309 26 0.09
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (304 bp):
TAAAAAATAAAATCCGAAAATAAAATATAAAAAACAAACGGCCAAAACAAGAGTTTTTTACTAAA
TTAATATAAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAT
AAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATATAAAAAAAACAAAGGA
CCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTAT
GTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTT
Found at i:91682335 original size:25 final size:25
Alignment explanation
Indices: 91682268--91682335 Score: 64
Period size: 30 Copynumber: 2.5 Consensus size: 25
91682258 CATTAGTACT
* *
91682268 AAAATAATATAAAAAATAAAATACG
1 AAAATAAAATAAAAAATAAAATACA
*
91682293 AAAATAATATATTTTAAAAAATAAAATCCA
1 AAAATAA-A-A---TAAAAAATAAAATACA
91682323 AAAATAAAATAAA
1 AAAATAAAATAAA
91682336 TACCAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
25 11 0.31
27 1 0.03
28 1 0.03
29 1 0.03
30 21 0.60
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAATAAAATAAAAAATAAAATACA
Found at i:91689563 original size:33 final size:33
Alignment explanation
Indices: 91689526--91689589 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
91689516 AGTAGAGTAT
** * *
91689526 TGCGGTGGATATGGGCCGAGGGTAGTGCTGTAC
1 TGCGGTGGATACAGGCCGAGAGAAGTGCTGTAC
91689559 TGCGGTGGATACAGGCCGAGAGAAGTGCTGT
1 TGCGGTGGATACAGGCCGAGAGAAGTGCTGT
91689590 GCTATGATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.22
Consensus pattern (33 bp):
TGCGGTGGATACAGGCCGAGAGAAGTGCTGTAC
Found at i:91691832 original size:147 final size:149
Alignment explanation
Indices: 91691653--91692270 Score: 895
Period size: 155 Copynumber: 4.2 Consensus size: 149
91691643 TTTGGTATTT
*
91691653 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCTTATTTTATTTTTTATATTATTTT
1 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
*
91691718 AGTAC-TAATGTTTCAAATGTATTATTTTA-G-TTTTTTATATTAATTTAGTAAAAAACTCTAAT
66 AGTACATAATGTTTCAAATGTATTATTTTAGGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
91691780 TTTGGCCGTTTGTTTTTTAA
131 TTTGGCCGTTTGTTTTTT-A
* * *
91691800 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT-TTATTTTATTTTGTATACTATTTT
1 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
*
91691864 AATACATAATGTTTC-AA--TATTATTTTAGTGTTTTTTTATATTAATTTAGTAAAAAACTCTTG
66 AGTACATAATGTTTCAAATGTATTATTTTAG-GTTTTTTTATATTAATTTAGTAAAAAACTC-TG
91691926 -TTTTGG-C---T-TTTTTTA
129 ATTTTGGCCGTTTGTTTTTTA
91691941 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
1 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
* * *
91692006 AGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAATAAAAAACTCTGG
66 AGTACATAATGTTTCAAATGTATTATTTTAG-GTTTTTTTATATTAATTTAGTAAAAAACTCTGA
*
91692071 TTTTGGCCCTTTGTTTTTATTA
130 TTTTGGCCGTTTG-TTTT-TTA
91692093 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 ---ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
91692158 TTTAGCATATAATGTTTCAAATATATTATTTTA-GTATTTTTTATATTAATTTAGTAAAAAACTC
63 TTTAGTACATAATGTTTCAAATGTATTATTTTAGGT-TTTTTTATATTAATTTAGTAAAAAACTC
* *
91692222 TGATTTTGGCCGTTTATTTTTTT
127 TGATTTTGGCCGTTTGTTTTTTA
**
91692245 ATTTTATTTTCAAATTTTATTTTTTA
1 ATTTTATTTTCGGATTTTATTTTTTA
91692271 TATTATTTTA
Statistics
Matches: 429, Mismatches: 21, Indels: 40
0.88 0.04 0.08
Matches are distributed among these distances:
141 41 0.10
142 40 0.09
143 3 0.01
144 12 0.03
145 47 0.11
146 31 0.07
147 83 0.19
148 1 0.00
149 25 0.06
151 4 0.01
152 5 0.01
153 6 0.01
154 40 0.09
155 91 0.21
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (149 bp):
ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
AGTACATAATGTTTCAAATGTATTATTTTAGGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
TTTGGCCGTTTGTTTTTTA
Found at i:91692266 original size:119 final size:120
Alignment explanation
Indices: 91692130--91692368 Score: 399
Period size: 119 Copynumber: 2.0 Consensus size: 120
91692120 TAAAATATAC
** *
91692130 TATTTTCGTATTTTATTTTTTATATTATTTTAGCATATAATGTTTCAAATATATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATATATTATTTTAGTAT
*
91692195 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCGTTTATTTTT-TTATTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTATTT
* *
91692249 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATATATTATTTTAGTAT
* *
91692314 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTATTT
91692369 ATTCTATTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
119 105 0.95
120 6 0.05
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (120 bp):
TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATATATTATTTTAGTAT
TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTATTT
Found at i:91692386 original size:273 final size:274
Alignment explanation
Indices: 91691975--91692555 Score: 929
Period size: 273 Copynumber: 2.1 Consensus size: 274
91691965 TAAAATATAC
* *
91691975 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGT
1 TATTTTCGAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGA
* *
91692040 TTTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCCTTTGTTTTTATTATTTATTTTATTT
66 TTTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTT
*
91692105 TCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGCATATAA
131 TCGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTA-TTTTTATATTATTTTAGCATATAA
*
91692170 TGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT-GATTTTGGCCG
195 TGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTAG-TTTTGGCCA
91692234 TTTATT-TT-TTTATTT
259 TTTATTCTTATTT-TTT
* *
91692249 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-A
1 TATTTTCGAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGA
*
91692313 TTTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTT
66 TTTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTT
* * * *
91692378 TTGGATTTTATTTTTTAAAGTACCCTATTTTCGTATTTTATTTTTATATTATTTTAGTATATAAT
131 TCGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTATTTTTATATTATTTTAGCATATAAT
* * *
91692443 GTTTTAAATGTATTATTTTAGTATTTTTTATATTAATTTATTAAAAAACTCTAGTTTTGGCCATT
196 GTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTAGTTTTGGCCATT
*
91692508 TGTTCTTATTTTTT
261 TATTCTTATTTTTT
* *
91692522 TATTTTTGGATTTTA-TTTTTATATTATTTTAGTA
1 TATTTTCGAATTTTATTTTTTATATTATTTTAGTA
91692556 AAAAATCCGC
Statistics
Matches: 284, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
272 105 0.37
273 116 0.41
274 63 0.22
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (274 bp):
TATTTTCGAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGA
TTTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTT
TCGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTATTTTTATATTATTTTAGCATATAAT
GTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTAGTTTTGGCCATT
TATTCTTATTTTTT
Found at i:91692442 original size:153 final size:150
Alignment explanation
Indices: 91692249--91692541 Score: 480
Period size: 153 Copynumber: 1.9 Consensus size: 150
91692239 TTTTTTATTT
91692249 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
* *
91692314 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTTT
66 TTTTTATATTAATTTAGTAAAAAACTCTAGTTTTGGCCATTTGTTCTTA-T-TTT-TT-TATTTT
91692379 TGGATTTTATTTTTTAAAGTACCC
127 TGGATTTTATTTTTTAAAGTACCC
** * *
91692403 TATTTTCGTATTTTA-TTTTTATATTATTTTAGTATATAATGTTTTAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
*
91692467 TTTTTATATTAATTTATTAAAAAACTCTAGTTTTGGCCATTTGTTCTTATTTTTTTATTTTTGGA
66 TTTTTATATTAATTTAGTAAAAAACTCTAGTTTTGGCCATTTGTTCTTATTTTTTTATTTTTGGA
91692532 TTTTATTTTT
131 TTTTATTTTT
91692542 ATATTATTTT
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
149 20 0.15
150 2 0.02
151 3 0.02
152 1 0.01
153 93 0.70
154 13 0.10
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (150 bp):
TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
TTTTTATATTAATTTAGTAAAAAACTCTAGTTTTGGCCATTTGTTCTTATTTTTTTATTTTTGGA
TTTTATTTTTTAAAGTACCC
Found at i:91693104 original size:20 final size:20
Alignment explanation
Indices: 91693081--91693125 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
91693071 CTTCCCTCCC
91693081 TCTTCTTCTCCTTCTCTTTT
1 TCTTCTTCTCCTTCTCTTTT
** *
91693101 TCTTCTTCTTTTTCTTTTTT
1 TCTTCTTCTCCTTCTCTTTT
91693121 TCTTC
1 TCTTC
91693126 CCTCACCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTCTTCTCCTTCTCTTTT
Found at i:91693573 original size:154 final size:153
Alignment explanation
Indices: 91693396--91693694 Score: 458
Period size: 154 Copynumber: 1.9 Consensus size: 153
91693386 TAATCTATTG
* * * *
91693396 TTTTTTTTTTACCTGTAGATGTCAGAAAATTGAGGGTGGTACCGCCTATGCACCACCCTCTATCA
1 TTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCGCCTATGCACCACCCTCCATCA
* * * * *
91693461 CTTGGAATAGTCTATTTTCGTATATAATTTTGAAGGCAA-CCTATTTTGA-TTTTATTTTTAATA
66 CTTGGAATAATCTATTTTCATATATAATTTTAAAGG-AAGCCTA-TTTAACTTTT-TTTTCAATA
91693524 TTATTATAGTAAAAATCCTGACCTAT
128 TTATTATAGTAAAAATCCTGACCTAT
*
91693550 TTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCGCCTATGTACCACCCTCCATCA
1 TTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCGCCTATGCACCACCCTCCATCA
*
91693615 CTTGGAATAATCTATTTTTATATATAATTTTAAAGGAAGCCTATTTAACTTTTTTTTCAATATTA
66 CTTGGAATAATCTATTTTCATATATAATTTTAAAGGAAGCCTATTTAACTTTTTTTTCAATATTA
91693680 TTATAGTAAAAATCC
131 TTATAGTAAAAATCC
91693695 CACAAAATGC
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
153 32 0.24
154 100 0.76
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (153 bp):
TTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCGCCTATGCACCACCCTCCATCA
CTTGGAATAATCTATTTTCATATATAATTTTAAAGGAAGCCTATTTAACTTTTTTTTCAATATTA
TTATAGTAAAAATCCTGACCTAT
Found at i:91695160 original size:22 final size:22
Alignment explanation
Indices: 91695128--91695173 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
91695118 TTAATAATAT
91695128 TATTTAAATTATAATATATTAA
1 TATTTAAATTATAATATATTAA
*
91695150 TATTTATATTATAATATATTAA
1 TATTTAAATTATAATATATTAA
91695172 TA
1 TA
91695174 CTAATATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTAAATTATAATATATTAA
Found at i:91695180 original size:22 final size:22
Alignment explanation
Indices: 91695135--91695181 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
91695125 TATTATTTAA
* *
91695135 ATTATAATATATTAATATTTAT
1 ATTATAATATATTAATACTAAT
91695157 ATTATAATATATTAATACTAAT
1 ATTATAATATATTAATACTAAT
91695179 ATT
1 ATT
91695182 CAAAGTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATAATATATTAATACTAAT
Found at i:91698700 original size:18 final size:17
Alignment explanation
Indices: 91698679--91698722 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
91698669 ATTATACATG
*
91698679 TATATATATATACCTTTT
1 TATATATATAT-CATTTT
91698697 TATATATAGTATCATTTT
1 TATATATA-TATCATTTT
91698715 T-TATATAT
1 TATATATAT
91698723 CATTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 6 0.25
18 14 0.58
19 3 0.12
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATATATCATTTT
Found at i:91698737 original size:19 final size:19
Alignment explanation
Indices: 91698679--91698737 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
91698669 ATTATACATG
*
91698679 TATATATA-TATACCTTT-T
1 TATATATAGTAT-CATTTAT
*
91698697 TATATATAGTATCATTTTT
1 TATATATAGTATCATTTAT
*
91698716 TATATATCATTAT-ATTTAT
1 TATATAT-AGTATCATTTAT
91698735 TAT
1 TAT
91698738 CGTACTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 12 0.34
19 19 0.54
20 4 0.11
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATAGTATCATTTAT
Found at i:91700120 original size:26 final size:25
Alignment explanation
Indices: 91700078--91700224 Score: 141
Period size: 26 Copynumber: 5.6 Consensus size: 25
91700068 AATCAAATCA
* *
91700078 AATATATAAAACCATTTAAAATAAAC
1 AATATATAAAA-AATTTAAAATAAAT
*
91700104 AATATATATAAAAATTTGAAATAAAT
1 AATATATA-AAAAATTTAAAATAAAT
* *
91700130 AACATATAAGACAATTTAAAATAAAT
1 AATATATAA-AAAATTTAAAATAAAT
*
91700156 AGTATATAAAACAATTTAAAATAAAT
1 AATATATAAAA-AATTTAAAATAAAT
* * * *
91700182 AGTGTACAAAATAGTTTAAAATAAAT
1 AATATATAAAA-AATTTAAAATAAAT
*
91700208 AATATATATAATAATTT
1 AATATATA-AAAAATTT
91700225 GAAGCTAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
25 2 0.02
26 92 0.93
27 5 0.05
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (25 bp):
AATATATAAAAAATTTAAAATAAAT
Found at i:91700147 original size:52 final size:52
Alignment explanation
Indices: 91700081--91700227 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
91700071 CAAATCAAAT
* *
91700081 ATATAAAACCATTTAAAATAAACAATATATATAAAAATTTGAAATAAATAAC
1 ATATAAAACAATTTAAAATAAATAATATATATAAAAATTTGAAATAAATAAC
* * * **
91700133 ATATAAGACAATTTAAAATAAATAGTATATA-AAACAATTTAAAATAAATAGT
1 ATATAAAACAATTTAAAATAAATAATATATATAAA-AATTTGAAATAAATAAC
* * * * *
91700185 GTACAAAATAGTTTAAAATAAATAATATATATAATAATTTGAA
1 ATATAAAACAATTTAAAATAAATAATATATATAAAAATTTGAA
91700228 GCTAAAAGGC
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
51 3 0.04
52 73 0.94
53 2 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (52 bp):
ATATAAAACAATTTAAAATAAATAATATATATAAAAATTTGAAATAAATAAC
Found at i:91701018 original size:20 final size:20
Alignment explanation
Indices: 91700982--91701019 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
91700972 ACCTTTTTTT
*
91700982 AAAAAAATAAAATAAAAATA
1 AAAAAAATAAAAGAAAAATA
*
91701002 AAAAAAATAAACGAAAAA
1 AAAAAAATAAAAGAAAAA
91701020 ATGAGCAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAAAAATAAAAGAAAAATA
Found at i:91701411 original size:14 final size:14
Alignment explanation
Indices: 91701392--91701419 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91701382 ATTTTGGACT
91701392 GTTTTAATTATTTA
1 GTTTTAATTATTTA
91701406 GTTTTAATTATTTA
1 GTTTTAATTATTTA
91701420 TTTATTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
GTTTTAATTATTTA
Found at i:91703713 original size:16 final size:16
Alignment explanation
Indices: 91703692--91703734 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
91703682 ACGCCCCAAA
91703692 AATTGGGCCTTGAAAG
1 AATTGGGCCTTGAAAG
91703708 AATTGGGCCTTGAAAG
1 AATTGGGCCTTGAAAG
91703724 AATTGGGCCTT
1 AATTGGGCCTT
91703735 AAGTCTGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (16 bp):
AATTGGGCCTTGAAAG
Found at i:91708854 original size:47 final size:47
Alignment explanation
Indices: 91708720--91708982 Score: 348
Period size: 47 Copynumber: 5.6 Consensus size: 47
91708710 GATAATTGTG
* * *
91708720 ATGTG-AAGTGTATATATATGATAAGGCCGATATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTA-ATGGCCGATGTGATGA
91708767 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
91708816 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
91708863 ATGCGAAAGTATATATATGTGATGAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
91708910 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
91708957 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
91708983 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
47 141 0.74
48 5 0.03
49 26 0.14
50 18 0.09
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:91711564 original size:40 final size:40
Alignment explanation
Indices: 91711205--91711552 Score: 556
Period size: 40 Copynumber: 8.7 Consensus size: 40
91711195 AGGTCTCGAC
91711205 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
91711244 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
91711284 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
91711324 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
91711364 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
91711404 GATGTATCCGGACTAAGACCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
91711444 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
91711484 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
91711524 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
91711553 ATCATGCTGG
Statistics
Matches: 286, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 5 0.02
40 279 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:91715391 original size:47 final size:47
Alignment explanation
Indices: 91715336--91715598 Score: 382
Period size: 47 Copynumber: 5.6 Consensus size: 47
91715326 GATAATTGTG
* * *
91715336 ATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
91715383 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
91715432 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
91715479 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
91715526 ATGTGAAAGTGTTTATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
91715573 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
91715599 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 151 0.77
49 44 0.23
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:91720427 original size:15 final size:15
Alignment explanation
Indices: 91720386--91720433 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
91720376 ATAACTTTGA
*
91720386 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
91720400 ATG-AAATGCCATGAG
1 ATGCAAATG-CATGAG
91720415 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
91720429 ATGCA
1 ATGCA
91720434 TAAAGAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.17
14 8 0.27
15 12 0.40
16 5 0.17
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:91724593 original size:12 final size:13
Alignment explanation
Indices: 91724547--91724596 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
91724537 CAAGTAAAAC
91724547 ATAATAAATATTAT
1 ATAATAAATA-TAT
91724561 ATAATAAA-ATAT
1 ATAATAAATATAT
***
91724573 ATGGGAAATA-AT
1 ATAATAAATATAT
91724585 ATAATAAATATA
1 ATAATAAATATA
91724597 GCATATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 17 0.61
13 3 0.11
14 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:91724673 original size:20 final size:20
Alignment explanation
Indices: 91724626--91724690 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
91724616 TATACGTAAA
*
91724626 AATAATATGTATAAATAA-AT
1 AATAATATATATAAA-AATAT
*
91724646 ATATAATATATGTAAAAATAT
1 A-ATAATATATATAAAAATAT
91724667 AATAATATATATAAAAATAAT
1 AATAATATATATAAAAAT-AT
91724688 AAT
1 AAT
91724691 TATGATAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATAATATATATAAAAATAT
Found at i:91724686 original size:18 final size:18
Alignment explanation
Indices: 91724622--91724739 Score: 84
Period size: 18 Copynumber: 6.5 Consensus size: 18
91724612 AATTTATACG
*
91724622 TAAAAATAAT-ATGTATA
1 TAAAAATAATAATATATA
*
91724639 -AATAAATATATAATATATG
1 TAA-AAATA-ATAATATATA
91724658 TAAAAATATAATAATATATA
1 T-AAAA-ATAATAATATATA
91724678 TAAAAATAATAAT-TATGA
1 TAAAAATAATAATATAT-A
* *
91724696 TAGAATTAAT-ATATA-A
1 TAAAAATAATAATATATA
* * *
91724712 TAAACGATTATAATACATA
1 TAAA-AATAATAATATATA
91724731 TAAAAATAA
1 TAAAAATAA
91724740 CACTTATAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
16 6 0.08
17 13 0.17
18 28 0.36
19 14 0.18
20 12 0.15
21 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
TAAAAATAATAATATATA
Found at i:91724808 original size:19 final size:19
Alignment explanation
Indices: 91724771--91724821 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
91724761 GAAGTAAAAT
* *
91724771 TAAAATAAAAACA-AATAA
1 TAAAATAAATATAGAATAA
*
91724789 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
91724808 TAAAATAAATATAG
1 TAAAATAAATATAG
91724822 GACTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:91727403 original size:25 final size:25
Alignment explanation
Indices: 91727356--91727404 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
91727346 AATTTTATGA
*
91727356 AAATTTTTATTTACTATATTATTTG
1 AAATTTTTATTTACTAGATTATTTG
*
91727381 AAATTTTTA-TTATTAGATATATTT
1 AAATTTTTATTTACTAGAT-TATTT
91727405 ATAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
AAATTTTTATTTACTAGATTATTTG
Found at i:91729412 original size:59 final size:59
Alignment explanation
Indices: 91729342--91729468 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 59
91729332 CTGTGTTGAA
* * *
91729342 ATGGGCAAGGCCCAATATA-TCTCG-ACTTGTATA-GGGCTACGGCCCAGATTGATACTGAT
1 ATGGGCTAGGCCCAATATACTCT-GTA-TTGTA-AGGGGCCACGGCCCAGATTAATACTGAT
* * *
91729401 ATGGGCTAGGCCCAGTATACTCTGTTATTGTAAGGGGCCATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAATATACTCTG-TATTGTAAGGGGCCACGGCCCAGATTAATACTGAT
91729461 ATGGGCTA
1 ATGGGCTA
91729469 AAGCCCAGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
59 19 0.33
60 38 0.66
61 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (59 bp):
ATGGGCTAGGCCCAATATACTCTGTATTGTAAGGGGCCACGGCCCAGATTAATACTGAT
Found at i:91729847 original size:18 final size:18
Alignment explanation
Indices: 91729824--91729865 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
91729814 ACTTAGGGCG
91729824 CGTTTTCAAAACGATACT
1 CGTTTTCAAAACGATACT
*
91729842 CGTTTTCAAAATGATACT
1 CGTTTTCAAAACGATACT
91729860 CGTTTT
1 CGTTTT
91729866 TAAATAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (18 bp):
CGTTTTCAAAACGATACT
Found at i:91732962 original size:20 final size:19
Alignment explanation
Indices: 91732916--91732953 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91732906 ATCCAAAACA
91732916 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
91732935 CCAAAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
91732954 TCTGGAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:91733035 original size:16 final size:16
Alignment explanation
Indices: 91733014--91733077 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
91733004 TTCGCTGTAT
91733014 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
91733030 TGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAA
91733046 TGGAAT-GAGGCGTAA
1 TGGAATAGAGGCGTAA
*
91733061 TGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAA
91733077 T
1 T
91733078 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
15 14 0.32
16 30 0.68
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:91733057 original size:31 final size:32
Alignment explanation
Indices: 91733014--91733077 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
91733004 TTCGCTGTAT
91733014 TGGAATAGAGGCGTAATGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAATGGAATAGAAGCGTAA
*
91733046 TGGAAT-GAGGCGTAATGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAATGGAATAGAAGCGTAA
91733077 T
1 T
91733078 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (32 bp):
TGGAATAGAGGCGTAATGGAATAGAAGCGTAA
Found at i:91733443 original size:102 final size:102
Alignment explanation
Indices: 91733329--91733733 Score: 521
Period size: 102 Copynumber: 3.8 Consensus size: 102
91733319 TAATAAAAAT
91733329 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
91733394 AATACTATAAAATTTAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
* * * *
91733431 ATATAATTTAATAAAAATATATAAT-TTATAAAATTCTTAATATTAAATATT-CTTATATGAATT
1 ATATAATTTAATAAAATTCT-TAATATTA-AATATTCTT-ATA-TGAAT-TTAC-TA-A--AA--
* *
91733494 TACTAAAATCATAATATATAATAATATAAAATATAATTTAAAATAATTATTATTAA
55 T-C----ATAAT-AT--ATAATACTATAAAATATAATTTAAAATAATTATTATTAA
91733550 ATATAATTTAATAAAATTCTTAATATTAAATATTAC-TATATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATT-CTTATATGAATTTACTAAAATCATAATATA
*
91733614 TAATACTATAAAATATAATTTAAAATAATAATTATTAA
65 TAATACTATAAAATATAATTTAAAATAATTATTATTAA
*
91733652 ATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
91733717 AATACTATAAAA-ATAAT
66 AATACTATAAAATATAAT
91733734 ATATAATCTA
Statistics
Matches: 265, Mismatches: 15, Indels: 47
0.81 0.05 0.14
Matches are distributed among these distances:
101 5 0.02
102 133 0.50
103 12 0.05
104 5 0.02
105 9 0.03
106 4 0.02
107 1 0.00
109 3 0.01
110 1 0.00
111 1 0.00
112 3 0.01
114 1 0.00
115 4 0.02
116 9 0.03
117 5 0.02
118 10 0.04
119 59 0.22
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:91733504 original size:119 final size:120
Alignment explanation
Indices: 91733291--91733565 Score: 516
Period size: 119 Copynumber: 2.3 Consensus size: 120
91733281 TTAATCATAT
*
91733291 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
91733356 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATTTAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
91733411 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
91733475 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
91733530 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
91733566 TTCTTAATAT
Statistics
Matches: 152, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 106 0.70
120 46 0.30
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
Found at i:91733529 original size:22 final size:23
Alignment explanation
Indices: 91733497--91733540 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
91733487 ATGAATTTAC
*
91733497 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
*
91733520 TAAAAT-ATAATTTAAAATAAT
1 TAAAATCATAATATAAAATAAT
91733541 TATTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:91733567 original size:26 final size:26
Alignment explanation
Indices: 91733522--91733669 Score: 80
Period size: 26 Copynumber: 5.8 Consensus size: 26
91733512 TAATAATATA
*
91733522 AAATATAATTTAA-AATAATTATTATT
1 AAATATAATTTAATAA-AATTACTATT
*
91733548 AAATATAATTTAATAAAATTCTTAATATT
1 AAATATAATTTAATAAAA---TTACTATT
* * * *
91733577 AAATATTA-CTATATGAATTTACTA--
1 AAATATAATTTA-ATAAAATTACTATT
* *
91733601 AAATCATAA--T-ATATAA-TACTATA
1 AAAT-ATAATTTAATAAAATTACTATT
* *
91733624 AAATATAATTTAA-AATAATAATTATT
1 AAATATAATTTAATAA-AATTACTATT
91733650 AAATATAATTTAATAAAATT
1 AAATATAATTTAATAAAATT
91733670 CTTAATATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
21 5 0.05
22 7 0.08
23 4 0.04
24 7 0.08
25 6 0.06
26 40 0.43
27 4 0.04
28 2 0.02
29 18 0.19
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (26 bp):
AAATATAATTTAATAAAATTACTATT
Found at i:91733646 original size:13 final size:12
Alignment explanation
Indices: 91733622--91733662 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
91733612 TATAATACTA
91733622 TAAAATATAATT
1 TAAAATATAATT
91733634 TAAAATAATAATT
1 TAAAAT-ATAATT
*
91733647 ATTAAATATAATT
1 -TAAAATATAATT
91733660 TAA
1 TAA
91733663 TAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:91751213 original size:30 final size:30
Alignment explanation
Indices: 91751179--91751274 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
91751169 CCTCCACCTC
*
91751179 CTGGTGCTCCTCCACCACCTCCTCCGAAAG
1 CTGGTGCTCCTCCACCACCTCCTCCAAAAG
* * *
91751209 CTGGTGC-CGCTCCGCCACCTCCTTCTAAAG
1 CTGGTGCTC-CTCCACCACCTCCTCCAAAAG
*
91751239 CTGGCGCTCCTCCACCACCTCCTCCAAAAG
1 CTGGTGCTCCTCCACCACCTCCTCCAAAAG
91751269 CTGGTG
1 CTGGTG
91751275 GTGGTCCTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 54 0.96
31 1 0.02
ACGTcount: A:0.16, C:0.45, G:0.19, T:0.21
Consensus pattern (30 bp):
CTGGTGCTCCTCCACCACCTCCTCCAAAAG
Found at i:91754383 original size:20 final size:20
Alignment explanation
Indices: 91754358--91754398 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
91754348 CGATTTTGAA
91754358 GGAATATTAACCAGGGTAGT
1 GGAATATTAACCAGGGTAGT
91754378 GGAATATTAACCAGGGTAGT
1 GGAATATTAACCAGGGTAGT
91754398 G
1 G
91754399 TTGAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (20 bp):
GGAATATTAACCAGGGTAGT
Found at i:91758844 original size:13 final size:14
Alignment explanation
Indices: 91758817--91758845 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91758807 ATTTGAATCT
91758817 ATTAAAATATATAA
1 ATTAAAATATATAA
91758831 ATTAAAAT-TATAA
1 ATTAAAATATATAA
91758844 AT
1 AT
91758846 ATTTTACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTAAAATATATAA
Found at i:91766391 original size:22 final size:24
Alignment explanation
Indices: 91766357--91766403 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
91766347 TGAATAGTTT
91766357 AATAATTTAAATAAAT-TTTTTTA
1 AATAATTTAAATAAATATTTTTTA
* *
91766380 AATAA-TTCAATAACTATTTTTTA
1 AATAATTTAAATAAATATTTTTTA
91766403 A
1 A
91766404 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
AATAATTTAAATAAATATTTTTTA
Done.