Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 23 of 50
Found at i:10456660 original size:150 final size:149
Alignment explanation
Indices: 10456364--10456758 Score: 473
Period size: 150 Copynumber: 2.7 Consensus size: 149
10456354 CAAAGTGTTC
* * *
10456364 TTAAAGTTGTTAAGCCTCAGATGAGGATTTGTTTA-TATT----G-TTTTTAAAGTTGTTAAGCC
1 TTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGTTTTTTAAAGTTGTTAAGCC
** * * * *
10456423 TCGGATGAGGAGCAGTTTATTTTTAAAATTATTTTTAAAGTTTGTTAAGCCTCGGATGAGTACTT
66 TCGGATGAGGAGTTGTTTATTTTTCAAATTCTTTTTAAAGTTTGTTAAGCCTCGGATAAGGACTT
* *
10456488 GATTATTTTTTAATTTTTT
131 GATTATTTTTTAATTGTGT
10456507 TTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGTATTTTTAAAGTTGTTAAGC
1 TTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGT-TTTTTAAAGTTGTTAAGC
* *
10456572 CTTGGATGAGGAGTTGTTTATTTTTCAAATTCTTTTTGAAG-TTGTTAAGCCTCGGATAAGGA-T
65 CTCGGATGAGGAGTTGTTTATTTTTCAAATTCTTTTTAAAGTTTGTTAAGCCTCGGATAAGGACT
** *
10456635 TTTTTTTTTTTTCAAATTGTGT
130 TGATTATTTTTT--AATTGTGT
* * * * * *
10456657 TTAAAGTCGTTAAGCCTCGAATGATGAGTTGTTTATTTTTCAAATTGTTTTTAATGTTATTAAGC
1 TTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGT-TTTTTAAAGTTGTTAAGC
* *
10456722 CTCAGAAGAGGAGTTGTTTATTTTTCAAATTACTTTT
65 CTCGGATGAGGAGTTGTTTATTTTTCAAATT-CTTTT
10456759 AAAATTATAA
Statistics
Matches: 216, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
143 33 0.15
144 3 0.01
148 11 0.05
149 19 0.09
150 145 0.67
151 5 0.02
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (149 bp):
TTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGTTTTTTAAAGTTGTTAAGCC
TCGGATGAGGAGTTGTTTATTTTTCAAATTCTTTTTAAAGTTTGTTAAGCCTCGGATAAGGACTT
GATTATTTTTTAATTGTGT
Found at i:10458507 original size:44 final size:43
Alignment explanation
Indices: 10458447--10458569 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 43
10458437 GAAAGAAAAT
*
10458447 ATAAGAAAAATAAAATATATTTAGTCATAAAAAAGGTTAGGTAA
1 ATAAGAAAAATGAAA-ATATTTAGTCATAAAAAAGGTTAGGTAA
*
10458491 GTAAGAAAAATG-AAATATTTAGTCATAAAAATAGGTTAGGTAA
1 ATAAGAAAAATGAAAATATTTAGTCATAAAAA-AGGTTAGGTAA
* *
10458534 ATAAGAAAAATAGAAAAGAAATTTAGTTATAAAAAA
1 ATAAGAAAAAT-G-AAA-ATATTTAGTCATAAAAAA
10458570 AAGGTAGATT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
42 17 0.25
43 23 0.33
44 11 0.16
46 3 0.04
47 15 0.22
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.26
Consensus pattern (43 bp):
ATAAGAAAAATGAAAATATTTAGTCATAAAAAAGGTTAGGTAA
Found at i:10458510 original size:42 final size:44
Alignment explanation
Indices: 10458447--10458549 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 44
10458437 GAAAGAAAAT
*
10458447 ATAAGAAAAATAAAATATATTTAGTCATAAAAA-AGGTTAGGTAA
1 ATAAGAAAAATAGAA-ATATTTAGTCATAAAAATAGGTTAGGTAA
*
10458491 GTAAGAAAAAT-GAAATATTTAGTCATAAAAATAGGTTAGGTAA
1 ATAAGAAAAATAGAAATATTTAGTCATAAAAATAGGTTAGGTAA
10458534 ATAAGAAAAATAGAAA
1 ATAAGAAAAATAGAAA
10458550 AGAAATTTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
42 17 0.31
43 23 0.43
44 14 0.26
ACGTcount: A:0.57, C:0.02, G:0.16, T:0.25
Consensus pattern (44 bp):
ATAAGAAAAATAGAAATATTTAGTCATAAAAATAGGTTAGGTAA
Found at i:10458633 original size:20 final size:20
Alignment explanation
Indices: 10458608--10458645 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10458598 GTAATAATAA
10458608 TTATAAAATAAA-ATATTTGG
1 TTATAAAA-AAATATATTTGG
10458628 TTATAAAAAAATATATTT
1 TTATAAAAAAATATATTT
10458646 AGGTAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATAAAAAAATATATTTGG
Found at i:10460225 original size:28 final size:29
Alignment explanation
Indices: 10460184--10460243 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10460174 GTCTATGGGC
*
10460184 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10460212 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10460242 AA
1 AA
10460244 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10464449 original size:2 final size:2
Alignment explanation
Indices: 10464442--10464480 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
10464432 TTATGATTAC
10464442 AT AT AT AT AT A- AT AT AT AT AT ACT AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT AT AT AT
10464481 TACCTTTCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 1 0.03
2 29 0.85
3 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10464961 original size:2 final size:2
Alignment explanation
Indices: 10464954--10464988 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10464944 ACCAATGAAN
10464954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10464989 TACCAACATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10467523 original size:18 final size:18
Alignment explanation
Indices: 10467502--10467550 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
10467492 ATTATATTTG
10467502 TTCAAAAAGTTATGTCTA
1 TTCAAAAAGTTATGTCTA
* *
10467520 TTCAAATAA-TTATGTTTG
1 TTCAAA-AAGTTATGTCTA
10467538 TTCAAAAAGTTAT
1 TTCAAAAAGTTAT
10467551 CTATGTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (18 bp):
TTCAAAAAGTTATGTCTA
Found at i:10468169 original size:36 final size:36
Alignment explanation
Indices: 10468129--10468279 Score: 121
Period size: 36 Copynumber: 4.2 Consensus size: 36
10468119 AGGATCAAAT
* * * *
10468129 GATAACCTTTACACCGCCTTTTCAACGAGATCAAGC
1 GATAACCCTTACATCGACTTTTCAATGAGATCAAGC
* * *
10468165 GATAAACCTTATAAT-GGCTTTTTC-AT-AGGATCAAGC
1 GATAACCCTTA-CATCGAC-TTTTCAATGA-GATCAAGC
* ** *
10468201 GATAGCCCTTACATTTACTTTTTAATGAGATCAAGC
1 GATAACCCTTACATCGACTTTTCAATGAGATCAAGC
* * *
10468237 AATAACCCTTACATCGACTTTTTAATGGGATCAAGC
1 GATAACCCTTACATCGACTTTTCAATGAGATCAAGC
10468273 -ATAACCC
1 GATAACCC
10468280 ACACACTAAC
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
35 14 0.15
36 71 0.77
37 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (36 bp):
GATAACCCTTACATCGACTTTTCAATGAGATCAAGC
Found at i:10468292 original size:35 final size:36
Alignment explanation
Indices: 10468217--10468293 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
10468207 CCTTACATTT
** *
10468217 ACTTTTTAATGAGATCAAGCAATAACCCTTACATCG
1 ACTTTTTAATGAGATCAAGCAATAACCCACACATCA
*
10468253 ACTTTTTAATGGGATCAAGC-ATAACCCACACA-CTA
1 ACTTTTTAATGAGATCAAGCAATAACCCACACATC-A
10468288 ACTTTT
1 ACTTTT
10468294 CAAGGTCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.03
35 16 0.44
36 19 0.53
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (36 bp):
ACTTTTTAATGAGATCAAGCAATAACCCACACATCA
Found at i:10469450 original size:3 final size:3
Alignment explanation
Indices: 10469442--10469484 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10469432 AAGCTATCCT
10469442 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10469485 CCACCATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10469770 original size:17 final size:18
Alignment explanation
Indices: 10469734--10469770 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10469724 AATACTCAAT
*
10469734 TAAATAACTCAAACATCA
1 TAAATAACTCAAAAATCA
10469752 TAAATAACT-AAAAATCA
1 TAAATAACTCAAAAATCA
10469769 TA
1 TA
10469771 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAATAACTCAAAAATCA
Found at i:10480703 original size:44 final size:44
Alignment explanation
Indices: 10480653--10480741 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
10480643 ATACATCAAG
10480653 TCATACACCATCTCCAGAGGATAATTATTCTATAAATATAAAGA
1 TCATACACCATCTCCAGAGGATAATTATTCTATAAATATAAAGA
10480697 TCATACACCATCTCCAGAGGATAATTATTCTATAAATATAAAGA
1 TCATACACCATCTCCAGAGGATAATTATTCTATAAATATAAAGA
10480741 T
1 T
10480742 TAGTTACAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (44 bp):
TCATACACCATCTCCAGAGGATAATTATTCTATAAATATAAAGA
Found at i:10482987 original size:76 final size:76
Alignment explanation
Indices: 10482859--10483013 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
10482849 CACACATAGA
* * *
10482859 AATATGACATATCAGTTCGTCATCTATAAGAATGAAACAAGCATTAGCCTATGGATTCAATATAA
1 AATATGACATATCAGTTCATCATCAATAAGAATGAAACAAGCATTAGACTATGGATTCAATATAA
*
10482924 GTATGTAGTTT
66 GCATGTAGTTT
10482935 AATATGACATATCAGTTCATCATCAATAAGAATGAAACAAGCATTAGACTATGGATTCAATATAA
1 AATATGACATATCAGTTCATCATCAATAAGAATGAAACAAGCATTAGACTATGGATTCAATATAA
10483000 GCATGTAGTTT
66 GCATGTAGTTT
10483011 AAT
1 AAT
10483014 TTTTGGCTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (76 bp):
AATATGACATATCAGTTCATCATCAATAAGAATGAAACAAGCATTAGACTATGGATTCAATATAA
GCATGTAGTTT
Found at i:10483569 original size:8 final size:7
Alignment explanation
Indices: 10483553--10483591 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 7
10483543 CTGAGTTTTC
10483553 TTAGTTT
1 TTAGTTT
10483560 TTAGGTTT
1 TTA-GTTT
10483568 TTAGTTT
1 TTAGTTT
10483575 TTAGTATT
1 TTAGT-TT
10483583 TTAGCTTT
1 TTAG-TTT
10483591 T
1 T
10483592 CTCTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 12 0.41
8 16 0.55
9 1 0.03
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (7 bp):
TTAGTTT
Found at i:10483573 original size:15 final size:15
Alignment explanation
Indices: 10483553--10483591 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
10483543 CTGAGTTTTC
10483553 TTAGTTTTTAGGT-TT
1 TTAGTTTTTA-GTATT
10483568 TTAGTTTTTAGTATT
1 TTAGTTTTTAGTATT
10483583 TTAGCTTTT
1 TTAG-TTTT
10483592 CTCTTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 16 0.73
16 4 0.18
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (15 bp):
TTAGTTTTTAGTATT
Found at i:10485725 original size:21 final size:19
Alignment explanation
Indices: 10485699--10485742 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
10485689 TAGTAATATA
10485699 ATTTATTAATTTATTTA-AAGT
1 ATTTATT-ATTT-TTTACAA-T
10485720 ATTTATTATTTTTTACAAT
1 ATTTATTATTTTTTACAAT
10485739 ATTT
1 ATTT
10485743 TAATTGACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.41
20 6 0.27
21 7 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATTATTTTTTACAAT
Found at i:10490689 original size:51 final size:51
Alignment explanation
Indices: 10490614--10490722 Score: 191
Period size: 51 Copynumber: 2.1 Consensus size: 51
10490604 ATTTGAAATA
* *
10490614 AAAAATGAATCACTTTTGAAATAAAATTAAATTATAATATAAAATTTCATT
1 AAAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
10490665 AAAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
1 AAAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
*
10490716 AATAATT
1 AAAAATT
10490723 TGAATATAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (51 bp):
AAAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
Found at i:10491190 original size:30 final size:30
Alignment explanation
Indices: 10491154--10491215 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
10491144 ACGTTTAAGC
**
10491154 AAGCTTTTATATTTTTATTTTGAGCCAAAT
1 AAGCTTTTATACGTTTATTTTGAGCCAAAT
* *
10491184 AAGCTTTTTTACGTTTATTTTGAGTCAAAT
1 AAGCTTTTATACGTTTATTTTGAGCCAAAT
10491214 AA
1 AA
10491216 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (30 bp):
AAGCTTTTATACGTTTATTTTGAGCCAAAT
Found at i:10493084 original size:21 final size:21
Alignment explanation
Indices: 10493060--10493099 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10493050 TACAAAATAA
*
10493060 AAAGTAAATATATTTATATTT
1 AAAGTAAATATATATATATTT
*
10493081 AAAGTACATATATATATAT
1 AAAGTAAATATATATATAT
10493100 AACAATGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AAAGTAAATATATATATATTT
Found at i:10495342 original size:17 final size:17
Alignment explanation
Indices: 10495309--10495343 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10495299 TATTTGATTG
**
10495309 ATAAAAATAATTTTAAA
1 ATAAAAATAATAATAAA
10495326 ATAAAAATAATAATAAA
1 ATAAAAATAATAATAAA
10495343 A
1 A
10495344 AGATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATAATAATAAA
Found at i:10495457 original size:42 final size:42
Alignment explanation
Indices: 10495410--10495505 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
10495400 AATATTAATA
* * *
10495410 ATTAATAATTTATATAAAATATTAATAATTGATAATTT-AAAT
1 ATTAATATTTTATATAAAAT-TTAATAATTAACAATTTAAAAT
* * * *
10495452 ATTAATATTTTATTTATAATTTAATCATTAACATTTTAAAAT
1 ATTAATATTTTATATAAAATTTAATAATTAACAATTTAAAAT
10495494 ATTAATATTTTA
1 ATTAATATTTTA
10495506 CTTAATTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 13 0.28
42 33 0.72
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (42 bp):
ATTAATATTTTATATAAAATTTAATAATTAACAATTTAAAAT
Found at i:10495584 original size:156 final size:160
Alignment explanation
Indices: 10495397--10495791 Score: 541
Period size: 156 Copynumber: 2.5 Consensus size: 160
10495387 ATTTTAGTTT
* * *
10495397 TTAAATATTAATAATTAATAATTTATATAAAATATTAATAATTGATAATTTAAATATTAATATTT
1 TTAAATATTAATAATTAATAATTTATTTAAAAAATTAATAATTGATAATTTAATTATTAATATTT
*
10495462 TATTTATAATTTAATCATTAACATTTTAAAATATTAATATTTTA-CT-TAATTTAAATACTATTA
66 TATTTATAATTTAATCATTAACATTTAAAAATATTAATATTTTATCTATAATTTAAATACTATTA
*
10495525 TGAACAATTT-TTT-T-ATTTTATTGTA-CTA
131 TG-ACAATTTATTTCTAATTTAATT-TATCTA
* * *
10495553 TTAAATATTAATAATTGATGATTTATTTAAAAAATTAATAATTGATAATTTAATTGTTAATATTT
1 TTAAATATTAATAATTAATAATTTATTTAAAAAATTAATAATTGATAATTTAATTATTAATATTT
* * * *
10495618 TATTTATAATTAAATCATTACCATTTAAAAATATTAATATTTTATTTATAATTTAAATATTATTA
66 TATTTATAATTTAATCATTAACATTTAAAAATATTAATATTTTATCTATAATTTAAATACTATTA
* * *
10495683 TGACTATTTATTTCTAATTTAATTTATTTT
131 TGACAATTTATTTCTAATTTAATTTATCTA
* * * * *
10495713 TTAACTATTAATAATTTATAATTTATTTAAAACATTACTTATTGATAATTTAATTATTAATATTT
1 TTAAATATTAATAATTAATAATTTATTTAAAAAATTAATAATTGATAATTTAATTATTAATATTT
*
10495778 TAATTATAATTTAA
66 TATTTATAATTTAA
10495792 ATGTTATTAT
Statistics
Matches: 209, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
156 100 0.48
157 7 0.03
158 21 0.10
159 3 0.01
160 78 0.37
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (160 bp):
TTAAATATTAATAATTAATAATTTATTTAAAAAATTAATAATTGATAATTTAATTATTAATATTT
TATTTATAATTTAATCATTAACATTTAAAAATATTAATATTTTATCTATAATTTAAATACTATTA
TGACAATTTATTTCTAATTTAATTTATCTA
Found at i:10495720 original size:31 final size:31
Alignment explanation
Indices: 10495658--10495822 Score: 82
Period size: 31 Copynumber: 5.5 Consensus size: 31
10495648 ATATTAATAT
*
10495658 TTTATTTATAATTTAAATATTATTATGACTA
1 TTTATTTATAATTTAAATATTATTATAACTA
* * *
10495689 TTTATTTCTAATTTAATTTATT-TTTTAACTA
1 TTTATTTATAATTTAA-ATATTATTATAACTA
*
10495720 -TTA---ATAATTTATAAT-TTATTTAAAACATTA
1 TTTATTTATAATTTA-AATATTA-TTATAAC--TA
* * *
10495750 CTTATTGATAATTTAATTATTA--AT-A-T-
1 TTTATTTATAATTTAAATATTATTATAACTA
* * * *
10495776 TTTAATTATAATTTAAATGTTATTATGATTA
1 TTTATTTATAATTTAAATATTATTATAACTA
*
10495807 TTTATTTTTTAATTTA
1 TTTA-TTTATAATTTA
10495823 TTTTATTTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
26 19 0.19
27 9 0.09
28 8 0.08
29 1 0.01
30 7 0.07
31 30 0.30
32 13 0.13
33 2 0.02
34 11 0.11
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTATTTATAATTTAAATATTATTATAACTA
Found at i:10495779 original size:15 final size:15
Alignment explanation
Indices: 10495751--10495784 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10495741 AAAACATTAC
*
10495751 TTATTGATAATTTAA
1 TTATTAATAATTTAA
*
10495766 TTATTAATATTTTAA
1 TTATTAATAATTTAA
10495781 TTAT
1 TTAT
10495785 AATTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTATTAATAATTTAA
Found at i:10495786 original size:118 final size:119
Alignment explanation
Indices: 10495646--10495915 Score: 388
Period size: 119 Copynumber: 2.3 Consensus size: 119
10495636 TACCATTTAA
10495646 AAATATTAATATTTTATTTATAATTTAAATATTATTATGACTATTTA-TTTCTAATTTAATTTAT
1 AAATATTAATATTTTATTTATAATTTAAATATTATTATGACTATTTATTTTCTAATTTAATTTAT
* * *
10495710 TTTTTAACTATTAATAATTTATAATTTA-TTTAAAACATT-ACTTA-TTGATAATTT
66 TTTTCAAATATTAATAATTTATAATTTAGTTT-AAACATTGA--TACTTAATAATTT
* * * * * *
10495764 AATTATTAATATTTTAATTATAATTTAAATGTTATTATGATTATTTATTTTTTAATTTATTTTAT
1 AAATATTAATATTTTATTTATAATTTAAATATTATTATGACTATTTATTTTCTAATTTAATTTAT
*
10495829 TTTTCAAATATTAATATTTTATAATTTAGTTTAAACATTGATACTTAATAATTT
66 TTTTCAAATATTAATAATTTATAATTTAGTTTAAACATTGATACTTAATAATTT
10495883 AAATATTAATATTTTATTTATAATTT-AATATTA
1 AAATATTAATATTTTATTTATAATTTAAATATTA
10495916 ATATTTTATT
Statistics
Matches: 135, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
118 51 0.38
119 80 0.59
120 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (119 bp):
AAATATTAATATTTTATTTATAATTTAAATATTATTATGACTATTTATTTTCTAATTTAATTTAT
TTTTCAAATATTAATAATTTATAATTTAGTTTAAACATTGATACTTAATAATTT
Found at i:10495932 original size:25 final size:26
Alignment explanation
Indices: 10495873--10495932 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
10495863 ACATTGATAC
10495873 TTAATAATTTAAATATTAATATTTTA
1 TTAATAATTTAAATATTAATATTTTA
*
10495899 TTTATAATTT-AATATTAATATTTTA
1 TTAATAATTTAAATATTAATATTTTA
*
10495924 TTAAAAATT
1 TTAATAATT
10495933 GAGTCAAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAATAATTTAAATATTAATATTTTA
Found at i:10496559 original size:2 final size:2
Alignment explanation
Indices: 10496554--10496587 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10496544 AAAAAAAATA
10496554 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10496588 TTATTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10496592 original size:12 final size:12
Alignment explanation
Indices: 10496557--10496595 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
10496547 AAAAATAATA
10496557 TATATATATATAT
1 TATATATAT-TAT
10496570 ATATATATATTAT
1 -TATATATATTAT
*
10496583 TATATTTATTAT
1 TATATATATTAT
10496595 T
1 T
10496596 TTTNNNNNNN
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 3 0.12
14 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATATATTAT
Found at i:10512909 original size:13 final size:14
Alignment explanation
Indices: 10512891--10512919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10512881 TAGTGTTCCT
10512891 TAAAAT-TTTATAA
1 TAAAATATTTATAA
10512904 TAAAATATTTATAA
1 TAAAATATTTATAA
10512918 TA
1 TA
10512920 TCCACAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATATTTATAA
Found at i:10522707 original size:19 final size:19
Alignment explanation
Indices: 10522683--10522720 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10522673 ACTTCTAAAC
10522683 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10522702 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10522721 AGTTAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10524747 original size:20 final size:18
Alignment explanation
Indices: 10524722--10524788 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 18
10524712 TAAGTTTGAT
10524722 AAATATTAATATTTAACTTA
1 AAATATTAATATTT-A-TTA
* **
10524742 AAATATTAAAAAATATTA
1 AAATATTAATATTTATTA
*
10524760 AAATATTAATTTTTCATTTA
1 AAATATTAATATTT-A-TTA
10524780 AAATATTAA
1 AAATATTAA
10524789 AAAATAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 13 0.34
19 2 0.05
20 23 0.61
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTAATATTTATTA
Found at i:10524766 original size:38 final size:38
Alignment explanation
Indices: 10524722--10524794 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
10524712 TAAGTTTGAT
10524722 AAATATTAATATTTAACTTAAAATATTAAAAAATATTA
1 AAATATTAATATTTAACTTAAAATATTAAAAAATATTA
* * *
10524760 AAATATTAATTTTTCATTTAAAATATTAAAAAATA
1 AAATATTAATATTTAACTTAAAATATTAAAAAATA
10524795 AATTAGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (38 bp):
AAATATTAATATTTAACTTAAAATATTAAAAAATATTA
Found at i:10524849 original size:15 final size:16
Alignment explanation
Indices: 10524825--10524867 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
10524815 AATTTTTAAC
10524825 TTAAAATATT-AATAT
1 TTAAAATATTCAATAT
*
10524840 TTAAATTATTCAATATT
1 TTAAAATATTCAATA-T
10524857 ATTAAAATATT
1 -TTAAAATATT
10524868 AAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 1 0.04
18 9 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAAATATTCAATAT
Found at i:10525372 original size:17 final size:19
Alignment explanation
Indices: 10525342--10525380 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10525332 CTTTAAAATA
10525342 TTTTACATAGAAATT-TTT
1 TTTTACATAGAAATTATTT
*
10525360 TTTTTCATA-AAATTATTT
1 TTTTACATAGAAATTATTT
10525378 TTT
1 TTT
10525381 ATTACCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTACATAGAAATTATTT
Found at i:10525518 original size:21 final size:21
Alignment explanation
Indices: 10525492--10525539 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10525482 GGTTTAAATT
10525492 AAATTTATTATCAAAATATTA
1 AAATTTATTATCAAAATATTA
* * *
10525513 AAATTTTTTATTAATATATTA
1 AAATTTATTATCAAAATATTA
*
10525534 ATATTT
1 AAATTT
10525540 GTAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTTATTATCAAAATATTA
Found at i:10527194 original size:11 final size:11
Alignment explanation
Indices: 10527169--10527207 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10527159 AGAGATAAAA
**
10527169 AAAAAAAGAAA
1 AAAAAAAGATG
10527180 AAAAAAAGATG
1 AAAAAAAGATG
*
10527191 AAAAATAGATG
1 AAAAAAAGATG
10527202 AAAAAA
1 AAAAAA
10527208 GAGAAACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (11 bp):
AAAAAAAGATG
Found at i:10533012 original size:38 final size:38
Alignment explanation
Indices: 10532959--10533032 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
10532949 TCACACATCC
10532959 AAAAATTCAACTAAGTTTTGTGAGAAGCAAGTGGTACT
1 AAAAATTCAACTAAGTTTTGTGAGAAGCAAGTGGTACT
* *
10532997 AAAAATTCAATTAAGTTTTGTGATAAGCAAGTGGTA
1 AAAAATTCAACTAAGTTTTGTGAGAAGCAAGTGGTA
10533033 ACATTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (38 bp):
AAAAATTCAACTAAGTTTTGTGAGAAGCAAGTGGTACT
Found at i:10536502 original size:35 final size:35
Alignment explanation
Indices: 10536407--10536519 Score: 122
Period size: 35 Copynumber: 3.2 Consensus size: 35
10536397 GAATGATGAG
* *
10536407 AACAACTAGAACAAGTGAAGCT-CTACTTCACGTAT
1 AACAACTAGAGCAAGTGAAG-TACTACTTCACGCAT
* **
10536442 AACAACTAGAGCAAATGAAACACTACTTCACGCAT
1 AACAACTAGAGCAAGTGAAGTACTACTTCACGCAT
* * *
10536477 AACAATTAGAGCAAGTGGAGTACTACTTCATGCGA-
1 AACAACTAGAGCAAGTGAAGTACTACTTCACGC-AT
10536512 AACAACTA
1 AACAACTA
10536520 ATACAAGTGG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
35 63 0.98
36 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (35 bp):
AACAACTAGAGCAAGTGAAGTACTACTTCACGCAT
Found at i:10537074 original size:35 final size:35
Alignment explanation
Indices: 10537035--10537101 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10537025 GTTGTTCTGT
* *
10537035 GTAAAGTAGTG-TTCCGCTTGCTTTAATTGATCCAC
1 GTAAAGTAGTGCTT-CACTTGCTCTAATTGATCCAC
10537070 GTAAAGTAGTGCTTCACTTGCTCTAATTGATC
1 GTAAAGTAGTGCTTCACTTGCTCTAATTGATC
10537102 TAGTGAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (35 bp):
GTAAAGTAGTGCTTCACTTGCTCTAATTGATCCAC
Found at i:10537119 original size:34 final size:35
Alignment explanation
Indices: 10537051--10537119 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
10537041 TAGTGTTCCG
* **
10537051 CTTGCTTTAATTGATCCACGTAAAGTAGTGCTTCA
1 CTTGCTCTAATTGATCCACGTAAAGTAGACCTTCA
* *
10537086 CTTGCTCTAATTGATCTA-GTGAAGTAGACCTTCA
1 CTTGCTCTAATTGATCCACGTAAAGTAGACCTTCA
10537120 TTTGTTGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (35 bp):
CTTGCTCTAATTGATCCACGTAAAGTAGACCTTCA
Found at i:10540343 original size:2 final size:2
Alignment explanation
Indices: 10540336--10540398 Score: 92
Period size: 2 Copynumber: 31.0 Consensus size: 2
10540326 TAATTTATTG
*
10540336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA AA CTNA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA
10540379 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
10540399 AAAACTTAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 1 0.02
2 53 0.95
3 1 0.02
4 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10548500 original size:17 final size:17
Alignment explanation
Indices: 10548466--10548500 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10548456 AGACAATGGT
* *
10548466 TAGTAATAATCATTAAG
1 TAGTAATAAGCATCAAG
10548483 TAGTAATAAGCATCAAG
1 TAGTAATAAGCATCAAG
10548500 T
1 T
10548501 TCAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (17 bp):
TAGTAATAAGCATCAAG
Found at i:10551037 original size:21 final size:19
Alignment explanation
Indices: 10550999--10551056 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
10550989 TATAAAAACT
*
10550999 AATAAATAATAGTTAAATTA
1 AATAAATAATA-TAAAATTA
10551019 AGATAAATAAATATAAAATTA
1 A-ATAAAT-AATATAAAATTA
10551040 AATTAAATTAATA-AAAA
1 AA-TAAA-TAATATAAAA
10551057 CAAACTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 6 0.18
21 22 0.67
22 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAAATAATATAAAATTA
Found at i:10551783 original size:13 final size:14
Alignment explanation
Indices: 10551765--10551801 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
10551755 TTTGGGGTGT
10551765 AAAAAAAAGGGAA-
1 AAAAAAAAGGGAAG
10551778 AAAAAAAAGGGAAG
1 AAAAAAAAGGGAAG
10551792 AAAAGAAAAG
1 AAAA-AAAAG
10551802 AAAAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 4 0.18
15 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGGAAG
Found at i:10552513 original size:20 final size:20
Alignment explanation
Indices: 10552446--10552519 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 20
10552436 TATTAGTTTA
10552446 GTTTAG-TTTATGTT-TTAAT
1 GTTTAGTTTTATGTTATT-AT
* * *
10552465 GTTTA-TTTTAAGTTAATAAC
1 GTTTAGTTTTATGTT-ATTAT
10552485 G-TTAGTTTTATGTTAGTTAT
1 GTTTAGTTTTATGTTA-TTAT
*
10552505 GTTTATTTTTATGTT
1 GTTTAGTTTTATGTT
10552520 TTGGTAGGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 16 0.38
20 13 0.31
21 13 0.31
ACGTcount: A:0.23, C:0.01, G:0.15, T:0.61
Consensus pattern (20 bp):
GTTTAGTTTTATGTTATTAT
Found at i:10553659 original size:16 final size:17
Alignment explanation
Indices: 10553630--10553670 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10553620 TTCTTGTTAA
*
10553630 TTAGATTTAGTTAATTT
1 TTAGATTTAATTAATTT
10553647 TTAG-TTTAATTAATTAT
1 TTAGATTTAATTAATT-T
10553664 TT-GATTT
1 TTAGATTT
10553671 TGATTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (17 bp):
TTAGATTTAATTAATTT
Found at i:10555259 original size:22 final size:22
Alignment explanation
Indices: 10555234--10555312 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
10555224 TCACCTTAGA
10555234 AGAAAGAAGAAAAAAAGGAAAG
1 AGAAAGAAGAAAAAAAGGAAAG
* * *
10555256 AGAAGGAAGAAGAATA-GAAAG
1 AGAAAGAAGAAAAAAAGGAAAG
10555277 AAGAAA-AGAGAAATAAAAGG--AG
1 -AGAAAGA-AGAAA-AAAAGGAAAG
*
10555299 AAAAAGAA-AAAAAA
1 AGAAAGAAGAAAAAA
10555313 GATCGACTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 11 0.24
22 24 0.53
23 3 0.07
24 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (22 bp):
AGAAAGAAGAAAAAAAGGAAAG
Found at i:10555264 original size:29 final size:29
Alignment explanation
Indices: 10555232--10555288 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10555222 CTTCACCTTA
*
10555232 GAAGAAAGAAGA-AAAAAAGGAAAGAGAAG
1 GAAG-AAGAAGAGAAAAAAGAAAAGAGAAG
* *
10555261 GAAGAAGAATAGAAAGAAGAAAAGAGAA
1 GAAGAAGAAGAGAAAAAAGAAAAGAGAA
10555289 ATAAAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (29 bp):
GAAGAAGAAGAGAAAAAAGAAAAGAGAAG
Found at i:10555291 original size:20 final size:18
Alignment explanation
Indices: 10555236--10555314 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 18
10555226 ACCTTAGAAG
**
10555236 AAAGAAGAAAAA-AAGGA
1 AAAGAAGAAAAAGAAATA
*
10555253 AAGAGAAGGAAGAAG-AATA
1 AA-AGAA-GAAAAAGAAATA
10555272 GAAAGAAGAAAAGAGAAATA
1 -AAAGAAGAAAA-AGAAATA
* *
10555292 AAAGGAGAAAAAGAAAAA
1 AAAGAAGAAAAAGAAATA
10555310 AAAGA
1 AAAGA
10555315 TCGACTTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
17 2 0.04
18 18 0.37
19 23 0.47
20 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (18 bp):
AAAGAAGAAAAAGAAATA
Found at i:10555308 original size:14 final size:13
Alignment explanation
Indices: 10555240--10555308 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
10555230 TAGAAGAAAG
* *
10555240 AAGAAAAAAAGGA
1 AAGAGAAAAAGAA
*
10555253 AAGAGAAGGAAGAA
1 AAGAGAA-AAAGAA
*
10555267 GAATAGAAAGAAGAA
1 -AAGAGAAA-AAGAA
*
10555282 AAGAGAAATA-AA
1 AAGAGAAAAAGAA
*
10555294 AGGAGAAAAAGAA
1 AAGAGAAAAAGAA
10555307 AA
1 AA
10555309 AAAAGATCGA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
12 10 0.24
13 10 0.24
14 11 0.26
15 11 0.26
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (13 bp):
AAGAGAAAAAGAA
Found at i:10555312 original size:18 final size:19
Alignment explanation
Indices: 10555273--10555314 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10555263 AGAAGAATAG
*
10555273 AAAGAAGAAAAGAGAAATA
1 AAAGAAGAAAAGAGAAAAA
*
10555292 AAAGGAGAAAA-AGAAAAA
1 AAAGAAGAAAAGAGAAAAA
10555310 AAAGA
1 AAAGA
10555315 TCGACTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAAGAAAAGAGAAAAA
Found at i:10562335 original size:250 final size:250
Alignment explanation
Indices: 10561330--10563385 Score: 2208
Period size: 250 Copynumber: 8.3 Consensus size: 250
10561320 TATTATTATC
* * *
10561330 ACTTGTTACATTAACTCTCACACTATTTACGTTAAGATTTTAAATTTACTTA-TCTCACTTTTAT
1 ACTTGTTACGTTAACTCTCACAC-ATTTACGTTAAGATTTAAAATTTAGTTATTCT-ACTTTTAT
* * * * * * *
10561394 AAGATTTTATGTTAATTTTTACAATTTTACGTCAAG-CTTTTTCAATAGT-AACTTTT-AACTAT
64 AAGTTTTTACGTCAATTCTTACAGTTTTACGTCAAGAC-TTATCTAT-GTCAA-TTTTGAACTAT
** * * * ** * * *
10561456 AATTATCGTTATCTTTATTATTTTTTAATTT-AAAATAAAAATTTAAATATTGTTATATACTTTT
126 AATTATTTTTATC-CTATTATTCTTT-ATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTT
* * * * *
10561520 AGTCCGATAATATAAATATAAATA-TT-TTTTTCATTTAAATTAGATTTTTTTACTTAATTA
189 AGTCCGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
* * * * *
10561580 ACTTATAACGTTAACTCTAAAATATTTACGTTAAGATTTAAAATTTAGTTATT-TCACCTTTT-T
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCT-A-CTTTTAT
* * * *
10561643 AAGTTTTTACGTCAATTGTTATAGTTTTACGT-AAAAGCTTATCTATGTCAATTTAGAACTATAA
64 AAGTTTTTACGTCAATTCTTACAGTTTTACGTCAAGA-CTTATCTATGTCAATTTTGAACTATAA
** * *
10561707 TTATTTTTATTATTATTATTATTCTTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTT
128 TTA--TTT-TTA-TCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTT
** * *
10561772 AGTTTGAGAATACAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTTACCTAATTG
189 AGTCCGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGA-TTTTTTTACTTAATTG
* * *
10561835 ACTTGTTACGTTAACTTTTACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
* * * * *
10561900 GTTTTTAAGTCAATTGTTACAGTTTTACGTAAAGGCTTATCTATATCAATTTTGAACTATAATTA
66 GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGAACTATAATTA
* * *
10561965 TTTTGATCCTTATTATTTTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCTG
131 TTTTTATCC-TATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCG
* *
10562030 AGAATATAAATTTAAATATTTATTTTTCATTAAAATTATATTTTTTTACTTAATTG
195 AGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
* * * * * * * *
10562086 ACTTATTACGTTAATTTTTACGCATTTACATTAAGATTTAAAACTTAATTATTCTACTTTTATAA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
* * *
10562151 GTTTTTACGTCAATTCTTACAATTTTACGTCAAGACTTTTCTATGTCAATTTTAAACTATAATTA
66 GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGAACTATAATTA
* * *
10562216 TTTTTATCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAATACTTTTATTCTGA
131 TTTTTATCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGA
* * *
10562281 GAATATAAATTTAAATGTTTGTTTTTCACTAAAATTAGATTTTTTTATTTAATTG
196 GAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
* * * *
10562336 ACTTGTTATGTTAACTCTCACACATTTATGTTAAGATTTAAAATTTAGTTACTC-AATCTTTATA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACT-TTTATA
* * * *
10562400 AGTTTTTACGTTAATTGTTACAGTTTTACAG-CAA-AGCTTATATTTGTCAA-TTT----TA-AA
65 AGTTTTTACGTCAATTCTTACAGTTTTAC-GTCAAGA-CTTATCTATGTCAATTTTGAACTATAA
* * *
10562457 CTA----TA----ATTATT-TTTATTTAAGAATTAAAATTTGTATATCGTTAAACACATTTAGTC
128 TTATTTTTATCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTC
* *
10562513 CGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTATATTTTTTTTTCTCT-ATTG
193 CGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGA-TTTTTTTACT-TAATTG
* * * *
10562572 ACTTGTTACGTTAACTCTCACACGTTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
* * *
10562637 GTTTTTACTTCAATTCTGACAGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTA
66 GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGAACTATAATTA
* * * * *
10562702 TTTTTATCCTTATTATT-TTTATTTAAAAATTAAAATTTATATATCATTAAATACCTTTATTCTC
131 TTTTTATCC-TATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTC-C
*
10562766 -AAAATATAAATTTAAATATTTATTTTTCGA-TAAAATTAGATTTTTTTACTTAATTG
194 GAGAATATAAATTTAAATATTTATTTTTC-ACTAAAATTAGATTTTTTTACTTAATTG
* * * * * *
10562822 ACTTGTTATGTTAACTCTCACATATTTATGTTAAGATTTAAAATTTAATTATTCCACTTTTGTAA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
* * * * * **
10562887 TTTTTTACGTTAATCCTTACAGTTTTATGTCAAGATTCTT-T-TATGTCCATTTTGAGTTATAAT
66 GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGA--CTTATCTATGTCAATTTTGAACTATAAT
* * * * * *
10562950 TATTTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTACATACTTTTAGCC
129 TATTTTTATCC-TATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTC
* * * * * * *
10563015 CGATAATATAAATATAAAT-GTT-TGTTTCATTAAAATTAAATTTTTTTACTTAATTA
193 CGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
* * * * * * *
10563071 ACTTATTACGTTAAATTTCAAATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
* * * * *
10563136 GTTTTTACGTCAATTTTTATAGTTTTATGTTAAGGC--A--TATGTCAATTTTGAACTATAATT-
66 GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGAACTATAATTA
* * *
10563196 TTTTTCAT--TATTATTCTTTATTTAAAAATTAAAATTTGTATATTGTTAACCACTTTTAGCCCG
131 TTTTT-ATCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCG
* * *
10563259 AAAATATAAATTTATATATTTGTTTTTCACTAAAATTAGA--TTTTTACTTAATTG
195 AGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
* * *
10563313 ACTTGTTACGTTAACTCGCACACATTTATGTT-AGAATTTAAAATTTAGTTATTTTA-TCTTTAT
1 ACTTGTTACGTTAACTCTCACACATTTACGTTAAG-ATTTAAAATTTAGTTATTCTACT-TTTAT
10563376 AAGTTTTTAC
64 AAGTTTTTAC
10563386 CAATTTAATG
Statistics
Matches: 1538, Mismatches: 213, Indels: 118
0.82 0.11 0.06
Matches are distributed among these distances:
235 80 0.05
236 112 0.07
237 6 0.00
240 2 0.00
241 4 0.00
242 138 0.09
243 2 0.00
244 24 0.02
245 24 0.02
246 2 0.00
247 1 0.00
248 8 0.01
249 195 0.13
250 355 0.23
251 280 0.18
252 155 0.10
253 6 0.00
254 20 0.01
255 121 0.08
256 3 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.49
Consensus pattern (250 bp):
ACTTGTTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
GTTTTTACGTCAATTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGAACTATAATTA
TTTTTATCCTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGA
GAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTG
Found at i:10562638 original size:737 final size:742
Alignment explanation
Indices: 10561330--10563384 Score: 2410
Period size: 737 Copynumber: 2.8 Consensus size: 742
10561320 TATTATTATC
* * * * * *
10561330 ACTTGTTACATTAACTCTCACACTATTTACGTTAAGATTTTAAATTTACTTA-TCTCACTTTTAT
1 ACTTATTACGTTAACTCTCACAC-ATTTACATTAAGATTTAAAACTTAATTATTC-CACTTTTAT
* * * ** * * *
10561394 AAGATTTTATGTTAATTTTTACAATTTTACGTCAAGCTTTTTCAATAGT-AACTTTT-AACTATA
64 AAGTTTTTACGTCAATCCTTACAATTTTACGTCAAGATTCTTCTAT-GTCAA-TTTTAAACTATA
** * * * ** *
10561457 ATTATCGTTATCTTTATTATTTTTTAATTT-AAAATAAAAATTTAAATATTGTTATATACTTTTA
127 ATTATTTTTATCCTTATTATTCTTT-ATTTAAAAATAAAAATTTGAATATCATTAAATACTTTTA
* * * * * * *
10561521 GTCCGATAATATAAATATAAATATTTTTTTCATTTAAATTAGATTTTTTTACTTAATTAACTTAT
191 GCCCGAGAATATAAATATAAATGTTTGTTTCACTAAAATTAAATTTTTTTACTTAATTAACTTAT
* * * * * *
10561586 AACGTTAACTCTAAAATATTTACGTTAAGATTTAAAATTTAGTTATTTC-ACCTTTTTAAGTTTT
256 TACGTTAAATCTCAAACATTTACGTTAAGATTTAAAATTTAGTTA-CTCAACCTTTATAAGTTTT
* * * * * *
10561650 TACGTCAATTGTTATAGTTTTACGTAAAAGCTTATCTATGTCAATTTAGAACTATAATTATTTTT
320 TACGTCAATTGTTACAGTTTTAAGTCAAAGC--A--TATAT-AATTTTG-A-TA-CA--A-TTTT
** * * * **
10561715 ATTATTATTATTATTCTTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTTAGTTTGAG
374 A--AACATAATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGAG
*
10561780 AATACAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTTAC-CTAATTGACTTGTTAC
437 AATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTTACTCTAATTGACTTGTTAC
* *
10561844 GTTAACTTTTACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTAAG
502 GTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTAAG
* * *
10561909 TCAATTGTTACAGTTTTACGTAAAGGCTTATCTATATCAATTTTGAACTATAATTATTTTGATCC
567 TCAATTCTGACAGTTTTACGTAAAGACTTATCTATATCAATTTTGAACTATAATTATTTTGATCC
* * * * *
10561974 TTATTATTTTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCTGAGAATATAA
632 TTATTA-TTTTTATTTAAAAATTAAAATTTATATATCATTAAACACCTTTAGTCTCAAAATATAA
*
10562039 ATTTAAATATTTATTTTTC-ATTAAAATTATATTTTTTTACTTAATTG
696 ATTTAAATATTTATTTTTCGA-TAAAATTAGATTTTTTTACTTAATTG
* * * * *
10562086 ACTTATTACGTTAATTTTTACGCATTTACATTAAGATTTAAAACTTAATTATTCTACTTTTATAA
1 ACTTATTACGTTAACTCTCACACATTTACATTAAGATTTAAAACTTAATTATTCCACTTTTATAA
*
10562151 GTTTTTACGTCAATTCTTACAATTTTACGTCAAGACTT-TTCTATGTCAATTTTAAACTATAATT
66 GTTTTTACGTCAATCCTTACAATTTTACGTCAAGA-TTCTTCTATGTCAATTTTAAACTATAATT
* * * ** *
10562215 ATTTTTATCC-TATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAATACTTTTATTCT
130 ATTTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTAAATACTTTTAGCCC
* * * * *
10562279 GAGAATATAAATTTAAATGTTTGTTTTTCACTAAAATTAGATTTTTTTATTTAATTGACTTGTTA
195 GAGAATATAAATATAAATGTTTG--TTTCACTAAAATTAAATTTTTTTACTTAATTAACTTATTA
* * * * *
10562344 TGTTAACTCTCACACATTTATGTTAAGATTTAAAATTTAGTTACTCAATCTTTATAAGTTTTTAC
258 CGTTAAATCTCAAACATTTACGTTAAGATTTAAAATTTAGTTACTCAACCTTTATAAGTTTTTAC
*
10562409 GTTAATTGTTACAGTTTTACAG-CAAAGC-T-TAT-A-TTTG-T-CAATTTTAAACTATAATTAT
323 GTCAATTGTTACAGTTTTA-AGTCAAAGCATATATAATTTTGATACAATTTTAAAC-ATAATTAT
* *
10562467 T-TTTATTTAAGAATTAAAATTTGTATATCGTTAAACACATTTAGTCCGAGAATATAAATTTAAA
386 TCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGAGAATATAAATTTAAA
* *
10562531 TATTTATTTTTCACTAAAATTATATTTTTTTTTCTCT-ATTGACTTGTTACGTTAACTCTCACAC
451 TATTTATTTTTCACTAAAATTAGATTTTTTTTACTCTAATTGACTTGTTACGTTAACTCTCACAC
* * * **
10562595 GTTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACTTCAATTCTGACAGT
516 ATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTAAGTCAATTCTGACAGT
* * *
10562660 TTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATTTTTATT
581 TTTACGTAAAGACTTATCTATATCAATTTTGAACTATAATTATTTTGATCCTTATTATTTTTATT
* *
10562725 TAAAAATTAAAATTTATATATCATTAAATACCTTTATTCTCAAAATATAAATTTAAATATTTATT
646 TAAAAATTAAAATTTATATATCATTAAACACCTTTAGTCTCAAAATATAAATTTAAATATTTATT
10562790 TTTCGATAAAATTAGATTTTTTTACTTAATTG
711 TTTCGATAAAATTAGATTTTTTTACTTAATTG
* * * ** * *
10562822 ACTTGTTATGTTAACTCTCACATATTTATGTTAAGATTTAAAATTTAATTATTCCACTTTTGTAA
1 ACTTATTACGTTAACTCTCACACATTTACATTAAGATTTAAAACTTAATTATTCCACTTTTATAA
* * * * * * * **
10562887 TTTTTTACGTTAATCCTTACAGTTTTATGTCAAGATTCTTTTATGTCCATTTTGAGTTATAATTA
66 GTTTTTACGTCAATCCTTACAATTTTACGTCAAGATTCTTCTATGTCAATTTTAAACTATAATTA
*
10562952 TTTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTACATACTTTTAGCCCG
131 TTTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTAAATACTTTTAGCCCG
* *
10563017 ATAATATAAATATAAATGTTTGTTTCATTAAAATTAAATTTTTTTACTTAATTAACTTATTACGT
196 AGAATATAAATATAAATGTTTGTTTCACTAAAATTAAATTTTTTTACTTAATTAACTTATTACGT
* * * *
10563082 TAAATTTCAAATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTC
261 TAAATCTCAAACATTTACGTTAAGATTTAAAATTTAGTTACTCAACCTTTATAAGTTTTTACGTC
* * * * * * * *** *
10563147 AATTTTTATAGTTTTATGTTAAGGCATATGTCAATTTTGAACTATAATTTTTTTCATTATTATTC
326 AATTGTTACAGTTTTAAGTCAAAGCATATAT-AATTTTG-A-TACAATTTTAAACATAATTATTC
* * * * *
10563212 TTTATTTAAAAATTAAAATTTGTATATTGTTAACCACTTTTAGCCCGAAAATATAAATTTATATA
388 TTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGAGAATATAAATTTAAATA
* *
10563277 TTTGTTTTTCACTAAAATTAGA---TTTTTACT-TAATTGACTTGTTACGTTAACTCGCACACAT
453 TTTATTTTTCACTAAAATTAGATTTTTTTTACTCTAATTGACTTGTTACGTTAACTCTCACACAT
* * *
10563338 TTATGTT-AGAATTTAAAATTTAGTTATTTTATCTTTATAAGTTTTTA
518 TTACGTTAAG-ATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTA
10563385 CCAATTTAAT
Statistics
Matches: 1112, Mismatches: 160, Indels: 69
0.83 0.12 0.05
Matches are distributed among these distances:
734 1 0.00
735 113 0.10
736 210 0.19
737 296 0.27
738 10 0.01
739 6 0.01
740 8 0.01
741 73 0.07
742 1 0.00
743 9 0.01
744 86 0.08
747 3 0.00
748 1 0.00
750 2 0.00
751 1 0.00
753 4 0.00
754 66 0.06
755 90 0.08
756 131 0.12
757 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (742 bp):
ACTTATTACGTTAACTCTCACACATTTACATTAAGATTTAAAACTTAATTATTCCACTTTTATAA
GTTTTTACGTCAATCCTTACAATTTTACGTCAAGATTCTTCTATGTCAATTTTAAACTATAATTA
TTTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTAAATACTTTTAGCCCG
AGAATATAAATATAAATGTTTGTTTCACTAAAATTAAATTTTTTTACTTAATTAACTTATTACGT
TAAATCTCAAACATTTACGTTAAGATTTAAAATTTAGTTACTCAACCTTTATAAGTTTTTACGTC
AATTGTTACAGTTTTAAGTCAAAGCATATATAATTTTGATACAATTTTAAACATAATTATTCTTT
ATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCCGAGAATATAAATTTAAATATTT
ATTTTTCACTAAAATTAGATTTTTTTTACTCTAATTGACTTGTTACGTTAACTCTCACACATTTA
CGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTAAGTCAATTCTGACAGTTTTAC
GTAAAGACTTATCTATATCAATTTTGAACTATAATTATTTTGATCCTTATTATTTTTATTTAAAA
ATTAAAATTTATATATCATTAAACACCTTTAGTCTCAAAATATAAATTTAAATATTTATTTTTCG
ATAAAATTAGATTTTTTTACTTAATTG
Found at i:10562703 original size:486 final size:487
Alignment explanation
Indices: 10561471--10563854 Score: 2269
Period size: 486 Copynumber: 4.9 Consensus size: 487
10561461 TCGTTATCTT
* * * * *
10561471 TATTATTTTTTAATTT-AAAATAAAAATTTAAATATTGTTATATACTTTTAGTCCGATAATATAA
1 TATTATTTTTT-ATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATATAA
* * * *
10561535 ATATAAATA-TTTTTTTCATTTAAATTAGATTTTTTTACTTAATTAACTTATAACGTTAACTCTA
65 ATATAAATATTTTTTTTCATTAAAATTATATTTTTTTACTTAATTAACTTATTACGTTAACTCTC
* * * * *
10561599 AAATATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTTTAAGTTTTTACGTCAATTGTTA
130 AAACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTA
* * * **
10561664 TAGTTTTACG-TAAAAGCTTATCTATGTCAATTTAGAACTATAATTATTTTTATTATTATTATTA
195 CAGTTTTACGTTAAGA-CTTATCTATGTCAATTTTGAACTATAATTA--TTT-TTA-TCCTATTA
* * *
10561728 TTCTTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTTAGTT-TGAGAATACAAATTTA
255 TTCTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTA-TTCTGAAAATATAAATTTA
* * *
10561792 AATATTTATTTTTCACTAAAATTAGATTTTTTTTACCTAATTGACTTGTTACGTTAACTTTTACA
319 AATATTTATTTTTCACTAAAATTAGA-TTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACA
* * * *
10561857 CATTTACGTTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTAAGTCAATTGTTACAG
383 CATTTATGTTAAGATTTAAAATTTAGTTATTCTATCTTTATAAGTTTTTACGTTAATTGTTACAG
* * * *
10561922 TTTTACGTAAAGGCTTATCTATATCAATTTTGAACTATAATTATTTTGA
448 TTTTACGCAAA-GCTTATATTTGTCAA-TTT----TATAATTA--TT-A
* * *
10561971 TCCTTATTATTTTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCTGAGAATA
1 ----TATTATTTTTTATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATA
* * *
10562036 TAAATTTAAATATTTATTTTTCATTAAAATTATATTTTTTTACTTAATTGACTTATTACGTTAAT
62 TAAATATAAATATTT-TTTTTCATTAAAATTATATTTTTTTACTTAATTAACTTATTACGTTAAC
* * ** * * * *
10562101 TTTTACGCATTTACATTAAGATTTAAAACTTAATTATTCTACTTTTATAAGTTTTTACGTCAATT
126 TCTCAAACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATT
* * * *
10562166 CTTACAATTTTACGTCAAGACTTTTCTATGTCAATTTTAAACTATAATTATTTTTATCCTATTAT
191 CTTACAGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCCTATTAT
* * *
10562231 TCTTTATTTAAAAATTAAAATTTGTATATCGTTAAATACTTTTATTCTGAGAATATAAATTTAAA
256 TCTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTATTCTGAAAATATAAATTTAAA
* * * *
10562296 TGTTTGTTTTTCACTAAAATTAGATTTTTTTATTTAATTGACTTGTTATGTTAACTCTCACACAT
321 TATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACACAT
* *
10562361 TTATGTTAAGATTTAAAATTTAGTTACTCAATCTTTATAAGTTTTTACGTTAATTGTTACAGTTT
386 TTATGTTAAGATTTAAAATTTAGTTATTCTATCTTTATAAGTTTTTACGTTAATTGTTACAGTTT
*
10562426 TACAGCAAAGCTTATATTTGTCAATTTTA-AACTA-TA
451 TAC-GCAAAGCTTATATTTGTCAATTTTATAATTATTA
* * * *
10562462 -ATTA-TTTTTATTTAAGAATTAAAATTTGTATATCGTTAAACACATTTAGTCCGAGAATATAAA
1 TATTATTTTTTATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATATAAA
* * * * *
10562525 TTTAAATATTTATTTTTCACTAAAATTATATTTTTTTTTCTCT-ATTGACTTGTTACGTTAACTC
66 TATAAATATTT-TTTTTCATTAAAATTATA-TTTTTTTACT-TAATTAACTTATTACGTTAACTC
* * *
10562589 TCACACGTTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACTTCAATTCT
128 TCAAACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCT
*
10562654 GACAGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATT
193 TACAGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCC-TATTATT
* * * *
10562719 -TTTATTTAAAAATTAAAATTTATATATCATTAAATACCTTTATTCTCAAAATATAAATTTAAAT
257 CTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTATTCTGAAAATATAAATTTAAAT
* *
10562783 ATTTATTTTTCGA-TAAAATTAGATTTTTTTACTTAATTGACTTGTTATGTTAACTCTCACATAT
322 ATTTATTTTTC-ACTAAAATTAGATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACACAT
* * * * **
10562847 TTATGTTAAGATTTAAAATTTAATTATTCCA-CTTTTGTAATTTTTTACGTTAATCCTTACAGTT
386 TTATGTTAAGATTTAAAATTTAGTTATTCTATC-TTTATAAGTTTTTACGTTAATTGTTACAGTT
* * * * *
10562911 TTATGTC-AAGATTCTTTTATGTCCATTTTGAGTTATAATTATTTTTA
450 TTACG-CAAAGCTTATATT-TGT-CA-ATT---TTATAATTA---TTA
* * * * * *
10562958 TCCTTATTATTCTTTATTTAAAAATAAAAATTTGAATATCATTACATACTTTTAGCCCGATAATA
1 ----TATTATTTTTTATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATA
* * * *
10563023 TAAATATAAAT-GTTTGTTTCATTAAAATTAAATTTTTTTACTTAATTAACTTATTACGTTAAAT
62 TAAATATAAATATTTTTTTTCATTAAAATTATATTTTTTTACTTAATTAACTTATTACGTTAACT
* * * *
10563087 TTCAAATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTT
127 CTCAAACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTC
* * *
10563152 TTATAGTTTTATGTTAAGGC--A--TATGTCAATTTTGAACTATAATT-TTTTTCAT--TATTAT
192 TTACAGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTT-ATCCTATTAT
* * * ** * *
10563210 TCTTTATTTAAAAATTAAAATTTGTATATTGTTAACCACTTTTAGCCCGAAAATATAAATTTATA
256 TCTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTATTCTGAAAATATAAATTTAAA
* *
10563275 TATTTGTTTTTCACTAAAATTAGA--TTTTTACTTAATTGACTTGTTACGTTAACTCGCACACAT
321 TATTTATTTTTCACTAAAATTAGATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACACAT
* *
10563338 TTATGTT-AGAATTTAAAATTTAGTTATTTTATCTTTATAAGTTTTTAC--CAA-T-TTA-A--T
386 TTATGTTAAG-ATTTAAAATTTAGTTATTCTATCTTTATAAGTTTTTACGTTAATTGTTACAGTT
* * * ** **
10563395 GT---C-AA-CTTAAAAATT-AAAATTTGTAT-ATCGTTA
450 TTACGCAAAGCTT-ATATTTGTCAATTT-TATAATTATTA
** * * * ** * * * *
10563428 -AACACTTGTAATTCGAGAATACAAATTTAAATAT--TT----A-TTTT--T-C---ACTA-AAA
1 TATTATTTTTTATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATATAAA
* * * * *
10563478 T-TAGAT-TTTTTTTAC-TT--AATT-GA-GTTTTTAC---GTTAA-TT-TT-C----A----C-
66 TATAAATATTTTTTTTCATTAAAATTATATTTTTTTACTTAATTAACTTATTACGTTAACTCTCA
* * * * * *
10563521 -ACGTTTACATTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTATGTCAATTCTTAC
131 AACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTAC
* * * *
10563585 AGTTTAACGTCAAAACTTTTCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATTCTT
196 AGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCC-TATTATTCTT
* * * * *
10563650 TATTTAAAAATTAAAATTTATATATTGTTAAACACTATTAATC-CAAGAATGTAAATTTAAATAT
260 TATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTATTCTGAA-AATATAAATTTAAATAT
* * *
10563714 TTGTTTTTCACTAAAATTAGATTTTTTTTACTTAATTGATTTATTACGTTAACTCTCACACATTT
324 TTATTTTTCACTAAAATTAGA-TTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACACATTT
* * * *
10563779 ACGTTAAGATTTAAAATTTAGTTATTC-AACTTTTATAAGTTATTACGTCAATTGTTACAGTTTT
388 ATGTTAAGATTTAAAATTTAGTTATTCTATC-TTTATAAGTTTTTACGTTAATTGTTACAGTTTT
*
10563843 ACGTCAATGCTT
452 ACG-CAAAGCTT
10563855 GTCTATGTTA
Statistics
Matches: 1601, Mismatches: 215, Indels: 180
0.80 0.11 0.09
Matches are distributed among these distances:
429 67 0.04
431 1 0.00
433 25 0.02
434 5 0.00
435 3 0.00
436 84 0.05
438 2 0.00
439 75 0.05
440 4 0.00
441 5 0.00
442 5 0.00
443 3 0.00
444 1 0.00
445 7 0.00
446 3 0.00
447 4 0.00
449 2 0.00
450 11 0.01
451 5 0.00
452 6 0.00
455 1 0.00
458 4 0.00
459 1 0.00
463 2 0.00
465 23 0.01
470 3 0.00
473 3 0.00
474 3 0.00
476 2 0.00
477 1 0.00
479 3 0.00
480 4 0.00
484 2 0.00
485 95 0.06
486 320 0.20
487 14 0.01
488 2 0.00
489 2 0.00
490 2 0.00
491 78 0.05
492 14 0.01
493 73 0.05
494 5 0.00
495 29 0.02
496 4 0.00
497 1 0.00
498 1 0.00
499 100 0.06
500 18 0.01
501 118 0.07
502 146 0.09
503 7 0.00
504 62 0.04
505 2 0.00
506 135 0.08
507 3 0.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (487 bp):
TATTATTTTTTATTTAAAAATAAAAATTTGAATATCGTTAAACACTTTTAGTCCGAGAATATAAA
TATAAATATTTTTTTTCATTAAAATTATATTTTTTTACTTAATTAACTTATTACGTTAACTCTCA
AACATTTACGTTAAGATTTAAAACTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTAC
AGTTTTACGTTAAGACTTATCTATGTCAATTTTGAACTATAATTATTTTTATCCTATTATTCTTT
ATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTATTCTGAAAATATAAATTTAAATATTT
ATTTTTCACTAAAATTAGATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCACACATTTATG
TTAAGATTTAAAATTTAGTTATTCTATCTTTATAAGTTTTTACGTTAATTGTTACAGTTTTACGC
AAAGCTTATATTTGTCAATTTTATAATTATTA
Found at i:10563101 original size:20 final size:19
Alignment explanation
Indices: 10563076--10563121 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
10563066 AATTAACTTA
10563076 TTACGTTAA-ATTTCAAATAT
1 TTACGTTAAGATTT-AAA-AT
10563096 TTACGTTAAGATTTAAAAT
1 TTACGTTAAGATTTAAAAT
10563115 TTA-GTTA
1 TTACGTTA
10563122 TTCCACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 12 0.48
21 4 0.16
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (19 bp):
TTACGTTAAGATTTAAAAT
Found at i:10563565 original size:187 final size:184
Alignment explanation
Indices: 10563217--10563571 Score: 478
Period size: 187 Copynumber: 1.9 Consensus size: 184
10563207 TATTCTTTAT
* * * * * * *
10563217 TTAAAAATTAAAATTTGTATATTGTTAACCACTTTTAGCCCGAAAATATAAATTTATATATTTGT
1 TTAAAAATTAAAATTTGTATATCGTTAAACACTTGTAACCCGAAAATACAAATTTAAATATTTAT
**
10563282 TTTTCACTAAAATTAGATTTTTACTTAATTGACTTGTTACGTTAACTCGCACACATTTATGTTAG
66 TTTTCACTAAAATTAGATTTTTACTTAATTGACTTGTTACGTTAACTCGCACACATTTACATTAG
* * *
10563347 AATTTAAAATTTAGTTATTTTATCTTTATAAGTTTTTACCAATTTAATGTCAAC
131 AATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTACCAATTTAATGTCAAC
** *
10563401 TTAAAAATTAAAATTTGTATATCGTTAAACACTTGTAATTCGAGAATACAAATTTAAATATTTAT
1 TTAAAAATTAAAATTTGTATATCGTTAAACACTTGTAACCCGAAAATACAAATTTAAATATTTAT
* * * ** *
10563466 TTTTCACTAAAATTAGATTTTTTTTACTTAATTGAGTTTTTACGTTAATTTTCACACGTTTACAT
66 TTTTCACTAAAATTAGA---TTTTTACTTAATTGACTTGTTACGTTAACTCGCACACATTTACAT
10563531 TA-AGATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTA
128 TAGA-ATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTA
10563572 TGTCAATTCT
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
184 72 0.49
186 1 0.01
187 73 0.50
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (184 bp):
TTAAAAATTAAAATTTGTATATCGTTAAACACTTGTAACCCGAAAATACAAATTTAAATATTTAT
TTTTCACTAAAATTAGATTTTTACTTAATTGACTTGTTACGTTAACTCGCACACATTTACATTAG
AATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTACCAATTTAATGTCAAC
Found at i:10563849 original size:252 final size:252
Alignment explanation
Indices: 10563401--10563879 Score: 723
Period size: 252 Copynumber: 1.9 Consensus size: 252
10563391 TAATGTCAAC
* * *
10563401 TTAAAAATTAAAATTTGTATATCGTTAAACACTTGTAATTCGAGAATACAAATTTAAATATTTAT
1 TTAAAAATTAAAATTTATATATCGTTAAACACTTGTAATCCAAGAATACAAATTTAAATATTTAT
* * *
10563466 TTTTCACTAAAATTAGATTTTTTTTACTTAATTGAGTTTTTACGTTAATTTTCACACGTTTACAT
66 TTTTCACTAAAATTAGATTTTTTTTACTTAATTGAGTTTTTACGTTAACTCTCACACATTTACAT
*
10563531 TAAGATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTATGTCAATTCTTACAGTTTAACGTC
131 TAAGATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTACGTCAATTCTTACAGTTTAACGTC
*
10563596 AAAACTTTTCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATTCTTTAT
196 AAAACTTGTCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATTCTTTAT
* ** *
10563653 TTAAAAATTAAAATTTATATATTGTTAAACACTAT-TAATCCAAGAATGTAAATTTAAATATTTG
1 TTAAAAATTAAAATTTATATATCGTTAAACACT-TGTAATCCAAGAATACAAATTTAAATATTTA
10563717 TTTTTCACTAAAATTAGATTTTTTTTACTTAATTGA-TTTATTACGTTAACTCTCACACATTTAC
65 TTTTTCACTAAAATTAGATTTTTTTTACTTAATTGAGTTT-TTACGTTAACTCTCACACATTTAC
* * * *
10563781 GTTAAGATTTAAAATTTAGTTA-TTCAACTTTTATAA-GTTATTACGTCAATTGTTACAGTTTTA
129 ATTAAGATTTAAAATTTAGTTATTTC-ACCTTTATAAGGTT-TTACGTCAATTCTTACAGTTTAA
** *
10563844 CGTCAATGCTTGTCTATGTTAATTTTGAACTATAAT
192 CGTCAAAACTTGTCTATGTCAATTTTGAACTATAAT
10563880 AATAATAATA
Statistics
Matches: 204, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
251 9 0.04
252 194 0.95
253 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (252 bp):
TTAAAAATTAAAATTTATATATCGTTAAACACTTGTAATCCAAGAATACAAATTTAAATATTTAT
TTTTCACTAAAATTAGATTTTTTTTACTTAATTGAGTTTTTACGTTAACTCTCACACATTTACAT
TAAGATTTAAAATTTAGTTATTTCACCTTTATAAGGTTTTACGTCAATTCTTACAGTTTAACGTC
AAAACTTGTCTATGTCAATTTTGAACTATAATTATTTTTATCCTTATTATTCTTTAT
Found at i:10563883 original size:3 final size:3
Alignment explanation
Indices: 10563875--10563909 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
10563865 ATTTTGAACT
*
10563875 ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10563910 TATTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:10564751 original size:24 final size:25
Alignment explanation
Indices: 10564697--10564751 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
10564687 TTAAGCCATT
* *
10564697 ACATATATGGATAGAAACATTGAAG
1 ACATATATGGATAAAAACATTAAAG
10564722 TACATATATGGATAAAAACATTAAAG
1 -ACATATATGGATAAAAACATTAAAG
10564748 -CATA
1 ACATA
10564752 GTTATCCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
26 23 0.85
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (25 bp):
ACATATATGGATAAAAACATTAAAG
Found at i:10564919 original size:102 final size:102
Alignment explanation
Indices: 10564733--10564926 Score: 361
Period size: 102 Copynumber: 1.9 Consensus size: 102
10564723 ACATATATGG
10564733 ATAAAAACATTAAAGCATAGTTATCCCACAAAAAGCCAAGCTATTAAGAGCAAGAGCAAGGGAAC
1 ATAAAAACATTAAAGCATAGTTATCCCACAAAAAGCCAAGCTATTAAGAGCAAGAGCAAGGGAAC
* *
10564798 ATATATATATACACATGTATATATATAAAACATCGGT
66 ATACATATACACACATGTATATATATAAAACATCGGT
10564835 ATAAAAACATTAAAGCATAGTTATCCCACAAAAAGCCAAGCTATTAAGAGCAAGAGCAAGGGAAC
1 ATAAAAACATTAAAGCATAGTTATCCCACAAAAAGCCAAGCTATTAAGAGCAAGAGCAAGGGAAC
*
10564900 ATACATATACACACGTGTATATATATA
66 ATACATATACACACATGTATATATATA
10564927 CACATGTATA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (102 bp):
ATAAAAACATTAAAGCATAGTTATCCCACAAAAAGCCAAGCTATTAAGAGCAAGAGCAAGGGAAC
ATACATATACACACATGTATATATATAAAACATCGGT
Found at i:10564929 original size:16 final size:16
Alignment explanation
Indices: 10564904--10564942 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10564894 GGGAACATAC
* *
10564904 ATATACACACGTGTAT
1 ATATATACACATGTAT
10564920 ATATATACACATGTAT
1 ATATATACACATGTAT
10564936 ATATATA
1 ATATATA
10564943 TATATAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATACACATGTAT
Found at i:10564943 original size:18 final size:18
Alignment explanation
Indices: 10564904--10564944 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10564894 GGGAACATAC
*
10564904 ATATACACACGTGTATAT
1 ATATACACACGTATATAT
*
10564922 ATATACACATGTATATAT
1 ATATACACACGTATATAT
10564940 ATATA
1 ATATA
10564945 TATAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
ATATACACACGTATATAT
Found at i:10568224 original size:13 final size:14
Alignment explanation
Indices: 10568197--10568225 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10568187 TAATTTAAAT
10568197 TTTTTAAAATATTA
1 TTTTTAAAATATTA
10568211 TTTTTAAAAT-TTA
1 TTTTTAAAATATTA
10568224 TT
1 TT
10568226 AAACTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTAAAATATTA
Found at i:10576829 original size:143 final size:143
Alignment explanation
Indices: 10576567--10576850 Score: 455
Period size: 143 Copynumber: 2.0 Consensus size: 143
10576557 ATTTTCATGA
*
10576567 AAATTACCTTAAACACTCACATACTTGACTTCTTTAATTGCATGGGAATGAGTAACGTCCTTGAC
1 AAATTACCTTAAACACTCACATACTTGACTTCTGTAATTGCATGGGAATGAGTAACGTCCTTGAC
*
10576632 TTCATACGGTTTCTCAGATGAAGAAGCAACTATTAATGCTATGTTGTTAAAAGGCTTTCTCCTAT
66 TTCAAACGGTTTCTCAGATGAAGAAGCAACTATTAATGCTATGTTGTTAAAAGGCTTTCTCCTAT
10576697 CGCAAAACATATG
131 CGCAAAACATATG
* * * *
10576710 AAATTAGCTTAAACGCTCACGTACTTGACTTCTGTAATTGTATGGGAATGAGTAACGTCCTTGAC
1 AAATTACCTTAAACACTCACATACTTGACTTCTGTAATTGCATGGGAATGAGTAACGTCCTTGAC
* *
10576775 TTCAAATGGTTT-TCCAGATGAAGAAGC-ACATATTAATGCTATGTTGTTACAAGGCTTTCTCCT
66 TTCAAACGGTTTCT-CAGATGAAGAAGCAAC-TATTAATGCTATGTTGTTAAAAGGCTTTCTCCT
*
10576838 ATCGCACAACATA
129 ATCGCAAAACATA
10576851 AGAGAGTGAA
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
142 3 0.02
143 127 0.98
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (143 bp):
AAATTACCTTAAACACTCACATACTTGACTTCTGTAATTGCATGGGAATGAGTAACGTCCTTGAC
TTCAAACGGTTTCTCAGATGAAGAAGCAACTATTAATGCTATGTTGTTAAAAGGCTTTCTCCTAT
CGCAAAACATATG
Found at i:10578218 original size:5 final size:5
Alignment explanation
Indices: 10578208--10578235 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10578198 ATTTTGATTC
10578208 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
10578236 AATAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:10581711 original size:81 final size:81
Alignment explanation
Indices: 10581558--10581762 Score: 232
Period size: 81 Copynumber: 2.5 Consensus size: 81
10581548 TTAGGTATTA
* * * * * ** *
10581558 GGTTTAAGGGTTTTAGGCATTGCATGACTTAGGGTTTACGTGACTGGTTGATAAGGCATGCGTAA
1 GGTTTAGGGGTTTTAGACATTGCATGACTTAGGGTTTGCATGACTAGTTGATAAGGCACACATAA
*
10581623 TTAGTTTTAGTCAATG
66 TTAGTTTTAGACAATG
* *
10581639 GGTTTAGGGGTTTTAGACATTGCATGACTTAGGGCTTGCATGACTAGTTGATAGGGCACACATGA
1 GGTTTAGGGGTTTTAGACATTGCATGACTTAGGGTTTGCATGACTAGTTGATAAGGCACACAT-A
* *
10581704 CTT-GTTTTAGACATTG
65 ATTAGTTTTAGACAATG
* * ** *
10581720 CGTTTAGAGGTTTTAGACATTGTGTGACTTAAGGTTTGCATGA
1 GGTTTAGGGGTTTTAGACATTGCATGACTTAGGGTTTGCATGA
10581763 TTGGTTAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 101 0.97
82 3 0.03
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (81 bp):
GGTTTAGGGGTTTTAGACATTGCATGACTTAGGGTTTGCATGACTAGTTGATAAGGCACACATAA
TTAGTTTTAGACAATG
Found at i:10585646 original size:21 final size:20
Alignment explanation
Indices: 10585590--10585646 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
10585580 TCAATTTTGC
*
10585590 TTTCCAATTCCAATTTTAGAG
1 TTTCCAATT-CAATTTTAGAA
* * * *
10585611 TTTCAAAATCTATTTTTGAA
1 TTTCCAATTCAATTTTAGAA
10585631 TGTTCCAATTCAATTT
1 T-TTCCAATTCAATTT
10585647 GCAAAAAATT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (20 bp):
TTTCCAATTCAATTTTAGAA
Found at i:10588288 original size:22 final size:22
Alignment explanation
Indices: 10588222--10588586 Score: 140
Period size: 22 Copynumber: 16.7 Consensus size: 22
10588212 ATTGTGTAAT
* *
10588222 TGATTTTTAGTCATTGCATGAC
1 TGATTTATAGGCATTGCATGAC
10588244 T-ATTTGATAGAGCATTGCATGAC
1 TGATTT-ATAG-GCATTGCATGAC
**
10588267 TGATTTATAGGCATTGTGTGAC
1 TGATTTATAGGCATTGCATGAC
* *
10588289 TGATTTTTAGTCATTGCATGAC
1 TGATTTATAGGCATTGCATGAC
* * * *
10588311 TAATTTGTAGGGCATTACGT-AC
1 TGATTTATA-GGCATTGCATGAC
* * *
10588333 TGGTTTTTAGGTATTGC--GA-
1 TGATTTATAGGCATTGCATGAC
* * *
10588352 -GA-CT-TAGGCATTGCTTGAT
1 TGATTTATAGGCATTGCATGAC
* * ** ** *
10588371 TGGTTTTTAATCATTGTGTGAT
1 TGATTTATAGGCATTGCATGAC
* * * *
10588393 TGGTTTGTAGGGCGTTGCGTGAC
1 TGATTTATA-GGCATTGCATGAC
* * *
10588416 TGGTTTTTAGGCATTGCATGAT
1 TGATTTATAGGCATTGCATGAC
* * * *
10588438 TGGTTTTTAGTCATTGCGTGAC
1 TGATTTATAGGCATTGCATGAC
* *
10588460 TGGGTTT-TAGGCATTGCATGAT
1 T-GATTTATAGGCATTGCATGAC
* * *
10588482 TGGTTTTTAGACATTGCATGAC
1 TGATTTATAGGCATTGCATGAC
* *
10588504 T-AGTTTTTAGGCATTGCGTGAC
1 TGA-TTTATAGGCATTGCATGAC
* *
10588526 TGATTCATAGGGCATTACATGAC
1 TGATTTATA-GGCATTGCATGAC
* ** *
10588549 T-AGTTTTTAGATATTACATGAC
1 TGA-TTTATAGGCATTGCATGAC
* *
10588571 TGGTTGATAGGCATTG
1 TGATTTATAGGCATTG
10588587 TGTCACAAAC
Statistics
Matches: 262, Mismatches: 62, Indels: 38
0.72 0.17 0.10
Matches are distributed among these distances:
16 9 0.03
17 1 0.00
18 3 0.01
20 2 0.01
21 16 0.06
22 166 0.63
23 61 0.23
24 4 0.02
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (22 bp):
TGATTTATAGGCATTGCATGAC
Found at i:10588470 original size:44 final size:44
Alignment explanation
Indices: 10588355--10588520 Score: 197
Period size: 44 Copynumber: 3.8 Consensus size: 44
10588345 ATTGCGAGAC
* * * ** **
10588355 TTAGGCATTGCTTGATTGGTTTTTAATCATTGTGTGATTGGTTT
1 TTAGACATTGCGTGACTGGTTTTTAGGCATTGCATGATTGGTTT
* * *
10588399 GTAGGGCGTTGCGTGACTGGTTTTTAGGCATTGCATGATTGGTTT
1 TTA-GACATTGCGTGACTGGTTTTTAGGCATTGCATGATTGGTTT
* *
10588444 TTAGTCATTGCGTGACTGGGTTTTAGGCATTGCATGATTGGTTT
1 TTAGACATTGCGTGACTGGTTTTTAGGCATTGCATGATTGGTTT
* *
10588488 TTAGACATTGCATGACTAGTTTTTAGGCATTGC
1 TTAGACATTGCGTGACTGGTTTTTAGGCATTGC
10588521 GTGACTGATT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 69 0.66
45 36 0.34
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.44
Consensus pattern (44 bp):
TTAGACATTGCGTGACTGGTTTTTAGGCATTGCATGATTGGTTT
Found at i:10588501 original size:66 final size:68
Alignment explanation
Indices: 10588355--10588558 Score: 236
Period size: 67 Copynumber: 3.1 Consensus size: 68
10588345 ATTGCGAGAC
* * * * * *
10588355 TTAGGCATTGCTTGATTGGTTTTTAATCATTGTGTGA-TTGGTTTGTAGGGCGTTGCGTGACTGG
1 TTAGGCATTGCATGATTGGTTTTTAGTCATTGCGTGACTGGGTTTGTAGGGCATTGCATGACTGG
10588419 TTT
66 TTT
*
10588422 TTAGGCATTGCATGATTGGTTTTTAGTCATTGCGTGACTGGGTTT-TA-GGCATTGCATGATTGG
1 TTAGGCATTGCATGATTGGTTTTTAGTCATTGCGTGACTGGGTTTGTAGGGCATTGCATGACTGG
10588485 TTT
66 TTT
* * * * * ** * *
10588488 TTAGACATTGCATGACTAGTTTTTAGGCATTGCGTGACT-GATTCATAGGGCATTACATGACTAG
1 TTAGGCATTGCATGATTGGTTTTTAGTCATTGCGTGACTGGGTTTGTAGGGCATTGCATGACTGG
10588552 TTT
66 TTT
10588555 TTAG
1 TTAG
10588559 ATATTACATG
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
65 3 0.03
66 53 0.45
67 56 0.47
68 6 0.05
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (68 bp):
TTAGGCATTGCATGATTGGTTTTTAGTCATTGCGTGACTGGGTTTGTAGGGCATTGCATGACTGG
TTT
Found at i:10597389 original size:21 final size:20
Alignment explanation
Indices: 10597365--10597411 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
10597355 ATCAAACAAA
10597365 AATATAGAAATGAAAAGATAT
1 AATATAGAAATGAAAAGA-AT
* * *
10597386 AATAAAGTAATGAAAATAAT
1 AATATAGAAATGAAAAGAAT
10597406 AATATA
1 AATATA
10597412 ATGATAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
AATATAGAAATGAAAAGAAT
Found at i:10597413 original size:17 final size:18
Alignment explanation
Indices: 10597384--10597425 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10597374 ATGAAAAGAT
10597384 ATAATAA-AGTAATGAAA
1 ATAATAATAGTAATGAAA
*
10597401 ATAATAATA-TAATGATA
1 ATAATAATAGTAATGAAA
*
10597418 ACAATAAT
1 ATAATAAT
10597426 GCAAGAGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
ATAATAATAGTAATGAAA
Found at i:10609100 original size:22 final size:22
Alignment explanation
Indices: 10609072--10609135 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
10609062 TGCCTAAAAG
10609072 AAAAAAAAAGAAAAAAAGGAAA-
1 AAAAAAAAAGAAAAAAA-GAAAC
*
10609094 AAAAAAAAAGAGAAAAAGAAAC
1 AAAAAAAAAGAAAAAAAGAAAC
10609116 AAAAAAGAAAGGTAAAAAAA
1 AAAAAA-AAA-G-AAAAAAA
10609136 AAAAAGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 22 0.61
23 3 0.08
24 1 0.03
25 6 0.17
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAGAAAC
Found at i:10609136 original size:17 final size:17
Alignment explanation
Indices: 10609067--10609138 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
10609057 TACTATGCCT
*
10609067 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAGAAA-AAA
*
10609085 AAAAGGAAAA-AAAAAA
1 AAAAGAAAAAGAAAAAA
* *
10609101 AAGAGAAAAAGAAACAA
1 AAAAGAAAAAGAAAAAA
*
10609118 AAAAG-AAAGGTAAAAAA
1 AAAAGAAAAAG-AAAAAA
10609135 AAAA
1 AAAA
10609139 AAGGAAAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.33
17 21 0.47
18 9 0.20
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.01
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAA
Found at i:10609136 original size:37 final size:34
Alignment explanation
Indices: 10609070--10609145 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 34
10609060 TATGCCTAAA
*
10609070 AGAAAAAAAAAGAAAAAAAGGAAAAAAAAAAAAG
1 AGAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAG
10609104 AGAAAAAGAAACAAAAAAGAAAGGTAAAAAAAAAAAAG
1 AGAAAAA-AAA-AAAAAA-AAAGG-AAAAAAAAAAAAG
10609142 -GAAA
1 AGAAA
10609146 GGATTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 7 0.19
35 3 0.08
36 5 0.14
37 9 0.24
38 13 0.35
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.01
Consensus pattern (34 bp):
AGAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAG
Found at i:10609659 original size:28 final size:27
Alignment explanation
Indices: 10609628--10609681 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
10609618 TTTCGGAGCA
*
10609628 TAGGGGTAAAATGGTAATTTTACCACCC
1 TAGGGGCAAAATGGTAATTTT-CCACCC
*
10609656 TAGGGGCAAAATTGTAATTTTCCACC
1 TAGGGGCAAAATGGTAATTTTCCACC
10609682 ACCAGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACCC
Found at i:10614777 original size:27 final size:27
Alignment explanation
Indices: 10614726--10614777 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
10614716 ATGTCTTGAT
*
10614726 GGTGGAAAATTACAATTTTGCCCCTGG
1 GGTGGAAAATTACAATTTTGACCCTGG
*
10614753 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
10614778 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGG
Found at i:10614848 original size:20 final size:20
Alignment explanation
Indices: 10614823--10614868 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10614813 CTTCTAAACC
10614823 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
10614843 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
10614863 TCAAAT
1 TCAAAT
10614869 GAGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10616127 original size:60 final size:58
Alignment explanation
Indices: 10615924--10616335 Score: 200
Period size: 59 Copynumber: 7.0 Consensus size: 58
10615914 CATTAGAGAT
* * * ** * *
10615924 TTTAAAATCAAACCTGTTTTGATATAAGTTGAGCCTAAGTCAAGTCTAGGAGTTTCAA
1 TTTAAAATCAAACCTATTTTGAGATAGGTCAAGCCTAAGTCAAGTCTAGAAATTTCAA
* * * * *
10615982 TTTTTAAATC--TCC-AGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTCAA
1 -TTTAAAATCAAACCTA-TTTTGAGATAGGTCAAGCCTAAGTCAAGTCTAGAAATTTCAA
* * * * ** *
10616039 TTTAAAATCAAACTTGTTCTGATATAGGTCAAGTTTAGGTCAAGTCTAGAAAATTT-AA
1 TTTAAAATCAAACCTATTTTGAGATAGGTCAAGCCTAAGTCAAGTCTAG-AAATTTCAA
* * * *
10616097 TTTTGAAAATCGAACCTATTTTGAGATAGGTTGAA-CCT-AGATTAAGTTTAGAAATTTCAA
1 -TTT-AAAATCAAACCTATTTTGAGATAGG-TCAAGCCTAAG-TCAAGTCTAGAAATTTCAA
* * * * * * * *
10616157 TTTTTAAGTCGAACCT-TTCTTCAGATAGGTCGAGCCTAAGTTAATTCTAGGAATTTCAA
1 -TTTAAAATCAAACCTATT-TTGAGATAGGTCAAGCCTAAGTCAAGTCTAGAAATTTCAA
* * * * * * *
10616216 TTTTTAAATCGAGCCTGTTTCGATATAGGTCTAA-CCT-AGATCAAGTCTAGAAATTTTAA
1 -TTTAAAATCAAACCTATTTTGAGATAGGTC-AAGCCTAAG-TCAAGTCTAGAAATTTCAA
* * * * * *
10616275 TTTTTAAATCGAACCTGTTTTGATATAAGTCGAA-CCT-AGATTAAGTCTAGAAACTTT-AA
1 -TTTAAAATCAAACCTATTTTGAGATAGGTC-AAGCCTAAG-TCAAGTCTAGAAA-TTTCAA
10616334 TT
1 TT
10616336 GCTTAATTTG
Statistics
Matches: 282, Mismatches: 54, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
56 8 0.03
57 39 0.14
58 37 0.13
59 152 0.54
60 43 0.15
61 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (58 bp):
TTTAAAATCAAACCTATTTTGAGATAGGTCAAGCCTAAGTCAAGTCTAGAAATTTCAA
Found at i:10616183 original size:59 final size:58
Alignment explanation
Indices: 10616080--10616335 Score: 257
Period size: 59 Copynumber: 4.3 Consensus size: 58
10616070 AGTTTAGGTC
* * *
10616080 AAGTCTAGAAAATTTAATTTTGAAAATCGAACCTATTTTGAGATAGGTTGAACCTAGATT
1 AAGTCTAG-AAATTTAATTTT-TAAATCGAACCTATTTTCAGATAGGTCGAACCTAGATT
* * *
10616140 AAGTTTAGAAATTTCAATTTTTAAGTCGAACCT-TTCTTCAGATAGGTCGAGCCTA-AGTT
1 AAGTCTAGAAATTT-AATTTTTAAATCGAACCTATT-TTCAGATAGGTCGAACCTAGA-TT
* * * * * * *
10616199 AATTCTAGGAATTTCAATTTTTAAATCGAGCCT-GTTTCGATATAGGTCTAACCTAGATC
1 AAGTCTAGAAATTT-AATTTTTAAATCGAACCTATTTTC-AGATAGGTCGAACCTAGATT
* * * *
10616258 AAGTCTAGAAATTTTAATTTTTAAATCGAACCTGTTTTGATATAAGTCGAACCTAGATT
1 AAGTCTAGAAA-TTTAATTTTTAAATCGAACCTATTTTCAGATAGGTCGAACCTAGATT
10616317 AAGTCTAGAAACTTTAATT
1 AAGTCTAGAAA-TTTAATT
10616336 GCTTAATTTG
Statistics
Matches: 164, Mismatches: 25, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
58 6 0.04
59 138 0.84
60 20 0.12
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (58 bp):
AAGTCTAGAAATTTAATTTTTAAATCGAACCTATTTTCAGATAGGTCGAACCTAGATT
Found at i:10616307 original size:118 final size:118
Alignment explanation
Indices: 10615922--10616312 Score: 382
Period size: 118 Copynumber: 3.3 Consensus size: 118
10615912 GGCATTAGAG
* *
10615922 ATTTTAAAATCAAACCTGTTTTGATATAAGTTGAGCCTAAGTCAAGTCTAGGAGTTTCAATTTTT
1 ATTTTAAAATCAAACCTGTTTTGATATAAGTCGAGCCTAAGTCAAGTCTAGGAATTTCAATTTTT
* * * * *
10615987 AAATC--TCCAGTTTTGAGATAGGTCGAGCCTA-AGTCAAGTTTAGGAATTTCA
66 AAATCGAACCTGTTTTGAGATAGGTCTAACCTAGA-TCAAGTTTAGAAATTTCA
* * * * ** * *
10616038 A-TTTAAAATCAAACTTGTTCTGATATAGGTCAAGTTTAGGTCAAGTCTAGAAAATTT-AATTTT
1 ATTTTAAAATCAAACCTGTTTTGATATAAGTCGAGCCTAAGTCAAGTCTAG-GAATTTCAATTTT
* * *
10616101 GAAAATCGAACCTATTTTGAGATAGGT-TGAACCTAGATTAAGTTTAGAAATTTCA
65 -TAAATCGAACCTGTTTTGAGATAGGTCT-AACCTAGATCAAGTTTAGAAATTTCA
* * * * * * * *
10616156 ATTTTTAAGTCGAACCT-TTCTTCAGATAGGTCGAGCCTAAGTTAATTCTAGGAATTTCAATTTT
1 ATTTTAAAATCAAACCTGTT-TTGATATAAGTCGAGCCTAAGTCAAGTCTAGGAATTTCAATTTT
* * * * *
10616220 TAAATCGAGCCTGTTTCGATATAGGTCTAACCTAGATCAAGTCTAGAAATTTTA
65 TAAATCGAACCTGTTTTGAGATAGGTCTAACCTAGATCAAGTTTAGAAATTTCA
* * *
10616274 ATTTTTAAATCGAACCTGTTTTGATATAAGTCGAACCTA
1 ATTTTAAAATCAAACCTGTTTTGATATAAGTCGAGCCTA
10616313 GATTAAGTCT
Statistics
Matches: 219, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
115 47 0.21
116 10 0.05
118 119 0.54
119 43 0.20
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (118 bp):
ATTTTAAAATCAAACCTGTTTTGATATAAGTCGAGCCTAAGTCAAGTCTAGGAATTTCAATTTTT
AAATCGAACCTGTTTTGAGATAGGTCTAACCTAGATCAAGTTTAGAAATTTCA
Found at i:10616312 original size:177 final size:174
Alignment explanation
Indices: 10615922--10616335 Score: 480
Period size: 177 Copynumber: 2.4 Consensus size: 174
10615912 GGCATTAGAG
* * * * *
10615922 ATTTTAAAATCAAACCTGTTTTGATATAAGTTGAGCCTA-AGTCAAGTCTAGGAGTTTCAATTTT
1 ATTTTAAAATCGAACCTGTTTTGATATAAGTTGAACCTAGA-TTAAGTCTAGAAATTTCAATTTT
* *
10615986 TAAATCTCCAGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTCAATTTAAAATCAAA
65 TAAATCACCAGTTTTCAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTCAATTTAAAATCAAA
* ** *
10616051 CTTGTTCTGATATAGGTCAAGTTTAGGTCAAGTCTAGAAAATTTA
130 CCTGTTCTGATATAGGTCAAGCCTAGATCAAGTCTAGAAAATTTA
* * * *
10616096 ATTTTGAAAATCGAACCTATTTTGAGATAGGTTGAACCTAGATTAAGTTTAGAAATTTCAATTTT
1 ATTTT-AAAATCGAACCTGTTTTGATATAAGTTGAACCTAGATTAAGTCTAGAAATTTCAATTTT
* * * *
10616161 TAAGTCGAACC-TTTCTTCAGATAGGTCGAGCCTAAGTTAA-TTCTAGGAATTTCAATTTTTAAA
65 TAAATC--ACCAGTT-TTCAGATAGGTCGAGCCTAAGTCAAGTT-TAGGAATTTCAA-TTTAAAA
* * *
10616224 TCGAGCCTGTT-TCGATATAGGTCTAA-CCTAGATCAAGTCTAGAAATTTTA
125 TCAAACCTGTTCT-GATATAGGTC-AAGCCTAGATCAAGTCTAGAAAATTTA
* *
10616274 ATTTTTAAATCGAACCTGTTTTGATATAAGTCGAACCTAGATTAAGTCTAGAAACTTT-AATT
1 ATTTTAAAATCGAACCTGTTTTGATATAAGTTGAACCTAGATTAAGTCTAGAAA-TTTCAATT
10616336 GCTTAATTTG
Statistics
Matches: 202, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
174 5 0.02
175 53 0.26
176 5 0.02
177 85 0.42
178 52 0.26
179 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (174 bp):
ATTTTAAAATCGAACCTGTTTTGATATAAGTTGAACCTAGATTAAGTCTAGAAATTTCAATTTTT
AAATCACCAGTTTTCAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTCAATTTAAAATCAAAC
CTGTTCTGATATAGGTCAAGCCTAGATCAAGTCTAGAAAATTTA
Found at i:10621409 original size:22 final size:22
Alignment explanation
Indices: 10621384--10621434 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10621374 ACAATTTTTA
* *
10621384 AGGCATTACGTGACTAGATATT
1 AGGCATTACGTGACCACATATT
* *
10621406 AGGCATTGCGTGACCCCATATT
1 AGGCATTACGTGACCACATATT
10621428 AGGCATT
1 AGGCATT
10621435 GTATGAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (22 bp):
AGGCATTACGTGACCACATATT
Found at i:10621565 original size:27 final size:27
Alignment explanation
Indices: 10621502--10621565 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
10621492 ATTATTAGGC
* * *
10621502 ATTGTGTGACCCCACATCTGGCATTGT
1 ATTGCGTGACCACACATCTAGCATTGT
* *
10621529 ATTACATGACCACACATCTAGCATTGT
1 ATTGCGTGACCACACATCTAGCATTGT
10621556 ATTGCGTGAC
1 ATTGCGTGAC
10621566 TTAGGCATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
ATTGCGTGACCACACATCTAGCATTGT
Found at i:10622805 original size:27 final size:27
Alignment explanation
Indices: 10622775--10622831 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
10622765 ATCTTTGTAG
10622775 CCTAGGGGACATAAGCTCAACAATTAA
1 CCTAGGGGACATAAGCTCAACAATTAA
10622802 CCTAGGGGACATAAGCTCAACAATTAA
1 CCTAGGGGACATAAGCTCAACAATTAA
10622829 CCT
1 CCT
10622832 TTCGCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (27 bp):
CCTAGGGGACATAAGCTCAACAATTAA
Found at i:10625968 original size:20 final size:20
Alignment explanation
Indices: 10625943--10625988 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10625933 TTTTGACCCC
10625943 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
10625963 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
10625983 ATTTGA
1 ATTTGA
10625989 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:10626064 original size:28 final size:27
Alignment explanation
Indices: 10626033--10626085 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10626023 TTTGGAGTAT
*
10626033 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
10626061 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
10626086 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:10626091 original size:28 final size:28
Alignment explanation
Indices: 10626033--10626091 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10626023 TTTGGAGTAT
* *
10626033 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
10626061 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
10626089 AGG
1 AGG
10626092 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:10682128 original size:21 final size:19
Alignment explanation
Indices: 10682103--10682144 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
10682093 AATGTGATAT
*
10682103 TCGACCTAAATCACACTATAA
1 TCGACCT-AATCA-ACTAAAA
10682124 TCGACCTAATCAACTAAAA
1 TCGACCTAATCAACTAAAA
10682143 TC
1 TC
10682145 TCCAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 7 0.35
ACGTcount: A:0.43, C:0.29, G:0.05, T:0.24
Consensus pattern (19 bp):
TCGACCTAATCAACTAAAA
Found at i:10692590 original size:11 final size:11
Alignment explanation
Indices: 10692574--10692605 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
10692564 CAAACACGAC
10692574 AAACACGTTTA
1 AAACACGTTTA
10692585 AAACACGTTT-
1 AAACACGTTTA
10692595 AAACACGTTTA
1 AAACACGTTTA
10692606 CTTAATCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (11 bp):
AAACACGTTTA
Found at i:10692854 original size:25 final size:24
Alignment explanation
Indices: 10692825--10692888 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
10692815 TTAATGATGT
10692825 ATTTTATCATA-TTATATGATAATAA
1 ATTTTAT-ATATTTAT-TGATAATAA
* *
10692850 ATTTTATATATGTTATTTATATTAA
1 ATTTTATATAT-TTATTGATAATAA
10692875 ATTTTATTATATTT
1 ATTTTA-TATATTT
10692889 GCAGTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.09
25 22 0.65
26 9 0.26
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (24 bp):
ATTTTATATATTTATTGATAATAA
Found at i:10693010 original size:18 final size:18
Alignment explanation
Indices: 10692983--10693021 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10692973 AATATTTTAT
*
10692983 TTAATCATGTTAAATGTG
1 TTAATCATGTTAAACGTG
*
10693001 TTAATTATGTTAAACGTG
1 TTAATCATGTTAAACGTG
10693019 TTA
1 TTA
10693022 TTAATCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (18 bp):
TTAATCATGTTAAACGTG
Found at i:10697205 original size:13 final size:13
Alignment explanation
Indices: 10697176--10697210 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10697166 GAACAAAAAG
*
10697176 GAAAGGAAAGGGA
1 GAAAAGAAAGGGA
10697189 -AAAAGAAAGGGA
1 GAAAAGAAAGGGA
10697201 GAAAAGAAAG
1 GAAAAGAAAG
10697211 AAAAGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGGGA
Found at i:10697311 original size:7 final size:7
Alignment explanation
Indices: 10697299--10697329 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10697289 AAGATGAGAG
10697299 AGAAGAA
1 AGAAGAA
10697306 AGAAGAA
1 AGAAGAA
*
10697313 ATAAGAA
1 AGAAGAA
10697320 AGAAGAA
1 AGAAGAA
10697327 AGA
1 AGA
10697330 GAGAGGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (7 bp):
AGAAGAA
Found at i:10697454 original size:61 final size:60
Alignment explanation
Indices: 10697308--10697454 Score: 138
Period size: 61 Copynumber: 2.4 Consensus size: 60
10697298 GAGAAGAAAG
* * * *
10697308 AAGAAATAAGAAAGAAGAAAGAGAGAGGGGGAGCGGCATGCCAGAGGAGAAGAAAAAGAGAG
1 AAGAAACAAGAAAGAAGAAA-A-AGAGGGGGAGCGACATGCCAGAAGAGAAGAAAAAGAGAC
* * **
10697370 AAG-AACAAG-AAGAAGGAAGAAAGAGGGGGAGCGACGGTGCCGGAAGAGAA-AGAGGAGAGAC
1 AAGAAACAAGAAAGAA-GAA-AAAGAGGGGGAGCGAC-ATGCCAGAAGAGAAGA-AAAAGAGAC
*
10697431 AAGAAAGAAGAAAGAAGAAAAAGA
1 AAGAAACAAGAAAGAAGAAAAAGA
10697455 AGTAGAAGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
60 19 0.27
61 34 0.49
62 12 0.17
63 5 0.07
ACGTcount: A:0.53, C:0.07, G:0.38, T:0.02
Consensus pattern (60 bp):
AAGAAACAAGAAAGAAGAAAAAGAGGGGGAGCGACATGCCAGAAGAGAAGAAAAAGAGAC
Found at i:10698277 original size:60 final size:60
Alignment explanation
Indices: 10698191--10698365 Score: 253
Period size: 60 Copynumber: 2.9 Consensus size: 60
10698181 ATTGTAAATG
* * ** **
10698191 GGGACTTGAAGCCCCGATTCATATTGGGTGGCGTGCACAGTTCCCACGAGTAGGTAAAGA
1 GGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCATAAGTAGGTAAAGA
* *
10698251 GGGACCTGAAGCCCCAATTTATATTGGGTGGCGTGGGCAGTTCCCATAAGTAGGTAAAGG
1 GGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCATAAGTAGGTAAAGA
*
10698311 GGGACCTGAAGCCCCGATTTATATAT-GATGGCGTGGGCAGTTCCCATAAGTAGGT
1 GGGACCTGAAGCCCCGATTTATAT-TGGGTGGCGTGGGCAGTTCCCATAAGTAGGT
10698366 GATGATGTCT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
60 103 0.99
61 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (60 bp):
GGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCATAAGTAGGTAAAGA
Found at i:10710450 original size:13 final size:13
Alignment explanation
Indices: 10710421--10710455 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10710411 GAACAAAAAG
*
10710421 GAAAGGAAAGGGA
1 GAAAAGAAAGGGA
10710434 -AAAAGAAAGGGA
1 GAAAAGAAAGGGA
10710446 GAAAAGAAAG
1 GAAAAGAAAG
10710456 AAAAGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGGGA
Found at i:10711512 original size:60 final size:59
Alignment explanation
Indices: 10711406--10711587 Score: 247
Period size: 60 Copynumber: 3.0 Consensus size: 59
10711396 ATATTTAATT
* * * * * *
10711406 GTAAAGGGGGACCTGAAGCCCCGATTCATATTCGATGGCATAGGCAGTTCCCACAAGTAG
1 GTAAAGGGGGACTTGAAGCCCCGATTTATATT-GGTGGCGTGGGCAGTTCCCACGAGTAG
*
10711466 GTAAAGGGGGACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCATGAGTAG
1 GTAAAGGGGGACTTGAAGCCCCGATTTATATT-GGTGGCGTGGGCAGTTCCCACGAGTAG
* * *
10711526 GTAAAGGAGGACTTGAAGCCCTGATTTATATATGGTGGCGTGAGCAGTTCCCACGAGTAG
1 GTAAAGGGGGACTTGAAGCCCCGATTTATAT-TGGTGGCGTGGGCAGTTCCCACGAGTAG
10711586 GT
1 GT
10711588 GATGATGTAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
60 108 0.99
61 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (59 bp):
GTAAAGGGGGACTTGAAGCCCCGATTTATATTGGTGGCGTGGGCAGTTCCCACGAGTAG
Found at i:10712464 original size:2 final size:2
Alignment explanation
Indices: 10712457--10712545 Score: 133
Period size: 2 Copynumber: 42.5 Consensus size: 2
10712447 TCTGAATATT
10712457 TC TC TC TC TC TC TC TNC TC TC TAC TC TAC TC TC TC TAC TC TC TC
1 TC TC TC TC TC TC TC T-C TC TC T-C TC T-C TC TC TC T-C TC TC TC
*
10712501 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10712543 TC T
1 TC T
10712546 TAACTCAATT
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
2 73 0.90
3 8 0.10
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:10717251 original size:21 final size:21
Alignment explanation
Indices: 10717221--10717297 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
10717211 TTGAATGGAG
* *
10717221 GCATTAGTCTCTGTTATAAAT
1 GCATCAGTCTTTGTTATAAAT
*
10717242 GCATCGGTCTTTGTTATAAAT
1 GCATCAGTCTTTGTTATAAAT
* *
10717263 GCATCAGTCTTTGTCATGAAT
1 GCATCAGTCTTTGTTATAAAT
* *
10717284 GCATTAATCTTTGT
1 GCATCAGTCTTTGT
10717298 CATGAATTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (21 bp):
GCATCAGTCTTTGTTATAAAT
Found at i:10717298 original size:21 final size:21
Alignment explanation
Indices: 10717239--10717309 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
10717229 CTCTGTTATA
** * *
10717239 AATGCATCGGTCTTTGTTATA
1 AATGCATCAATCTTTGTCATG
*
10717260 AATGCATCAGTCTTTGTCATG
1 AATGCATCAATCTTTGTCATG
*
10717281 AATGCATTAATCTTTGTCATG
1 AATGCATCAATCTTTGTCATG
10717302 AATTGCAT
1 AA-TGCAT
10717310 AAGCATATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 39 0.89
22 5 0.11
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (21 bp):
AATGCATCAATCTTTGTCATG
Found at i:10722130 original size:25 final size:25
Alignment explanation
Indices: 10722075--10722130 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
10722065 GCGTTATTCT
10722075 ATTCAAGGTTTACCTAAATCTCTTTC
1 ATTCAAGGTTTACCTAAA-CTCTTTC
10722101 A-TCAAGGTTTAACCTAAA-T-TTTC
1 ATTCAAGGTTT-ACCTAAACTCTTTC
10722124 AATTCAA
1 -ATTCAA
10722131 TCTAATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 4 0.15
24 2 0.07
25 13 0.48
26 8 0.30
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (25 bp):
ATTCAAGGTTTACCTAAACTCTTTC
Found at i:10723029 original size:22 final size:23
Alignment explanation
Indices: 10723002--10723053 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10722992 ATTTTTATGT
*
10723002 ATTACTACTAGAACTAAGCT-AA
1 ATTACTACTAAAACTAAGCTCAA
* *
10723024 ATTACTATTAAAATTAAGCTCAA
1 ATTACTACTAAAACTAAGCTCAA
*
10723047 ATAACTA
1 ATTACTA
10723054 TATATCATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTACTACTAAAACTAAGCTCAA
Found at i:10725475 original size:20 final size:20
Alignment explanation
Indices: 10725450--10725495 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10725440 TTTTGGCCCC
10725450 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
10725470 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
10725490 ATTTGA
1 ATTTGA
10725496 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10725571 original size:27 final size:27
Alignment explanation
Indices: 10725541--10725598 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
10725531 TTGGAGTAAA
* *
10725541 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATCGTAATTTT-CCACCACC
10725568 AGGGGCAAAATCGTAATTTTCCACCACC
1 A-GGGCAAAATCGTAATTTTCCACCACC
10725596 AGG
1 AGG
10725599 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (27 bp):
AGGGCAAAATCGTAATTTTCCACCACC
Found at i:10739858 original size:2 final size:2
Alignment explanation
Indices: 10739843--10739893 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
10739833 ACAACTTTTA
* *
10739843 AT AT AT GT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10739885 AT AT AT AT A
1 AT AT AT AT A
10739894 GTACAACACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10740153 original size:2 final size:2
Alignment explanation
Indices: 10740146--10740193 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10740136 NNNNNNNNNN
10740146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10740188 AT AT AT
1 AT AT AT
10740194 GGTCAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10741254 original size:18 final size:19
Alignment explanation
Indices: 10741231--10741270 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10741221 AATATGACTT
* *
10741231 AAAATATTAAACA-AAATA
1 AAAATATAAAAAATAAATA
10741249 AAAATATAAAAAATAAATA
1 AAAATATAAAAAATAAATA
10741268 AAA
1 AAA
10741271 CATTGAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATATAAAAAATAAATA
Found at i:10743098 original size:22 final size:22
Alignment explanation
Indices: 10743070--10743111 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10743060 ATTTGATTAG
*
10743070 ACTGATTTTTAAGTATTGCGAA
1 ACTGATTTTTAAGCATTGCGAA
10743092 ACTGATTTTTAAGCATTGCG
1 ACTGATTTTTAAGCATTGCG
10743112 TGACTTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (22 bp):
ACTGATTTTTAAGCATTGCGAA
Found at i:10743166 original size:21 final size:22
Alignment explanation
Indices: 10743124--10743209 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 22
10743114 ACTTAATCAC
10743124 TACGTGACTGGTTTTTAAGCAT
1 TACGTGACTGGTTTTTAAGCAT
* *
10743146 TACGTGATTGG-TTTTAGGCAT
1 TACGTGACTGGTTTTTAAGCAT
* * *
10743167 TATGTGACTGATTTTGAAGCAT
1 TACGTGACTGGTTTTTAAGCAT
* *
10743189 TGCGTGACTGATTTTTAAGCA
1 TACGTGACTGGTTTTTAAGCA
10743210 ATGTTTAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 17 0.32
22 36 0.68
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (22 bp):
TACGTGACTGGTTTTTAAGCAT
Found at i:10743247 original size:23 final size:23
Alignment explanation
Indices: 10743216--10743299 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
10743206 AGCAATGTTT
*
10743216 AAGTTACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
10743239 AAGTCACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
10743262 AAGTCATGCAATGCCATA-TCAAC
1 AAGTCACGCAATGCCTTACT-AAC
* *
10743285 CAGTCACGTAATGCC
1 AAGTCACGCAATGCC
10743300 CAAAGTCAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.02
23 53 0.98
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.23
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:10743340 original size:21 final size:21
Alignment explanation
Indices: 10743285--10743341 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
10743275 CCATATCAAC
*
10743285 CAGTCACGTAATGCCCAAAGT
1 CAGTCACGTAATGTCCAAAGT
*
10743306 CAGTCATGTAATGTCCAAAGT
1 CAGTCACGTAATGTCCAAAGT
10743327 CAGTCACGTAATGTC
1 CAGTCACGTAATGTC
10743342 TAAAAACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
CAGTCACGTAATGTCCAAAGT
Found at i:10743356 original size:22 final size:23
Alignment explanation
Indices: 10743328--10743371 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10743318 GTCCAAAGTC
* *
10743328 AGTCACGTAATGTCTA-AAAACT
1 AGTCACGCAATATCTATAAAACT
10743350 AGTCACGCAATATCTATAAAAC
1 AGTCACGCAATATCTATAAAAC
10743372 CACTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (23 bp):
AGTCACGCAATATCTATAAAACT
Found at i:10750883 original size:20 final size:20
Alignment explanation
Indices: 10750855--10750894 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10750845 GTGCTTGCAA
*
10750855 GCAACTTGACTTGCCTACAT
1 GCAAATTGACTTGCCTACAT
*
10750875 GCAAATTGACTTGCTTACAT
1 GCAAATTGACTTGCCTACAT
10750895 TCCCCTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (20 bp):
GCAAATTGACTTGCCTACAT
Found at i:10754568 original size:16 final size:15
Alignment explanation
Indices: 10754535--10754579 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
10754525 TTTGCAAAAA
10754535 AATAAAAAGCAAAATG
1 AATAAAAAG-AAAATG
10754551 AA-AAAAATGAAAACTG
1 AATAAAAA-GAAAA-TG
10754567 AATAAAAAGAAAA
1 AATAAAAAGAAAA
10754580 AGGAAGTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.73, C:0.04, G:0.11, T:0.11
Consensus pattern (15 bp):
AATAAAAAGAAAATG
Found at i:10759377 original size:22 final size:19
Alignment explanation
Indices: 10759332--10759368 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10759322 TTTGTGTGTC
10759332 AGATATCTTCCTTCTTCTA
1 AGATATCTTCCTTCTTCTA
* *
10759351 GGATATCTTCCTTGTTCT
1 AGATATCTTCCTTCTTCT
10759369 TTTAAGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.49
Consensus pattern (19 bp):
AGATATCTTCCTTCTTCTA
Found at i:10777851 original size:21 final size:21
Alignment explanation
Indices: 10777827--10777880 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
10777817 ATTTCGAGTA
*
10777827 AATGTATCAATATTTTCAA-GC
1 AATGTATCAATATATT-AAGGC
**
10777848 AATGTATGGATATATTAAGGC
1 AATGTATCAATATATTAAGGC
*
10777869 AATATATCAATA
1 AATGTATCAATA
10777881 CATTTCAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (21 bp):
AATGTATCAATATATTAAGGC
Found at i:10782933 original size:19 final size:20
Alignment explanation
Indices: 10782906--10782951 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10782896 AGGAGACAAG
*
10782906 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
10782925 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
10782944 ATAATATT
1 ATAATATT
10782952 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:10783399 original size:20 final size:20
Alignment explanation
Indices: 10783354--10783391 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10783344 TTTTGGCCCC
10783354 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
10783374 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
10783392 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Done.