Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 3 of 170
Found at i:735227 original size:137 final size:138
Alignment explanation
Indices: 734960--735236 Score: 515
Period size: 137 Copynumber: 2.0 Consensus size: 138
734950 TAACTTATTT
734960 ATGTCCCAATGTTATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAAATAAAATTTTT
1 ATGTCCCAATGTTATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAAATAAAATTTTT
735025 AGAGTTTTATTAAATATTTAGAATTTTTGAAAATTATTTTAATTTTTTTTGTAATTTTTGTTGAG
66 AGAGTTTTATTAAATATTTAGAATTTTTGAAAATTATTTTAATTTTTTTTGTAATTTTTGTTGAG
735090 AGAGACAA
131 AGAGACAA
735098 ATGTCCCAATGTTATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAAA-ATAAA-TTT
1 ATGTCCCAATGTTATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAAATA-AAATTTT
735161 TAGAGTTTT-TATAAATATTTAGAATTTTTGAAAATTATTTTAATTTTTTTTGTAATTTTTGTTG
65 TAGAGTTTTAT-TAAATATTTAGAATTTTTGAAAATTATTTTAATTTTTTTTGTAATTTTTGTTG
735225 AGAGAGACAA
129 AGAGAGACAA
735235 AT
1 AT
735237 TTGCTTGTTT
Statistics
Matches: 137, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
136 1 0.01
137 78 0.57
138 58 0.42
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (138 bp):
ATGTCCCAATGTTATTATTTTAGAATTTTTTTTATAATTTTTATAATTTTAAAAATAAAATTTTT
AGAGTTTTATTAAATATTTAGAATTTTTGAAAATTATTTTAATTTTTTTTGTAATTTTTGTTGAG
AGAGACAA
Found at i:742819 original size:27 final size:27
Alignment explanation
Indices: 742775--742885 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
742765 TATTTCGGAA
*
742775 ACCAACAGAGGTACGTCGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * * *
742802 ATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * *
742829 ACCAACAGAGGTACGTCGATCCGAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* *
742856 ACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
742883 ACC
1 ACC
742886 GTGATTTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (27 bp):
ACCAACAAAGGTACGTCGATACAAGGG
Found at i:742837 original size:54 final size:54
Alignment explanation
Indices: 742775--742885 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
742765 TATTTCGGAA
* *
742775 ACCAACAGAGGTACGTCGATACAAGGGATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
* * * *
742829 ACCAACAGAGGTACGTCGATCCGAGGGACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
742883 ACC
1 ACC
742886 GTGATTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (54 bp):
ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
Found at i:745432 original size:19 final size:19
Alignment explanation
Indices: 745374--745432 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 19
745364 ACATTGACAG
745374 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
* *
745393 GAAGAGATAG-AGAAT-GT-AT
1 ---GAGTTAGCAGTATAGTAAT
745412 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
745431 GA
1 GA
745433 AGAGATAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 2 0.07
19 6 0.20
20 2 0.07
21 4 0.13
22 6 0.20
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.27
Consensus pattern (19 bp):
GAGTTAGCAGTATAGTAAT
Found at i:752695 original size:4 final size:4
Alignment explanation
Indices: 752686--752719 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
752676 AGGTAACTTT
752686 CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
752720 GAAGCCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:758622 original size:28 final size:28
Alignment explanation
Indices: 758582--758677 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 28
758572 TTAAAAACTC
*
758582 TTAAAAACGATATATATAAATTTATTAAA
1 TTAAAAA-TATATATATAAATTTATTAAA
*
758611 TTAAAAATATATA-AAAATATTAAATATTAAA
1 TTAAAAATATATATATAA-ATT---TATTAAA
* * **
758642 TTAAAAATATAAATATAAATATATTATT
1 TTAAAAATATATATATAAATTTATTAAA
758670 TTAAAAAT
1 TTAAAAAT
758678 TTTAAAACAA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.05
28 21 0.38
29 7 0.13
31 21 0.38
32 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
TTAAAAATATATATATAAATTTATTAAA
Found at i:758642 original size:24 final size:24
Alignment explanation
Indices: 758593--758665 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
758583 TAAAAACGAT
** *
758593 ATATATAAATTTATTAAAT-TAAAA
1 ATATATAAAAATATTAAATAT-TAA
758617 ATATATAAAAATATTAAATATT-A
1 ATATATAAAAATATTAAATATTAA
758640 A-AT-TAAAAATA-TAAATA-TAA
1 ATATATAAAAATATTAAATATTAA
758660 ATATAT
1 ATATAT
758666 TATTTTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 10 0.24
22 3 0.07
23 2 0.05
24 17 0.40
25 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATAAAAATATTAAATATTAA
Found at i:758649 original size:14 final size:14
Alignment explanation
Indices: 758604--758683 Score: 63
Period size: 14 Copynumber: 5.5 Consensus size: 14
758594 TATATAAATT
758604 TATTAAATTAAAAA
1 TATTAAATTAAAAA
* *
758618 TATATAAAAATATTAAA
1 TAT-T-AAATTA-AAAA
758635 TATTAAATTAAAAA
1 TATTAAATTAAAAA
*
758649 TA-TAAATATAAATA
1 TATTAAAT-TAAAAA
**
758663 TATTATTTTAAAAA
1 TATTAAATTAAAAA
*
758677 TTTTAAA
1 TATTAAA
758684 ACAATGTGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 5 0.10
14 24 0.48
15 9 0.18
16 6 0.12
17 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATTAAATTAAAAA
Found at i:758665 original size:8 final size:8
Alignment explanation
Indices: 758593--758658 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
758583 TAAAAACGAT
758593 ATATATAA
1 ATATATAA
*
758601 ATTTATTAA
1 ATATA-TAA
*
758610 AT-TAAAA
1 ATATATAA
758617 ATATATAA
1 ATATATAA
*
758625 AAATATTAA
1 ATATA-TAA
758634 ATAT-TAA
1 ATATATAA
758641 AT-TA-AA
1 ATATATAA
758647 A-ATATAA
1 ATATATAA
758654 ATATA
1 ATATA
758659 AATATATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 6 0.13
7 12 0.26
8 17 0.37
9 11 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:760107 original size:21 final size:21
Alignment explanation
Indices: 760075--760125 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
760065 TTTCACTTTC
*
760075 TTTTTTTT-AATTT-TTTATT
1 TTTTTTTTAAATTTGCTTATT
*
760094 TTTGTTTTTAAATTTGCTTCTT
1 TTT-TTTTTAAATTTGCTTATT
760116 TTTTTTTTAA
1 TTTTTTTTAA
760126 GTTTAGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 5 0.19
21 12 0.44
22 7 0.26
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTTTTAAATTTGCTTATT
Found at i:762550 original size:37 final size:37
Alignment explanation
Indices: 762508--762585 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
762498 TCTATTAGAT
762508 CAAAGAGCAAATTAAATTTCATCCATTTTTATCGTAA
1 CAAAGAGCAAATTAAATTTCATCCATTTTTATCGTAA
762545 CAAAGAGCAAATTAAATTTCATCCATTTTTATCGTAA
1 CAAAGAGCAAATTAAATTTCATCCATTTTTATCGTAA
762582 CAAA
1 CAAA
762586 TTAGCGTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (37 bp):
CAAAGAGCAAATTAAATTTCATCCATTTTTATCGTAA
Found at i:767614 original size:24 final size:25
Alignment explanation
Indices: 767577--767623 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
767567 TACTTCAATT
*
767577 CTAAAATCTGAAAA-AATGAAAGCG
1 CTAAAATCTGAAAATAATAAAAGCG
767601 CTAAAATTCT-AAAATAATAAAAG
1 CTAAAA-TCTGAAAATAATAAAAG
767624 TATAGGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (25 bp):
CTAAAATCTGAAAATAATAAAAGCG
Found at i:769007 original size:164 final size:163
Alignment explanation
Indices: 768684--769015 Score: 427
Period size: 165 Copynumber: 2.0 Consensus size: 163
768674 TTTTGTTATA
* * * *
768684 ATTAAAAATTGGGATTATTTTATTATTATTTTAATAATCTCGTTATAGGTTTGGATCATATCTGT
1 ATTAAAAATTGAGATTAATTTATTATTATTTTAACAATCTCATTATAGGTTTGGATCATATCTGT
* * * * **
768749 TTTTTTTGACACGATGTTTAAAACTACTTATAATCCCTTCTCAACTCATAAATAGGTTGATAATG
66 TTTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGATAATG
* * *
768814 CGTTTTAACGCACTCGAATCTACGTCCACTTGC
131 CATTTCAACGCACTCGAATCTACGTCCACTTAC
* *
768847 ATTAAAATTTGAGATTAATTTATTATTATTATTTAACAATCTCATTATAGGTTCT-GATTATATC
1 ATTAAAAATTGAGATTAATTTATTATTA-T-TTTAACAATCTCATTATAGGTT-TGGATCATATC
* *
768911 TGTATTTTTTT-ACATAATATCTAAAACTACCTATAATCCCTTC-CAACTCATAAGTAGGAGGAT
63 TGT-TTTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGAT
** *
768974 AATGCATTTCAGTGCACTCGAATTTACGTCCACTTAC
127 AATGCATTTCAACGCACTCGAATCTACGTCCACTTAC
769011 ATTAA
1 ATTAA
769016 CAATAATGTT
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
163 25 0.17
164 54 0.37
165 58 0.40
166 8 0.06
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (163 bp):
ATTAAAAATTGAGATTAATTTATTATTATTTTAACAATCTCATTATAGGTTTGGATCATATCTGT
TTTTTTTGACACAATATCTAAAACTACCTATAATCCCTTCTCAACTCATAAATAGGAGGATAATG
CATTTCAACGCACTCGAATCTACGTCCACTTAC
Found at i:778705 original size:16 final size:16
Alignment explanation
Indices: 778684--778717 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
778674 CCCAAAAATG
*
778684 ATCTAAACCCGAATTA
1 ATCTAAACCCAAATTA
778700 ATCTAAACCCAAATTA
1 ATCTAAACCCAAATTA
778716 AT
1 AT
778718 TCGATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (16 bp):
ATCTAAACCCAAATTA
Found at i:781035 original size:23 final size:22
Alignment explanation
Indices: 781008--781064 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
780998 TGTTGGTAGG
781008 TTTATATTTAT-ATTATTTATTAT
1 TTTATATTTATAATT-TTT-TTAT
781031 TTTATATTTAATAATTTTTTTAT
1 TTTATATTT-ATAATTTTTTTAT
*
781054 TTTTTATTTAT
1 TTTATATTTAT
781065 TAAAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 2 0.06
23 21 0.68
24 5 0.16
25 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATATTTATAATTTTTTTAT
Found at i:786150 original size:4 final size:4
Alignment explanation
Indices: 786141--786186 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
786131 AATCTTTAGG
786141 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
786187 GATAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:788584 original size:107 final size:105
Alignment explanation
Indices: 788329--788600 Score: 365
Period size: 101 Copynumber: 2.6 Consensus size: 105
788319 TACAATTTAA
** * * *
788329 AAAAAAAGGGAAAAAATTT-TAATTGTACTGGGTGCCGGCCATTGATAGGTCAGCACCCAAAAAA
1 AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
*
788393 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAC
66 TTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGAC
*** * * * *
788433 ---GCGAGAAGAAAAA-TTAAAATTGTACTGGGTGCTGGCCATTGACAGGCCAACACCCAAAAAT
1 AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
*
788494 TTTTTTTTATTTTTTTTGTATACTGATATCTGACTCTGATAC
66 TTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTG--AC
788536 AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
1 AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
788601 AATTCGTTTT
Statistics
Matches: 140, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
100 2 0.01
101 82 0.59
103 2 0.01
106 9 0.06
107 45 0.32
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (105 bp):
AAAAAAAGAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
TTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGAC
Found at i:796193 original size:19 final size:19
Alignment explanation
Indices: 796169--796208 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
796159 TAAAATTTAT
*
796169 ATTAATATTAT-ATTTAAAA
1 ATTAATAGTATCA-TTAAAA
796188 ATTAATAGTATCATTAAAA
1 ATTAATAGTATCATTAAAA
796207 AT
1 AT
796209 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTAATAGTATCATTAAAA
Found at i:805698 original size:16 final size:15
Alignment explanation
Indices: 805677--805712 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
805667 TCTTTAGGTT
805677 AAAAAATGTAAAAAAA
1 AAAAAAT-TAAAAAAA
805693 AAAAAATTAAAAAAA
1 AAAAAATTAAAAAAA
805708 AAAAA
1 AAAAA
805713 CTTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAATTAAAAAAA
Found at i:806077 original size:9 final size:9
Alignment explanation
Indices: 806055--806084 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
806045 CAATAATGTC
806055 AAAAAATAA
1 AAAAAATAA
806064 TAAAAAATAA
1 -AAAAAATAA
806074 AAAAAATAA
1 AAAAAATAA
806083 AA
1 AA
806085 CTTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:809118 original size:10 final size:10
Alignment explanation
Indices: 809103--809133 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
809093 TGTGAACCAT
*
809103 GTGGGGATGG
1 GTGGGGAGGG
809113 GTGGGGAGGG
1 GTGGGGAGGG
809123 GTGGGGAGGG
1 GTGGGGAGGG
809133 G
1 G
809134 GGTTGCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.77, T:0.13
Consensus pattern (10 bp):
GTGGGGAGGG
Found at i:809354 original size:23 final size:23
Alignment explanation
Indices: 809304--809355 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
809294 TAATTATATT
* *
809304 TTTTTTTATGAATTAAAATGTAA
1 TTTTATTATGAATTAAAATATAA
* * *
809327 GTTTATTATGTATTAATATATAA
1 TTTTATTATGAATTAAAATATAA
809350 TTTTAT
1 TTTTAT
809356 CTTTCTTGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTATTATGAATTAAAATATAA
Found at i:813617 original size:59 final size:60
Alignment explanation
Indices: 813554--813666 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
813544 ATCACCCAAT
* *
813554 TATTAGT-GATTTTTTTTTTGGTCA-TCAAACTATAAAAAGTTACAAAATAATCATCTAAC
1 TATTAGTAAATTTCTTTTTTGGTCACT-AAACTATAAAAAGTTACAAAATAATCATCTAAC
* * *
813613 TATTAGTAAATTTCTTTTTTGGTCACTTAATTATGAAAAGTTACAAAATAATCA
1 TATTAGTAAATTTCTTTTTTGGTCACTAAACTATAAAAAGTTACAAAATAATCA
813667 CTCACCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 7 0.15
60 39 0.83
61 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (60 bp):
TATTAGTAAATTTCTTTTTTGGTCACTAAACTATAAAAAGTTACAAAATAATCATCTAAC
Found at i:814723 original size:3 final size:3
Alignment explanation
Indices: 814715--814747 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
814705 TTTGAAACCT
814715 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
814748 TTAAATTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:840215 original size:20 final size:21
Alignment explanation
Indices: 840176--840215 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
840166 CAAGGTGCGA
*
840176 TACAGATACATTTGATTCTTT
1 TACAGATACATTTGAATCTTT
*
840197 TACAGATATA-TTGAATCTT
1 TACAGATACATTTGAATCTT
840216 ATCTATCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
TACAGATACATTTGAATCTTT
Found at i:843668 original size:113 final size:113
Alignment explanation
Indices: 843469--843681 Score: 311
Period size: 113 Copynumber: 1.9 Consensus size: 113
843459 GGCCCCCCCA
* * * * *
843469 AAAATGGAAAATTTCCTTATAGTCCCTTTAAAATTTTGTAATATTCTAAACAAGGACAATAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCTTTAAAA-TTTATAAGATTCTAAACAAGAACAACAGTAA
*
843534 AATTACATTGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
65 AATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
* * * *
843583 AAAATGGGAACTTTCCTTACAGTCCCTCTTGAAA-TTATAAGATTTTAAACAAGAACAACAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCT-TTAAAATTTATAAGATTCTAAACAAGAACAACAGTAA
843647 AATTACAATGAACCACACATTTACACATAGTAAGA
65 AATTACAATGAACCACACATTTACACATAGTAAGA
843682 TTTCCTTGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 59 0.67
114 24 0.27
115 5 0.06
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (113 bp):
AAAATGGAAAATTTCCTTACAGTCCCTTTAAAATTTATAAGATTCTAAACAAGAACAACAGTAAA
ATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
Found at i:850264 original size:6 final size:6
Alignment explanation
Indices: 850253--850298 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
850243 TTTTACCACG
* *
850253 TATACA TATACA TATACA CATACA CATACA TATGA-A TATACA TATA
1 TATACA TATACA TATACA TATACA TATACA TAT-ACA TATACA TATA
850299 GTGAAACCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 34 0.94
7 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (6 bp):
TATACA
Found at i:866526 original size:72 final size:74
Alignment explanation
Indices: 866357--866527 Score: 256
Period size: 76 Copynumber: 2.3 Consensus size: 74
866347 AAATTTTGGA
* * *
866357 TTTCTTCGAGGCTTCGTCTTTCTTGAGATATTTGTGTTCGATTTTCAATTCATTCTTGGGATTCT
1 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCA-TC-TGAGATTCT
866422 TTAACCTCGGC
64 TTAACCTCGGC
*
866433 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAGTTC-TC-GAGATTCTTT
1 TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTT
866496 AACCTCGGC
66 AACCTCGGC
* *
866505 TTTCTTCAAGGCCTCGTCCTTCT
1 TTTCTTCGAGGCTTCGTCCTTCT
866528 CGAGTTTGTC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 39 0.44
74 2 0.02
76 48 0.54
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (74 bp):
TTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTT
AACCTCGGC
Found at i:866549 original size:72 final size:72
Alignment explanation
Indices: 866416--866550 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
866406 TCATTCTTGG
* * * ** * *
866416 GATTCTTTAACCTCGGCTTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAG
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
866481 TTCTCGA
66 TTCTCGA
* **
866488 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGTTTGTCCTCTTCCATTTTC
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTC
866551 CTCTGTTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (72 bp):
GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
TTCTCGA
Found at i:870809 original size:53 final size:53
Alignment explanation
Indices: 870729--870880 Score: 232
Period size: 53 Copynumber: 2.9 Consensus size: 53
870719 AAGGATCGGA
* * *
870729 TTTTGGAGGACGTATTCCGCGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
* * * *
870782 TTTTGGAGGATGAATTTCGTGTCTCGAATGTGAGCGTTGAGCCAACGACCGGC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
*
870835 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCAAGCCAAT
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAAT
870881 CGGTTAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (53 bp):
TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
Found at i:875446 original size:4 final size:4
Alignment explanation
Indices: 875437--875463 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
875427 AACCAAAGAA
875437 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
875464 GCGTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:875520 original size:12 final size:12
Alignment explanation
Indices: 875503--875527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
875493 CAGAAGCTAT
875503 TAACAAAATTTA
1 TAACAAAATTTA
875515 TAACAAAATTTA
1 TAACAAAATTTA
875527 T
1 T
875528 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAACAAAATTTA
Found at i:875643 original size:24 final size:24
Alignment explanation
Indices: 875611--875660 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
875601 ACCAGTGAAC
875611 CATAGACGAAATAAATACATAAAG
1 CATAGACGAAATAAATACATAAAG
875635 CATAGACGAAATAAATACATAAAG
1 CATAGACGAAATAAATACATAAAG
875659 CA
1 CA
875661 ACGGAGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (24 bp):
CATAGACGAAATAAATACATAAAG
Found at i:877414 original size:29 final size:29
Alignment explanation
Indices: 877357--877414 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
877347 TATCAAACTG
* *
877357 GACCAAAACATAACACAAGTAGCAGATTA
1 GACCAAAACATAACACAAATACCAGATTA
*
877386 GACCAAAA-ACTAACACAAATACCATATTA
1 GACCAAAACA-TAACACAAATACCAGATTA
877415 AAAAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.53, C:0.22, G:0.09, T:0.16
Consensus pattern (29 bp):
GACCAAAACATAACACAAATACCAGATTA
Found at i:880347 original size:39 final size:38
Alignment explanation
Indices: 880315--881003 Score: 755
Period size: 39 Copynumber: 18.1 Consensus size: 38
880305 CTTCTCACTT
* * * **
880315 TCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
880354 TCTTCTCGTTCAC--G-TGCC-TC--CTTC-TCT-TTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
880384 TCTTCTCGTTCACGAGCTTCCTTCAA-------T-TTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
* *
880414 TCTTCTCGCTCACGAGCTTCCTTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
880453 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * *
880492 TCTTCTTGTTCACGAGCTTCTTTCAACTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
880531 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCAATC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
** * *
880570 TCTTCTCGTTCACGAATTTCCTTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
880609 TCTTCTCGTTCACAAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
880648 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
880687 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
880726 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * * *
880765 TCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
880804 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCT-TC
* * * *
880843 TCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
880882 TCTTCTCGTTCATGAGCTTCCTTCAATTTTTTCTCCTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCT-CTTC
* * * **
880921 TCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTC-CTTCTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-T-TC
*
880960 TCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
880999 TCTTC
1 TCTTC
881004 CTGCTGAACA
Statistics
Matches: 566, Mismatches: 63, Indels: 42
0.84 0.09 0.06
Matches are distributed among these distances:
30 45 0.08
32 4 0.01
33 6 0.01
34 2 0.00
35 2 0.00
36 2 0.00
37 3 0.01
38 2 0.00
39 495 0.87
40 5 0.01
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (38 bp):
TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
Found at i:880380 original size:30 final size:30
Alignment explanation
Indices: 880344--880437 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
880334 CCTTCTCTTT
* *
880344 CTTCTCTTTCTCTTCTCGTTCACGTGCCTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
880374 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
** *
880404 CTTCAATTTCTCTTCTCGCTCACGAGCTTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
880434 CTTC
1 CTTC
880438 AATCTCTTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.07, C:0.38, G:0.10, T:0.45
Consensus pattern (30 bp):
CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
Found at i:880438 original size:30 final size:30
Alignment explanation
Indices: 880350--880448 Score: 139
Period size: 30 Copynumber: 3.4 Consensus size: 30
880340 CTTTCTTCTC
* * **
880350 TTTCTCTTCTCGTTCACGTGCCTCCTTCTC
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
880380 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
*
880410 TTTCTCTTCTCGCTCACGAGCTTCCTTCAA
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
880440 --TCTCTTCTC
1 TTTCTCTTCTC
880449 ATTCTCTTCT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 9 0.14
30 55 0.86
ACGTcount: A:0.09, C:0.37, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTCTCTTCTCGTTCACGAGCTTCCTTCAA
Found at i:880544 original size:117 final size:117
Alignment explanation
Indices: 880410--881003 Score: 832
Period size: 117 Copynumber: 5.1 Consensus size: 117
880400 CTTCCTTCAA
*
880410 TTTCTCTTCTCGCTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * * *
880475 TCAATCTCTTCTCATTCTCTTCTTGTTCACGAGCTTCTTTCAACTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* **
880527 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCAATCTCTTCTCGTTCACGAATTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * *
880592 TCAATCTCCTCTCATTCTCTTCTCGTTCACAAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * * *
880644 TTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTCTCTTCTAGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* *
880709 TCAATTTCTTCTCTTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * *
880761 TTTCTCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
* * * *
880826 TCAATTTCTTCTC-TATCTCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTC
66 TCAATTTCTTCTCAT-TCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
* * * * * * * *
880878 ATTCTCTTCTCGTTCATGAGCTTCCTTCAATTTTTTCTCCTTCTCTTCTAGTTCACGTGCCTCCT
1 TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
** * *
880943 TCTCTTTCTTC-CTTCTCTCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTC
66 TCAATTTCTTCTCAT-TCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
880995 TTTCTCTTC
1 TTTCTCTTC
881004 CTGCTGAACA
Statistics
Matches: 422, Mismatches: 53, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
116 2 0.00
117 420 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.46
Consensus pattern (117 bp):
TTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCT
TCAATTTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC
Found at i:888929 original size:27 final size:27
Alignment explanation
Indices: 888891--888946 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
888881 AACATGCAAA
888891 CTCACCTGCCTTTCTTTGGTAAGGTTT
1 CTCACCTGCCTTTCTTTGGTAAGGTTT
888918 CTCACCTGCCTTTCTTTGGTAAGGTTT
1 CTCACCTGCCTTTCTTTGGTAAGGTTT
888945 CT
1 CT
888947 GATAGTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.27, G:0.18, T:0.45
Consensus pattern (27 bp):
CTCACCTGCCTTTCTTTGGTAAGGTTT
Found at i:892774 original size:32 final size:32
Alignment explanation
Indices: 892732--892802 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
892722 TTCAAATTAT
892732 TTTAAATTATTTC-AGATTTG-TGTATTTTTAGA
1 TTTAAATTATTTCGAG-TTTGAT-TATTTTTAGA
* *
892764 TTTAATTTATTTCGAGTTTGAATTATTTTTATA
1 TTTAAATTATTTCGAGTTTG-ATTATTTTTAGA
892797 TTTAAA
1 TTTAAA
892803 ATTCGACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 16 0.48
33 16 0.48
34 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTAAATTATTTCGAGTTTGATTATTTTTAGA
Found at i:896651 original size:393 final size:392
Alignment explanation
Indices: 895623--896655 Score: 1440
Period size: 393 Copynumber: 2.6 Consensus size: 392
895613 TAGAGAATGG
895623 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
* *
895688 ATATCATTTTCAATAGGAAAAACAAAAATGGATGGATCAAGG---TTCGGTCATGAA-TTCTGAA
66 ATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAA
* * * * *
895749 GTCTTGTATCACTTTGAGAGCTAGATAGTTACTAACCTATGAGATTCATATTTTCATTTATCATA
131 GTCTCGTATTACTTCGAGAGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCATA
* * *
895814 AAAGCAACATGATCCAAAATGTAGTGAATTATAGCTTGTATTAAATGAACATACCAGTTTTGGTC
196 AAAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGTC
* * * * **
895879 ATTAATCATACAAAATATATTTTCATTATAAGTTTCTAGCGAATTCCAGCACTGTCACACAAAAA
261 ATTAATCATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAA
* * *
895944 ATTCTTAATTCTGAAGTTGCACAGAAAATTCAATTTAACCTCCTAACACACACATATGACGGAAC
326 ATTCTTAATTCTGAACTTACACAGAAAATCCAATTTAACCTCCTAACACACACATATGACGGAAC
896009 AA
391 AA
* * * * *
896011 AGGGAAGAGTCGAAGCAACTAATCAGAAAGTTTAACACGATACAGAAA-TGGGAAATTTTTTACA
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACA-AAACTGGG-AA-CTTTTACA
*
896075 TCAATCTCATTTTCAATAGGAACAACAAAAATGAATGGATCAAGGTTCGTTCGGTCATGAATTTC
63 TCAATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTC
* * * *
896140 TGAAGTCTCTTATTACTTCGAGAGCTAGATAATTACTAGA--TATGAGATGCATGTTTTTATTCA
127 TGAAGTCTCGTATTACTTCGAGAGCTAGATAATTACTA-ACCTATGAGATTCATATTTTTATTTA
* * *
896203 TCATGAGAGCAACATGATCCAACACGTAGTGAATTATAGCTTATGTTAAATGAACATACC-GCTT
191 TCATAAAAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAG-TT
* * * * *
896267 TTGGTCATTGATCATACACAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCCCCATCGCT
255 TTGGTCATTAATCATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACA
* * * *
896332 C-AAAAATTCTTAATTCTGAACTTACACAGAAACTCCAATTTAACTTGCTAACACACATATATGA
320 CAAAAAATTCTTAATTCTGAACTTACACAGAAAATCCAATTTAACCTCCTAACACACACATATGA
896396 -GAGAACAA
385 CG-GAACAA
* * *
896404 AGGGAAGAGACAAAGCAATTATTCAGAAAGTTCAACAAGATACAAAACT-GGAAGCTTTTACATT
1 AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAA-CTTTTACATC
* *
896468 GATCTCATTTTCAGTAGGAACAACAAAAATGGATGGATCAAGGTTCATTCGGTCATGAATTTCTG
65 AATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTCTG
* * **
896533 AAGTCTCGTATTACTTCAAGTGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTGCCA
129 AAGTCTCGTATTACTTCGAGAGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCA
*
896598 TAAAAGCAAACATCATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
194 TAAAAGC-AACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
896656 TTTAATCATA
Statistics
Matches: 564, Mismatches: 66, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
388 44 0.08
389 5 0.01
390 50 0.09
391 104 0.18
392 32 0.06
393 150 0.27
394 142 0.25
395 36 0.06
396 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (392 bp):
AGGGAAGAGACGAAGCAATTAATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCA
ATCTCATTTTCAATAGGAACAACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAA
GTCTCGTATTACTTCGAGAGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCATA
AAAGCAACATGATCCAACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGTC
ATTAATCATACAAAAGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAA
ATTCTTAATTCTGAACTTACACAGAAAATCCAATTTAACCTCCTAACACACACATATGACGGAAC
AA
Found at i:901397 original size:168 final size:163
Alignment explanation
Indices: 901096--901412 Score: 361
Period size: 169 Copynumber: 1.9 Consensus size: 163
901086 TGTAAATTGA
* *
901096 TTTGATATGCGGTTCTTAAGAAGTTGCTTAATTTCAATTTATCCATTATGCGTAAGTTTTATGGG
1 TTTGATATGCGGTTCGTAAGAAGTTGCTTAATTTCAATTTATCCATTATGCG-AAGTTTTAAGGG
* * * * ** * **
901161 CTTTCTGTCATGATTTTAGTAAAAGTTTAGCTTAACGTGAGTGTTTTCCACTATATTTGAGCTAG
65 ATCTCTGCCATAATTTTAGTAAAAGTTTAGCTTAACGCAAGTGTTTTCCAC-ACATTCAAGCTAG
901226 CTTGCAGCATTTGGTCACTGGGTTTTTTATGTTGT
129 CTTGCAGCATTTGGTCACTGGGTTTTTTATGTTGT
* * *
901261 TTTGATGTGTGGTTCGTAAGAAGTTGTAGCTTAATTTCAATTTTTCCCATTTATGC-AAGTTTTT
1 TTTGATATGCGGTTCGTAAGAAG-T-T-GCTTAATTTCAATTTAT-CCA-TTATGCGAAG-TTTT
* * *
901325 AAGGGATCTCTGCCATAATTTCT-GTAAAAGTTTAGCTTAATGCAAGTTTTTTCTAC-CATTCAA
60 AAGGGATCTCTGCCATAATTT-TAGTAAAAGTTTAGCTTAACGCAAGTGTTTTCCACACATTCAA
*
901388 GCTTAGCTTGCAGCATTTGTTCACT
124 GC-TAGCTTGCAGCATTTGGTCACT
901413 TGGTCCATGA
Statistics
Matches: 126, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
165 20 0.16
166 1 0.01
167 7 0.06
168 40 0.32
169 51 0.40
170 7 0.06
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (163 bp):
TTTGATATGCGGTTCGTAAGAAGTTGCTTAATTTCAATTTATCCATTATGCGAAGTTTTAAGGGA
TCTCTGCCATAATTTTAGTAAAAGTTTAGCTTAACGCAAGTGTTTTCCACACATTCAAGCTAGCT
TGCAGCATTTGGTCACTGGGTTTTTTATGTTGT
Found at i:911695 original size:249 final size:250
Alignment explanation
Indices: 911246--911704 Score: 661
Period size: 249 Copynumber: 1.8 Consensus size: 250
911236 AAATAGATCG
** * * * *
911246 AAATTCTTTGTTTTTGAAAGGAAATGTATATTCCCGAAATGTAGCTTAGGTACAACAATCTCAAC
1 AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGT--AACAATCTCAAC
* * * * *
911311 TTTAGACTGCCCTATGTGAACAAAACCTAGTTATGATCCAACAATAGTTTGGTCTTAATCTAAGA
64 TCTAGACAGCCCTATGTGAACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGA
* **
911376 CAAAACACATAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCGCCGTGTCTGGAAA
129 CAAAACACA-AATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCGCCATGTCCAGAAA
911441 TTGTATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
193 TTGTATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
* *
911499 AAATTCTTTGTTCATAAAAGGAATTCTATATTTCCAAAATGCAGCTTAGGT-ACAATCTCAACTC
1 AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTC
* *
911563 TAGACAGCCCTATGTGAAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGAT
66 TAGACAGCCCTATGTG-AACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGAC
* * * * *
911628 AGAACAC-AATTTCTCAGCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATATT
130 AAAACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCGCCATGTCCAGAAATT
911692 GTATCCGTCCGGC
195 GTATCCGTCCGGC
911705 TTGAATGGCA
Statistics
Matches: 182, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
249 63 0.35
250 27 0.15
251 49 0.27
253 43 0.24
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (250 bp):
AAATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTC
TAGACAGCCCTATGTGAACAAAACCTAGTTACGATCCAACAATAGGTTGGTCTTAAACTAAGACA
AAACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGCGCCATGTCCAGAAATTG
TATCCGTCCGGCAAAAAACCAAATTTAAGCCAAAGGAAATCCCAAGAATATAGAA
Found at i:911964 original size:203 final size:202
Alignment explanation
Indices: 911519--912033 Score: 562
Period size: 203 Copynumber: 2.5 Consensus size: 202
911509 TTCATAAAAG
* * *
911519 GAATTCTATATTTCCAAAATGCAGCTTAGGT---ACAATCTCAACTCTAGACA-G-CCCTATGTG
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGA-ATGTCCC-ATGTG
* * * * *
911579 AAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGATAGAACACAATTTCTCA
64 -AATAAAACCTAGTTATGG----ACCA-A--TTGGTCTTAATCTAAGACAGAACACAATTTCTCA
* * * *
911644 GCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
121 ACTAAAGACTGCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
** *
911709 ATGGCAATCTCTTCCCA
186 ACAGCAATCTCTTCCAA
* * * * *
911726 GAATTCTATATTCCCAACATGCAGCTTAAGTACAACAATCTCAATTCTAGACTTTCCCATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
* *
911791 TAAAA-CTGAGTTAT-GATCCAATTGGCCTTAATCTAAGACAGAACACACAATTTCTTAACTAAA
66 TAAAACCT-AGTTATGGA-CCAATTGGTCTTAATCTAAGACAG-A-ACACAATTTCTCAACTAAA
* * *
911854 GACTGCTCTATCTATTTTCCGCCCGCGCCATGTCCAGATATTGTAT-CGTCCGGCTTGAACAGTA
127 GACTGCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGCA
911918 ATCTC-TCCAAA
192 ATCTCTTCC-AA
* * *
911929 GAATTCTCTATTCCCAAAATGCAGCTTAGGTACAACAATCTCAACTATAGAATGTCCTATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
* *
911994 TAAAACCTAGTTATGGACCAACTGGTCTTAATCTATGACA
66 TAAAACCTAGTTATGGACCAATTGGTCTTAATCTAAGACA
912034 TCACAATTTT
Statistics
Matches: 262, Mismatches: 34, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
202 20 0.08
203 110 0.42
204 64 0.24
205 2 0.01
207 28 0.11
208 3 0.01
209 11 0.04
210 21 0.08
211 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (202 bp):
GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
TAAAACCTAGTTATGGACCAATTGGTCTTAATCTAAGACAGAACACAATTTCTCAACTAAAGACT
GCCCTATCTATTTTCCGACCGCGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGCAATCT
CTTCCAA
Found at i:917808 original size:14 final size:15
Alignment explanation
Indices: 917789--917818 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
917779 AAGTACCTTG
917789 ATATATATAA-ATAA
1 ATATATATAATATAA
917803 ATATATATAATATAA
1 ATATATATAATATAA
917818 A
1 A
917819 AATAAAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATATATAATATAA
Found at i:918675 original size:26 final size:26
Alignment explanation
Indices: 918645--918699 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
918635 CAAATTTTAG
* *
918645 AAGGACTAAAGCCTGAATTAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
918671 AAGGACTAAAACCAGAATTAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
918697 AAG
1 AAG
918700 TTTCAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.13
Consensus pattern (26 bp):
AAGGACTAAAACCAGAATTAAACCAA
Found at i:928591 original size:29 final size:30
Alignment explanation
Indices: 928526--928598 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
928516 AATTTTATAT
928526 TTTAAAAAATAAAAGGACTAAATTCATAAA
1 TTTAAAAAATAAAAGGACTAAATTCATAAA
** *
928556 AAT-AAAAGTATAAA-GACTAAATTCA-AAA
1 TTTAAAAAATA-AAAGGACTAAATTCATAAA
928584 TTTAAAAAAGTAAAA
1 TTTAAAAAA-TAAAA
928599 ACGCTTGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 4 0.12
29 24 0.71
30 6 0.18
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (30 bp):
TTTAAAAAATAAAAGGACTAAATTCATAAA
Found at i:931188 original size:13 final size:13
Alignment explanation
Indices: 931167--931200 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
931157 TTGATTCATG
931167 TTTTAATTAAATA
1 TTTTAATTAAATA
*
931180 TTTTTATT-AATA
1 TTTTAATTAAATA
931192 TTTTAATTA
1 TTTTAATTA
931201 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTAAATA
Found at i:934814 original size:16 final size:17
Alignment explanation
Indices: 934781--934818 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
934771 GAAACGTTTA
*
934781 TTTTAATGTTTTAGTAT
1 TTTTAATGTATTAGTAT
*
934798 TTTTTATGTATTA-TAT
1 TTTTAATGTATTAGTAT
934814 TTTTA
1 TTTTA
934819 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTAATGTATTAGTAT
Found at i:946613 original size:19 final size:18
Alignment explanation
Indices: 946589--946647 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
946579 TCTAATTAAG
946589 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
946608 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
946626 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
946645 TAA
1 TAA
946648 AAAAAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:946618 original size:18 final size:19
Alignment explanation
Indices: 946597--946647 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
946587 AGTAATAATT
946597 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
946615 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
946634 CTATTTTAATTTAA
1 CTATTTTAATTTAA
946648 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:946745 original size:19 final size:19
Alignment explanation
Indices: 946721--946779 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
946711 TCTAATTAAG
946721 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
946740 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
946758 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
946777 TAA
1 TAA
946780 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:946837 original size:19 final size:19
Alignment explanation
Indices: 946813--946871 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
946803 CTTAATTTTT
946813 TTAAATTAAAATAGGGTTA
1 TTAAATTAAAATAGGGTTA
* *
946832 TTAAATTAGAATA-GTTTA
1 TTAAATTAAAATAGGGTTA
*
946850 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGGGTTA
946869 TTA
1 TTA
946872 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 16 0.47
19 18 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (19 bp):
TTAAATTAAAATAGGGTTA
Found at i:947431 original size:27 final size:27
Alignment explanation
Indices: 947390--947441 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
947380 CATTTTAGTC
*
947390 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGACACCATTGGTGCCGCCAATCT
*
947417 CTTTGACACCTTTGGTGCCGCCAAT
1 CTTTGACACCATTGGTGCCGCCAAT
947442 GTAATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGACACCATTGGTGCCGCCAATCT
Found at i:947528 original size:26 final size:27
Alignment explanation
Indices: 947499--947561 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
947489 TTTTTTTTGT
947499 ATATTTTGGTAAACAAAAAAA-TTATA
1 ATATTTTGGTAAACAAAAAAAGTTATA
*
947525 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAACAAAAAAAGTTATA
947552 ATATTTTGGT
1 ATATTTTGGT
947562 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAACAAAAAAAGTTATA
Found at i:949247 original size:30 final size:27
Alignment explanation
Indices: 949207--949275 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 27
949197 AATATTAAGT
*
949207 AAACTTAAATTTTAAAATTTAAAATATAAA
1 AAAC-TAAATTTTAAAA-ATAAAATA-AAA
*
949237 AAGACTAAATTTTTAAAAATAAAATAACA
1 AA-ACTAAA-TTTTAAAAATAAAATAAAA
949266 AAACTAAATT
1 AAACTAAATT
949276 CCAAATATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 6 0.17
29 4 0.11
30 13 0.37
31 10 0.29
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (27 bp):
AAACTAAATTTTAAAAATAAAATAAAA
Found at i:952115 original size:20 final size:20
Alignment explanation
Indices: 952090--952129 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
952080 CGTAAAATGA
*
952090 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
952110 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
952130 GAAAAATATT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:952119 original size:34 final size:34
Alignment explanation
Indices: 952076--952141 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
952066 AGTAAAATAT
*
952076 TTTTCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
952109 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGAAAAATATTTT
952142 TTAGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:959504 original size:23 final size:22
Alignment explanation
Indices: 959476--959519 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
959466 ATGATGTTGG
*
959476 AATTAGAATTATTATTTTATTTC
1 AATTAGAATTA-AATTTTATTTC
959499 AATTAGAATTAAATTTTATTT
1 AATTAGAATTAAATTTTATTT
959520 GAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
AATTAGAATTAAATTTTATTTC
Found at i:963381 original size:31 final size:32
Alignment explanation
Indices: 963320--963383 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
963310 ATCTATTTTG
** *
963320 AAAATTTATCATTAAGCCCTCTAAATTTTTTAA
1 AAAATTTA-CATTAAGCCCTAAAAAATTTTTAA
963353 AAAATTTA-ATTAAGCCCTAAAAAATTTTTAA
1 AAAATTTACATTAAGCCCTAAAAAATTTTTAA
963384 TTTTTCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 20 0.71
33 8 0.29
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (32 bp):
AAAATTTACATTAAGCCCTAAAAAATTTTTAA
Found at i:976173 original size:20 final size:20
Alignment explanation
Indices: 976148--976187 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
976138 CGTAAAATGA
*
976148 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
976168 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
976188 AGAAAATATT
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:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:976177 original size:34 final size:35
Alignment explanation
Indices: 976133--976199 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
976123 CAGTAAAATA
* *
976133 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
976167 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
976200 TTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:980229 original size:41 final size:41
Alignment explanation
Indices: 980172--980255 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
980162 AAACCTTGCA
980172 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
980213 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
980254 CA
1 CA
980256 TAATGATCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (41 bp):
CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
Found at i:988150 original size:126 final size:125
Alignment explanation
Indices: 988020--988343 Score: 357
Period size: 124 Copynumber: 2.6 Consensus size: 125
988010 TTTATTATTG
* * *
988020 ATTTATAATTAAGAAAATTAATTTTATCAAAACACTTTGTTAATGAATTAATTTGATAATAGATA
1 ATTTATAAATAAGAAAATTAAATTTATCAAAACAC-TT-TTAATTAATTAATTTGATAATAGATA
* * * * ** *
988085 AAAATTAAAGTTTTATGAAATTTTTTATCCTAAAGTTTTTATTTTTTCATTAATCTT-AACA
64 ACAATTAAAATTTTATGAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTTAAAAA
* * * * * *
988146 ATTTAATAAGTAAGAAATTTAAATTTATAAAAAAAAC--CTAATTAATTAATTTGATAATAGATG
1 ATTT-ATAAATAAGAAAATTAAATTTAT-CAAAACACTTTTAATTAATTAATTTGATAATAGATA
* *
988209 ACAATCAAAATTTTATGAAATTTTGTATCTTAAAGTTTTAAAATTTTCATTAATCTTAAAAAAA
64 ACAATTAAAATTTTATGAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTT--AAAAA
* * * *
988273 ATTAATAAACAAGAAACTTAAATTTATCAAAACACTTAATTAATTAATTAATTTGATAATCGATA
1 ATTTATAAATAAGAAAATTAAATTTATCAAAACACTT--TTAATTAATTAATTTGATAATAGATA
988338 ACAATT
64 ACAATT
988344 TGATTTATTT
Statistics
Matches: 162, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
124 72 0.44
125 6 0.04
126 24 0.15
127 26 0.16
128 6 0.04
129 28 0.17
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (125 bp):
ATTTATAAATAAGAAAATTAAATTTATCAAAACACTTTTAATTAATTAATTTGATAATAGATAAC
AATTAAAATTTTATGAAATTTTGTATCCTAAAGTTTTAAAATTTTCATTAATCTTAAAAA
Found at i:989075 original size:26 final size:26
Alignment explanation
Indices: 989046--989096 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
989036 AAAATTAACA
989046 TTTA-TATATGATTTTATTCATTATTT
1 TTTATTATATGA-TTTATTCATTATTT
*
989072 TTTATTCTATGATTTATTCATTATT
1 TTTATTATATGATTTATTCATTATT
989097 GAGAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTATTATATGATTTATTCATTATTT
Found at i:1016973 original size:23 final size:23
Alignment explanation
Indices: 1016947--1017022 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
1016937 ATAAGTGCCA
1016947 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1016970 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
1016993 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1017016 CACTGAT
1 CACTGAT
1017023 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:1023636 original size:28 final size:28
Alignment explanation
Indices: 1023601--1023659 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1023591 AAATGTTTTA
*
1023601 TTTATTTATTTAAAGAAATAAGTCAATT
1 TTTATTTATTTAAAGAAATAAATCAATT
*
1023629 TTTATTTATTTAATGAAATAAATCAATT
1 TTTATTTATTTAAAGAAATAAATCAATT
1023657 TTT
1 TTT
1023660 TCAGTTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTATTTATTTAAAGAAATAAATCAATT
Found at i:1024682 original size:17 final size:17
Alignment explanation
Indices: 1024660--1024694 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1024650 CATAGAATGA
1024660 GTTAATATGAAAATAGG
1 GTTAATATGAAAATAGG
1024677 GTTAATATGAAAATAGG
1 GTTAATATGAAAATAGG
1024694 G
1 G
1024695 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (17 bp):
GTTAATATGAAAATAGG
Found at i:1030575 original size:26 final size:26
Alignment explanation
Indices: 1030532--1030633 Score: 80
Period size: 26 Copynumber: 3.7 Consensus size: 26
1030522 CTTCCATGTT
** *
1030532 TAATTTGGTACCCAAGTTTTCCTTTC
1 TAATTTGGTACCTGAGTTTTCATTTC
*
1030558 TAATTTGGTACTTGAGTTTGACTTCAATGTTC
1 TAATTTGGTACCTGAG-TT---TTC-AT-TTC
**
1030590 -AATTTGGTACCTGAGTTTTTTTTTC
1 TAATTTGGTACCTGAGTTTTCATTTC
*
1030615 TAATTTGGTACTTGAGTTT
1 TAATTTGGTACCTGAGTTT
1030634 GGCTTTAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
25 3 0.05
26 31 0.51
27 4 0.07
30 5 0.08
31 15 0.25
32 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.50
Consensus pattern (26 bp):
TAATTTGGTACCTGAGTTTTCATTTC
Found at i:1030594 original size:57 final size:57
Alignment explanation
Indices: 1030521--1030634 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
1030511 GGTGAATTTT
* *
1030521 ACTTCCATGTTTAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
1 ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
** **
1030578 ACTTCAATGTTCAATTTGGTACCTGAGTTTTTTTTTCTAATTTGGTACTTGAGTTTG
1 ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
1030635 GCTTTAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (57 bp):
ACTTCAATGTTCAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAGTTTG
Found at i:1032034 original size:24 final size:24
Alignment explanation
Indices: 1031979--1032035 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1031969 ATTTAATTTA
*
1031979 ATTTT-TTAAAAATTATAAAAATAT
1 ATTTTATT-AAAATGATAAAAATAT
** *
1032003 ATACTATTAAAATGATAAAATTAT
1 ATTTTATTAAAATGATAAAAATAT
1032027 ATTTTATTA
1 ATTTTATTA
1032036 TAATTTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTTTATTAAAATGATAAAAATAT
Found at i:1032937 original size:19 final size:20
Alignment explanation
Indices: 1032913--1032957 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1032903 TTAATTAATT
*
1032913 CAAATTCAAATA-AAATACC
1 CAAATTCAAATATAAATACA
*
1032932 CAAATT-TAATATAAATACA
1 CAAATTCAAATATAAATACA
1032951 CAAATTC
1 CAAATTC
1032958 GGATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.27
Consensus pattern (20 bp):
CAAATTCAAATATAAATACA
Found at i:1044606 original size:31 final size:31
Alignment explanation
Indices: 1044571--1044630 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1044561 AACAACTCAA
1044571 TGACTTAAATAAAAACTTTCAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
* * **
1044602 TGACTTAAATGAAAGCTTTTGAATAGTTC
1 TGACTTAAATAAAAACTTTCAAATAGTTC
1044631 GAAGAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:1046814 original size:30 final size:31
Alignment explanation
Indices: 1046780--1046838 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
1046770 ATAAATTGGG
*
1046780 AGGGTTTTAGTTGAACCATAAAAA-CTAAAA
1 AGGGTTCTAGTTGAACCATAAAAAGCTAAAA
*
1046810 AGGGTTCTAGTTTAACCATAAAAAGCTAA
1 AGGGTTCTAGTTGAACCATAAAAAGCTAA
1046839 GGGAAAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (31 bp):
AGGGTTCTAGTTGAACCATAAAAAGCTAAAA
Found at i:1050136 original size:15 final size:17
Alignment explanation
Indices: 1050102--1050139 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
1050092 AGTAAATATG
1050102 TAATTTCATCATTTTAA
1 TAATTTCATCATTTTAA
*
1050119 TAATTT-AT-ATTTTTA
1 TAATTTCATCATTTTAA
1050134 TAATTT
1 TAATTT
1050140 TTATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTCATCATTTTAA
Found at i:1051631 original size:14 final size:14
Alignment explanation
Indices: 1051612--1051641 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1051602 AAATGATAGC
*
1051612 AAAATAGTAAAAAA
1 AAAATAGGAAAAAA
1051626 AAAATAGGAAAAAA
1 AAAATAGGAAAAAA
1051640 AA
1 AA
1051642 GTGTAGTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAATAGGAAAAAA
Found at i:1052172 original size:2 final size:2
Alignment explanation
Indices: 1052165--1052199 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1052155 AATGATTTTA
*
1052165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1052200 ATGAAAAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1055896 original size:15 final size:15
Alignment explanation
Indices: 1055876--1055920 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
1055866 AAACCAAGAA
*
1055876 GCTGTTGTTGCTGCT
1 GCTGTTGTTGTTGCT
1055891 GCTGTTGTTGTTGCT
1 GCTGTTGTTGTTGCT
*
1055906 GCTGCTGTTGTTGCT
1 GCTGTTGTTGTTGCT
1055921 CTTGTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.49
Consensus pattern (15 bp):
GCTGTTGTTGTTGCT
Found at i:1055901 original size:18 final size:18
Alignment explanation
Indices: 1055878--1055918 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1055868 ACCAAGAAGC
1055878 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1055896 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1055914 TGTTG
1 TGTTG
1055919 CTCTTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.34, T:0.51
Consensus pattern (18 bp):
TGTTGTTGCTGCTGCTGT
Found at i:1059683 original size:21 final size:22
Alignment explanation
Indices: 1059643--1059683 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1059633 CGACGTGGTA
* *
1059643 TATTTAACTATATTAGATAAAT
1 TATTTAACTATATAAAATAAAT
1059665 TATTTAA-TATATAAAATAA
1 TATTTAACTATATAAAATAA
1059684 GAAAGTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAACTATATAAAATAAAT
Found at i:1063833 original size:7 final size:7
Alignment explanation
Indices: 1063821--1063860 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
1063811 TTTTACATCA
1063821 AATCTCG
1 AATCTCG
1063828 AATCTCG
1 AATCTCG
1063835 AATCTCG
1 AATCTCG
*
1063842 AATCTTG
1 AATCTCG
1063849 AA-CTCCG
1 AATCT-CG
1063856 AATCT
1 AATCT
1063861 AGATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 2 0.07
7 25 0.86
8 2 0.07
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (7 bp):
AATCTCG
Found at i:1076068 original size:15 final size:16
Alignment explanation
Indices: 1076048--1076113 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
1076038 GGATTAATAT
1076048 TTTTATAATTTAT-AA
1 TTTTATAATTTATAAA
*
1076063 TTTTATATTTTATGAAAA
1 TTTTATAATTTAT--AAA
1076081 TTTTATATATTTAT---
1 TTTTATA-ATTTATAAA
*
1076095 TTTTAT-TTTTATAAA
1 TTTTATAATTTATAAA
1076110 TTTT
1 TTTT
1076114 TAAAGTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
12 5 0.12
14 6 0.15
15 16 0.39
18 9 0.22
19 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTATAATTTATAAA
Found at i:1076115 original size:30 final size:32
Alignment explanation
Indices: 1076046--1076115 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
1076036 TGGGATTAAT
1076046 ATTTTTATAATTTATAATTTTATATTTTATGAA
1 ATTTTTATAATTTAT-ATTTTATATTTTATGAA
*
1076079 AATTTTATATATTTAT-TTTTAT-TTTTAT-AA
1 ATTTTTATA-ATTTATATTTTATATTTTATGAA
1076109 ATTTTTA
1 ATTTTTA
1076116 AAGTTGATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 6 0.18
33 8 0.24
34 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (32 bp):
ATTTTTATAATTTATATTTTATATTTTATGAA
Found at i:1076923 original size:31 final size:30
Alignment explanation
Indices: 1076874--1076932 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
1076864 TTTTGGTGGT
*
1076874 AAATATCAAAATTATACATAAACTTTGACC
1 AAATATCAAAATCATACATAAACTTTGACC
* * *
1076904 AAATATGCAATATCATACATGAATTTTGA
1 AAATAT-CAAAATCATACATAAACTTTGA
1076933 TTTTGCGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATATCAAAATCATACATAAACTTTGACC
Found at i:1080665 original size:21 final size:21
Alignment explanation
Indices: 1080639--1080679 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1080629 ATCTGCTCAA
* *
1080639 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1080660 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1080680 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1089928 original size:13 final size:13
Alignment explanation
Indices: 1089912--1089936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1089902 ATGTCACACC
1089912 AAAAATTTTAACT
1 AAAAATTTTAACT
1089925 AAAAATTTTAAC
1 AAAAATTTTAAC
1089937 GGGATTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTTAACT
Found at i:1091399 original size:21 final size:21
Alignment explanation
Indices: 1091373--1091437 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 21
1091363 TTGTTGCTTC
1091373 ACCACTATAAATTGGTCCTGA
1 ACCACTATAAATTGGTCCTGA
*
1091394 ACCACTATAAAATTGTCTTCCTGA
1 ACCACTAT-AAATTG--GTCCTGA
1091418 ACCACTATAAATTGGTCCTG
1 ACCACTATAAATTGGTCCTG
1091438 GTGGCATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.33
22 6 0.15
23 6 0.15
24 14 0.36
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (21 bp):
ACCACTATAAATTGGTCCTGA
Found at i:1091496 original size:45 final size:45
Alignment explanation
Indices: 1091436--1091521 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
1091426 AAATTGGTCC
1091436 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
1 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
*
1091481 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCGCCAC
1 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCAC
1091522 CATAGCCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (45 bp):
TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
Found at i:1092076 original size:31 final size:31
Alignment explanation
Indices: 1092033--1092093 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1092023 TAACAAGCAA
* *
1092033 CATTGAGGGCTAGATTGACATAATATGTAAT
1 CATTGAGAGCTAGATTAACATAATATGTAAT
1092064 CATTGAGAGCTAGATTAACATAATATGTAA
1 CATTGAGAGCTAGATTAACATAATATGTAA
1092094 AGTTTGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (31 bp):
CATTGAGAGCTAGATTAACATAATATGTAAT
Found at i:1094386 original size:45 final size:44
Alignment explanation
Indices: 1094335--1094427 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
1094325 ATAGAGGTGT
*
1094335 AATGGAATAAAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAAT-ATTC-ATGTGTTTGGTTGAATGG
*
1094380 AATGGAATAAAACTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGG
1094424 AATG
1 AATG
1094428 ATGTTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (44 bp):
AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:1094645 original size:36 final size:37
Alignment explanation
Indices: 1094605--1094677 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
1094595 AATAAAATAA
* *
1094605 TATAT-AATTTAATAAAATTCTTAATATA-ATTATTCT
1 TATATGAATTTAATAAAA-TCATAATATATAATATTCT
*
1094641 TATATGAATTTACTAAAATCATAATATATAATATTCT
1 TATATGAATTTAATAAAATCATAATATATAATATTCT
1094678 AAAAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 14 0.44
37 18 0.56
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (37 bp):
TATATGAATTTAATAAAATCATAATATATAATATTCT
Found at i:1094651 original size:57 final size:56
Alignment explanation
Indices: 1094535--1094668 Score: 144
Period size: 57 Copynumber: 2.3 Consensus size: 56
1094525 AATAAGATTG
* * *
1094535 TTAATATAAATAATAAATAATCTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATATATAATCTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
1094593 TTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATATATAATCTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
1094650 TTACTAAAATCATAATATA
1 TTAATAAAATAAT-ATATA
1094669 TAATATTCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.06
57 35 0.54
58 26 0.40
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATATATAATCTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:1094668 original size:24 final size:21
Alignment explanation
Indices: 1094641--1094698 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 21
1094631 TAATTATTCT
1094641 TATATGAATTTACTAAAATCATAA
1 TATAT-AATTTACTAAAA--ATAA
1094665 TATATAATATT-CTAAAAATAA
1 TATATAAT-TTACTAAAAATAA
*
1094686 TATATAATCTACT
1 TATATAATTTACT
1094699 TTATTGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.03
21 14 0.45
23 9 0.29
24 7 0.23
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TATATAATTTACTAAAAATAA
Found at i:1096421 original size:24 final size:21
Alignment explanation
Indices: 1096356--1096406 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1096346 TGATAAAATG
*
1096356 GAGAA-AAGAAAAGAAATGTA
1 GAGAAGAAGAAAAGAAACGTA
*
1096376 AAG-AGAAGAAAAGAAACGTA
1 GAGAAGAAGAAAAGAAACGTA
1096396 GAGAAGAAGAA
1 GAGAAGAAGAA
1096407 GCAGAAATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.69
21 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.27, T:0.06
Consensus pattern (21 bp):
GAGAAGAAGAAAAGAAACGTA
Found at i:1096894 original size:27 final size:26
Alignment explanation
Indices: 1096836--1096893 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
1096826 ACAAAAAAAA
1096836 ACAAAACTGTTTAAAAAAATAAACTG
1 ACAAAACTGTTTAAAAAAATAAACTG
*
1096862 ACAAAACTGTTTTAAAAAATAAACTG
1 ACAAAACTGTTTAAAAAAATAAACTG
1096888 ACAAAA
1 ACAAAA
1096894 AAAAGTGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.59, C:0.12, G:0.07, T:0.22
Consensus pattern (26 bp):
ACAAAACTGTTTAAAAAAATAAACTG
Found at i:1096947 original size:27 final size:27
Alignment explanation
Indices: 1096917--1096985 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
1096907 GGACGGGACA
1096917 GCACCGGTCACGCCTGGGGAAGAGGCG
1 GCACCGGTCACGCCTGGGGAAGAGGCG
1096944 GCACCGGTCACGCCTGGGGAAGAGGCG
1 GCACCGGTCACGCCTGGGGAAGAGGCG
1096971 GCACCGGTCACGCCT
1 GCACCGGTCACGCCT
1096986 TCCTCAGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.17, C:0.33, G:0.41, T:0.09
Consensus pattern (27 bp):
GCACCGGTCACGCCTGGGGAAGAGGCG
Found at i:1096994 original size:27 final size:27
Alignment explanation
Indices: 1096937--1097026 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
1096927 CGCCTGGGGA
*****
1096937 AGAGGCGGCACCGGTCACGCCTGGGGA
1 AGAGGCGGCACCGGTCACGCCTTCCCC
*
1096964 AGAGGCGGCACCGGTCACGCCTTCCTC
1 AGAGGCGGCACCGGTCACGCCTTCCCC
* *
1096991 AGAGGCGGCATCGGTCATGCCTTCCCC
1 AGAGGCGGCACCGGTCACGCCTTCCCC
*
1097018 AAAGGCGGC
1 AGAGGCGGC
1097027 TCCTGTTGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.18, C:0.34, G:0.36, T:0.12
Consensus pattern (27 bp):
AGAGGCGGCACCGGTCACGCCTTCCCC
Found at i:1097144 original size:11 final size:11
Alignment explanation
Indices: 1097128--1097165 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1097118 GGCCAGTCAA
1097128 AAGAAAGAAAG
1 AAGAAAGAAAG
*
1097139 AAGAAAAAAAG
1 AAGAAAGAAAG
1097150 AAGAGAAG-AAG
1 AAGA-AAGAAAG
1097161 AAGAA
1 AAGAA
1097166 GAAGGAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 21 0.88
12 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAG
Found at i:1097150 original size:19 final size:19
Alignment explanation
Indices: 1097126--1097162 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1097116 TTGGCCAGTC
1097126 AAAAGAA-AGAAAGAAGAAA
1 AAAAGAAGAG-AAGAAGAAA
1097145 AAAAGAAGAGAAGAAGAA
1 AAAAGAAGAGAAGAAGAA
1097163 GAAGAAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAGAAGAAGAAA
Found at i:1097439 original size:13 final size:13
Alignment explanation
Indices: 1097421--1097445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1097411 AGTTTGGCAA
1097421 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
1097434 TGCTTTTGAAAA
1 TGCTTTTGAAAA
1097446 CGTGGAGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:1097698 original size:24 final size:24
Alignment explanation
Indices: 1097664--1097709 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1097654 TATATGAAAT
* *
1097664 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
1097688 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
1097710 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:1098296 original size:24 final size:24
Alignment explanation
Indices: 1098269--1098315 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1098259 CTAATTAAAT
* *
1098269 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
1098293 TTTAAAAATATTTAAAATTTATT
1 TTTAAAAATAATTAAAATTTATT
1098316 TTTCATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:1101557 original size:33 final size:33
Alignment explanation
Indices: 1101479--1101562 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
1101469 AGTACAATCA
1101479 CAGTACAGCACTCCTCCCGGCCCATATCCACCG
1 CAGTACAGCACTCCTCCCGGCCCATATCCACCG
* ** ** ** *
1101512 CATTACTCCACTCCTCTTGGGTCGTATCCACCG
1 CAGTACAGCACTCCTCCCGGCCCATATCCACCG
*
1101545 CAGTACAGCACTCATCCC
1 CAGTACAGCACTCCTCCC
1101563 AACTCTAGCT
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.20, C:0.44, G:0.14, T:0.21
Consensus pattern (33 bp):
CAGTACAGCACTCCTCCCGGCCCATATCCACCG
Found at i:1104255 original size:52 final size:52
Alignment explanation
Indices: 1104125--1104341 Score: 329
Period size: 52 Copynumber: 4.3 Consensus size: 52
1104115 GAATTTGAGT
*
1104125 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAT
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
* *
1104177 ACTTATCTGATCAAGAGAC------AAAGTGATAAGTGATAGTTTCGGCTAC
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
1104223 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
* * **
1104275 ACTTATCTGATCAAGTGACAAGTGAAAAATGATAAGTGATAGCTTTAGCTAC
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
1104327 ACTTATCTGATCAAG
1 ACTTATCTGATCAAG
1104342 AAACAAAGTG
Statistics
Matches: 150, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 43 0.29
52 107 0.71
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (52 bp):
ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTAC
Found at i:1104255 original size:98 final size:99
Alignment explanation
Indices: 1104125--1104341 Score: 330
Period size: 98 Copynumber: 2.2 Consensus size: 99
1104115 GAATTTGAGT
*
1104125 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCA
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
* *
1104190 AGAGAC-AAAGTGATAAGTGATAG-TTTCGGCTAC
66 AGAGACAAAAATGATAAGTGATAGCTTT-AGCTAC
1104223 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
*
1104288 AGTGACAAGTGAAAAATGATAAGTGATAGCTTTAGCTAC
66 AGAGAC-----AAAAATGATAAGTGATAGCTTTAGCTAC
1104327 ACTTATCTGATCAAG
1 ACTTATCTGATCAAG
1104342 AAACAAAGTG
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
98 69 0.64
104 36 0.33
105 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (99 bp):
ACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
AGAGACAAAAATGATAAGTGATAGCTTTAGCTAC
Found at i:1104393 original size:35 final size:37
Alignment explanation
Indices: 1104322--1104393 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
1104312 GATAGCTTTA
1104322 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
1104359 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1104394 ATCATACGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 12 0.36
36 4 0.12
37 17 0.52
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:1107920 original size:27 final size:27
Alignment explanation
Indices: 1107873--1107945 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
1107863 GTGGATGTCG
* * * *
1107873 CCTATGGGGATGGCATCACCGATGCCA
1 CCTATGGGGAAGGCGTGACCGATACCA
* *
1107900 CCTATGGGGAAGGCGTGACCGGTACCG
1 CCTATGGGGAAGGCGTGACCGATACCA
**
1107927 CCTATGGAAAAGGCGTGAC
1 CCTATGGGGAAGGCGTGAC
1107946 TGGTGCCGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.16
Consensus pattern (27 bp):
CCTATGGGGAAGGCGTGACCGATACCA
Found at i:1107954 original size:27 final size:27
Alignment explanation
Indices: 1107890--1107956 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
1107880 GGATGGCATC
* * **
1107890 ACCGATGCCACCTATGGGGAAGGCGTG
1 ACCGGTGCCGCCTATGGAAAAGGCGTG
*
1107917 ACCGGTACCGCCTATGGAAAAGGCGTG
1 ACCGGTGCCGCCTATGGAAAAGGCGTG
*
1107944 ACTGGTGCCGCCT
1 ACCGGTGCCGCCT
1107957 CTTCCATAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.16
Consensus pattern (27 bp):
ACCGGTGCCGCCTATGGAAAAGGCGTG
Found at i:1110718 original size:14 final size:13
Alignment explanation
Indices: 1110686--1110725 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1110676 AAAATAAGTC
*
1110686 TAAAAAATCAAAA
1 TAAAAAATTAAAA
*
1110699 TAAAAAATTAATA
1 TAAAAAATTAAAA
1110712 TAGAAAAATTAAAA
1 TA-AAAAATTAAAA
1110726 AACTGAACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:1113393 original size:12 final size:12
Alignment explanation
Indices: 1113376--1113425 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
1113366 TACCTCTTCT
1113376 TCCTCATCATCC
1 TCCTCATCATCC
*
1113388 TCCTCATCATCA
1 TCCTCATCATCC
* *
1113400 TCTTCGTCATCC
1 TCCTCATCATCC
* *
1113412 TCATCCTCATCC
1 TCCTCATCATCC
1113424 TC
1 TC
1113426 TACCCCATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.16, C:0.46, G:0.02, T:0.36
Consensus pattern (12 bp):
TCCTCATCATCC
Found at i:1113399 original size:15 final size:15
Alignment explanation
Indices: 1113379--1113419 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1113369 CTCTTCTTCC
1113379 TCATCATCCTCCTCA
1 TCATCATCCTCCTCA
* *
1113394 TCATCATCTTCGTCA
1 TCATCATCCTCCTCA
*
1113409 TCCTCATCCTC
1 TCATCATCCTC
1113420 ATCCTCTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.44, G:0.02, T:0.37
Consensus pattern (15 bp):
TCATCATCCTCCTCA
Found at i:1113791 original size:15 final size:15
Alignment explanation
Indices: 1113771--1113807 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1113761 CTGGATCATA
1113771 TTCATCATCATCCTC
1 TTCATCATCATCCTC
* *
1113786 TTCATCTTCCTCCTC
1 TTCATCATCATCCTC
1113801 TTCATCA
1 TTCATCA
1113808 GACTCCGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.16, C:0.41, G:0.00, T:0.43
Consensus pattern (15 bp):
TTCATCATCATCCTC
Found at i:1115403 original size:27 final size:26
Alignment explanation
Indices: 1115345--1115423 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
1115335 TTGGGGTGGG
*
1115345 AGAAGGAGAGGGAAAGAAAGAAAGAAA
1 AGAAGGAGA-GGAAAGAGAGAAAGAAA
*
1115372 GGAAGGAGAGGAAAGAGAGAAAGAAGA
1 AGAAGGAGAGGAAAGAGAGAAAGAA-A
*
1115399 AGAAGAAGAGGAAAG-GAG-AAGAAA
1 AGAAGGAGAGGAAAGAGAGAAAGAAA
1115423 A
1 A
1115424 AAAAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 18 0.38
27 22 0.47
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (26 bp):
AGAAGGAGAGGAAAGAGAGAAAGAAA
Found at i:1115418 original size:19 final size:20
Alignment explanation
Indices: 1115384--1115468 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 20
1115374 AAGGAGAGGA
1115384 AAGAGAGAAAGAAGAAGAAG
1 AAGAGAGAAAGAAGAAGAAG
*
1115404 AAGAG-GAAAGGAGAAGAA-
1 AAGAGAGAAAGAAGAAGAAG
* * *
1115422 AA-AAAAAAAGAAGGGAAGGAG
1 AAGAGAGAAAGAA--GAAGAAG
*
1115443 AAGAGAAAAAACGAAGAAG-AG
1 AAGAG-AGAAA-GAAGAAGAAG
1115464 AAGAG
1 AAGAG
1115469 GGAAGGAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 7 0.13
19 12 0.23
20 10 0.19
21 9 0.17
22 5 0.10
23 5 0.10
24 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAAGAAGAAGAAG
Found at i:1115432 original size:37 final size:35
Alignment explanation
Indices: 1115366--1115434 Score: 84
Period size: 37 Copynumber: 1.9 Consensus size: 35
1115356 GAAAGAAAGA
* * * *
1115366 AAGAAAGGAAGGAGAGGAAAGAGAGAAAGAAGAAG
1 AAGAAAGGAAGGAGAAGAAAAAAAAAAAGAAGAAG
1115401 AAGAAGAGGAAAGGAGAAGAAAAAAAAAAAGAAG
1 AAGAA-AGG-AAGGAGAAGAAAAAAAAAAAGAAG
1115435 GGAAGGAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.18
36 3 0.11
37 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (35 bp):
AAGAAAGGAAGGAGAAGAAAAAAAAAAAGAAGAAG
Found at i:1115440 original size:26 final size:28
Alignment explanation
Indices: 1115378--1115489 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 28
1115368 GAAAGGAAGG
* *
1115378 AGAGGAAA-GAG-AGAAAGAAGAAGAAGA
1 AGAGGAAAGGAGAAGAAA-AAAAAAAAGA
1115405 AGAGGAAAGGAGAAGAAAAAAAAAAAGA
1 AGAGGAAAGGAGAAGAAAAAAAAAAAGA
**
1115433 AG-GG-AAGGAGAAGAGAAAAAACGAAGA
1 AGAGGAAAGGAGAAGA-AAAAAAAAAAGA
*
1115460 AGA-GAAGAGGGAAGGAAGGAAAAAAAAAAG
1 AGAGGAA-A-GG-A-GAAGAAAAAAAAAAAG
1115490 GTAATTTTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
26 10 0.14
27 23 0.33
28 14 0.20
29 6 0.09
30 2 0.03
31 10 0.14
32 4 0.06
ACGTcount: A:0.64, C:0.01, G:0.35, T:0.00
Consensus pattern (28 bp):
AGAGGAAAGGAGAAGAAAAAAAAAAAGA
Found at i:1116175 original size:63 final size:62
Alignment explanation
Indices: 1116100--1116221 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 62
1116090 AGGAAAAGAG
1116100 TTTTTTAGGGTTTTTTACCAAAATATTACAAAAAAATAAAAAAATACCAAAATATTATAAACT
1 TTTTTTAGGGTTTTTTACCAAAATATTACAAAAAAATAAAAAAA-ACCAAAATATTATAAACT
* * * * * *
1116163 TTTTTTCGGGTTTTTTACTAAATTATTATAAAAAAATAAAAATAACCACAATATTATAA
1 TTTTTTAGGGTTTTTTACCAAAATATTACAAAAAAATAAAAAAAACCAAAATATTATAA
1116222 TTTTATTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
62 14 0.26
63 39 0.74
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (62 bp):
TTTTTTAGGGTTTTTTACCAAAATATTACAAAAAAATAAAAAAAACCAAAATATTATAAACT
Found at i:1116265 original size:26 final size:27
Alignment explanation
Indices: 1116207--1116269 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
1116197 AATAAAAATA
*
1116207 ACCACAATATTATAATTTTATTTATTT
1 ACCAAAATATTATAATTTTATTTATTT
*
1116234 ATCAAAATATTATAATTTT-TTTATTT
1 ACCAAAATATTATAATTTTATTTATTT
1116260 ACCAAAATAT
1 ACCAAAATAT
1116270 ACCAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTATTTATTT
Found at i:1116732 original size:16 final size:15
Alignment explanation
Indices: 1116706--1116735 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1116696 ATACTGAAAT
1116706 AATATAAAATAATAA
1 AATATAAAATAATAA
1116721 AATATGAAAATAATA
1 AATAT-AAAATAATA
1116736 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:1120144 original size:63 final size:64
Alignment explanation
Indices: 1120022--1120152 Score: 187
Period size: 63 Copynumber: 2.1 Consensus size: 64
1120012 TTTGGTAAAT
*
1120022 AAAAAAGTTATAATATTTTGGTTATTTTTATTTTTATTTATAATAATTTAGTAAAAAACCCGAA
1 AAAAAAGTTATAATATTTTGGTTATTTTTATTTTTATTTATAATAATTTAGTAAAAAACCAGAA
* * *
1120086 AAAAAAGTTTATAATATTTTGG-TATTTTT-TTATTT-TTTGTAATATTTTGGTAAAAAACCAGA
1 AAAAAAG-TTATAATATTTTGGTTATTTTTATT-TTTATTTATAATAATTTAGTAAAAAACCAGA
1120148 A
64 A
1120149 AAAA
1 AAAA
1120153 CCCTTTCCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
63 30 0.49
64 17 0.28
65 14 0.23
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (64 bp):
AAAAAAGTTATAATATTTTGGTTATTTTTATTTTTATTTATAATAATTTAGTAAAAAACCAGAA
Done.