Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 3 of 213
Found at i:668501 original size:22 final size:22
Alignment explanation
Indices: 668476--668529 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
668466 ACGATAAACT
**
668476 AAATTGATTTGGATATATAAGA
1 AAATTGATTTAAATATATAAGA
* *
668498 AAATCGA-TTAAATATATAATA
1 AAATTGATTTAAATATATAAGA
668519 AAATCTGATTT
1 AAAT-TGATTT
668530 TGATGAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.60
22 8 0.32
23 2 0.08
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (22 bp):
AAATTGATTTAAATATATAAGA
Found at i:668514 original size:21 final size:22
Alignment explanation
Indices: 668488--668528 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
668478 ATTGATTTGG
668488 ATATATAAGAAAATC-GATTAA
1 ATATATAAGAAAATCTGATTAA
*
668509 ATATATAATAAAATCTGATT
1 ATATATAAGAAAATCTGATT
668529 TTGATGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATATAAGAAAATCTGATTAA
Found at i:668792 original size:20 final size:20
Alignment explanation
Indices: 668767--668808 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
668757 ATTGTCTGGA
*
668767 CATTTAGGTGGAGAATATGT
1 CATTTAGGTAGAGAATATGT
668787 CATTTAGGTAGAGAATATGT
1 CATTTAGGTAGAGAATATGT
668807 CA
1 CA
668809 ATTGTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (20 bp):
CATTTAGGTAGAGAATATGT
Found at i:669188 original size:17 final size:18
Alignment explanation
Indices: 669162--669207 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
669152 TTAGTATTTG
669162 AGTCTAATAC-TTTTTCT
1 AGTCTAATACGTTTTTCT
*
669179 AGTGTAATACGTGTTTTTCT
1 AGTCTAATAC--GTTTTTCT
669199 AGTCTAATA
1 AGTCTAATA
669208 TAATATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
20 15 0.62
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (18 bp):
AGTCTAATACGTTTTTCT
Found at i:677458 original size:13 final size:12
Alignment explanation
Indices: 677440--677473 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
677430 ACATAAATTC
677440 AAACAAATAAGGA
1 AAACAAAT-AGGA
677453 AAACAAATAGGA
1 AAACAAATAGGA
677465 ACAACAAAT
1 A-AACAAAT
677474 TAAAAAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.09
Consensus pattern (12 bp):
AAACAAATAGGA
Found at i:682677 original size:22 final size:22
Alignment explanation
Indices: 682651--682695 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
682641 TTACTATGAT
*
682651 TTTTAATTATTTTAATTTATTA
1 TTTTAATTATTTTAAATTATTA
* *
682673 TTTTATTTCTTTTAAATTATTA
1 TTTTAATTATTTTAAATTATTA
682695 T
1 T
682696 AGGAGCTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAATTATTTTAAATTATTA
Found at i:682862 original size:27 final size:28
Alignment explanation
Indices: 682811--682871 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
682801 ATTAAGCCTT
* * * *
682811 TTTTTTTTTTTGAATATTTTAATTATA-
1 TTTTTATTTTTGAAAATTCTAATTAAAC
*
682838 TTTTTATTTTTGAAAATTCTCATTAAAC
1 TTTTTATTTTTGAAAATTCTAATTAAAC
682866 TTTTTA
1 TTTTTA
682872 AAAATATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTATTTTTGAAAATTCTAATTAAAC
Found at i:687494 original size:16 final size:16
Alignment explanation
Indices: 687473--687503 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
687463 AATATTAGAG
687473 CACATAAATTTGAAAT
1 CACATAAATTTGAAAT
*
687489 CACATATATTTGAAA
1 CACATAAATTTGAAA
687504 ACTTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
CACATAAATTTGAAAT
Found at i:687671 original size:10 final size:9
Alignment explanation
Indices: 687641--687674 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
687631 AGATTTTTTT
687641 AATTTTATA
1 AATTTTATA
687650 AATTTTATA
1 AATTTTATA
*
687659 AATATTTAAA
1 AAT-TTTATA
687669 AATTTT
1 AATTTT
687675 CAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTTATA
Found at i:690148 original size:41 final size:41
Alignment explanation
Indices: 689938--690138 Score: 251
Period size: 41 Copynumber: 4.9 Consensus size: 41
689928 ATTTAAACAG
* * * * * *
689938 ATTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCA
1 ATTCACCGGCACTT-AGCCTGCTAGACGTATAGTCTGATTCA
* * * * *
689979 GTTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTCA
*
690020 GTTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTCA
* *
690061 ATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTCA
*
690102 ATTCACCGGCACTTAGCCTGCTAGACATATAGTCTGA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
690139 ATAATTTCAC
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 1 0.01
41 141 0.99
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTCA
Found at i:691681 original size:13 final size:13
Alignment explanation
Indices: 691663--691687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691653 CAATCAAATG
691663 CACACAAAATAAA
1 CACACAAAATAAA
691676 CACACAAAATAA
1 CACACAAAATAA
691688 TATTAATAAT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:691982 original size:29 final size:29
Alignment explanation
Indices: 691927--691984 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
691917 TTTAAAAATT
* * * **
691927 GAATTATATGAAAATTGAAAATTTTTAAA
1 GAATTAGATAAAAATTAAAAAAATTTAAA
691956 GAATTAGATAAAAATTAAAAAAATTTAAA
1 GAATTAGATAAAAATTAAAAAAATTTAAA
691985 AATAAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (29 bp):
GAATTAGATAAAAATTAAAAAAATTTAAA
Found at i:691993 original size:14 final size:14
Alignment explanation
Indices: 691974--692021 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
691964 TAAAAATTAA
691974 AAAAATTTAAAAAT
1 AAAAATTTAAAAAT
* *
691988 AAAAATATATAAAT
1 AAAAATTTAAAAAT
**
692002 ATGAATTTAAAAAT
1 AAAAATTTAAAAAT
*
692016 CAAAAT
1 AAAAAT
692022 ATTATATAAA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAAATTTAAAAAT
Found at i:692000 original size:16 final size:17
Alignment explanation
Indices: 691963--692000 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
691953 AAAGAATTAG
691963 ATAAAAATTAAAAAAAT
1 ATAAAAATTAAAAAAAT
* *
691980 TTAAAAA-TAAAAATAT
1 ATAAAAATTAAAAAAAT
691996 ATAAA
1 ATAAA
692001 TATGAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATTAAAAAAAT
Found at i:692244 original size:16 final size:16
Alignment explanation
Indices: 692162--692246 Score: 54
Period size: 16 Copynumber: 5.1 Consensus size: 16
692152 AAACTTTTCA
692162 ATTTTTATATAATATTT
1 ATTTTTATATAAT-TTT
692179 -TCATTTT-TA-AATTTAT
1 AT--TTTTATATAATTT-T
692195 ATATTTTA-A-AATTTT
1 AT-TTTTATATAATTTT
692210 CAGTTTTTATATAATATTTT
1 -A-TTTTTATAT-A-ATTTT
692230 ATTTTTATATAATTTT
1 ATTTTTATATAATTTT
692246 A
1 A
692247 AAAAAATCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
15 3 0.05
16 28 0.49
17 6 0.11
18 13 0.23
19 2 0.04
20 5 0.09
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (16 bp):
ATTTTTATATAATTTT
Found at i:692247 original size:44 final size:43
Alignment explanation
Indices: 692190--692275 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
692180 CATTTTTAAA
*** *
692190 TTTATATATTTTAAAATTTTCAGTTTTTA-TATAATATTTTATT
1 TTTATATATTTTAAAAAAATCAATTTTTATTA-AATATTTTATT
692233 TTTATATAATTTTAAAAAAATCAATTTTTATTAAATATTTTAT
1 TTTATAT-ATTTTAAAAAAATCAATTTTTATTAAATATTTTAT
692276 ATAACTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 7 0.19
44 28 0.76
45 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (43 bp):
TTTATATATTTTAAAAAAATCAATTTTTATTAAATATTTTATT
Found at i:692967 original size:34 final size:35
Alignment explanation
Indices: 692912--692978 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
692902 CAAACACCAG
*
692912 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
692947 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
692979 TATTTTACTG
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:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:697317 original size:18 final size:19
Alignment explanation
Indices: 697292--697340 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
697282 ATTTAAAAAA
*
697292 TATATTTTTTATATATTAT
1 TATATTTTTTAGATATTAT
*
697311 T-TATTTTTTAGATTTTAT
1 TATATTTTTTAGATATTAT
697329 TAATATTTTTTA
1 T-ATATTTTTTA
697341 ATTTTTAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 1 0.04
20 9 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TATATTTTTTAGATATTAT
Found at i:697325 original size:27 final size:27
Alignment explanation
Indices: 697295--697347 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
697285 TAAAAAATAT
*
697295 ATTTT-TTATATATTATTTATTTTTTAG
1 ATTTTATTA-ATATTATTTAATTTTTAG
*
697322 ATTTTATTAATATTTTTTAATTTTTA
1 ATTTTATTAATATTATTTAATTTTTA
697348 AGATGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTATTAATATTATTTAATTTTTAG
Found at i:697788 original size:15 final size:16
Alignment explanation
Indices: 697770--697799 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
697760 CTTTCTCTTC
697770 TTTTT-CTTTTTAATT
1 TTTTTCCTTTTTAATT
697785 TTTTTCCTTTTTAAT
1 TTTTTCCTTTTTAAT
697800 CGTGAGCTCT
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:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCCTTTTTAATT
Found at i:702402 original size:131 final size:131
Alignment explanation
Indices: 701944--702433 Score: 655
Period size: 132 Copynumber: 3.7 Consensus size: 131
701934 TCTGCAATTG
* * *
701944 CTTTTACCTGACTGCTAACTCATATAATTTTGCTCATCCTATCTCATATCAAGAATCATAGACCT
1 CTTTTACCTAACTGCTAACTCATATAATTTTGCTCATCCCATCTCGTATCAAGAATCATAGA-CT
* *
702009 -AGGATGTCTTTGTACTGCTTATATCGGTTAATATATCTGTATGTCACGAATCTGGGTTTTATCC
65 GCGGATGTCTTTGTACTGCTTATATCGGTTAATATACCTGTATGTCACGAATCTGGGTTTTAT--
702073 G-TT
128 GTTT
* * * *
702076 CTTTTACCTGACTGCTAACTC-TAATAATTTTGCTCGTCCCGTCTCGTATCAAGAATCATAGACC
1 CTTTTACCTAACTGCTAACTCAT-ATAATTTTGCTCATCCCATCTCGTATCAAGAATCATAGACT
* *
702140 ACGGATGTCTTTGTACTGCTTATATCGGTTAATATACCTGTATGTCAC-AATCTGGGTTTGATGT
65 GCGGATGTCTTTGTACTGCTTATATCGGTTAATATACCTGTATGTCACGAATCTGGGTTT--TAT
702204 GTTT
128 GTTT
* *
702208 CTTTTACCTAACTGCTAACTCGTATAATTTTGCTCATGCCATCTCGTATCAAGAATCATAGACTG
1 CTTTTACCTAACTGCTAACTCATATAATTTTGCTCATCCCATCTCGTATCAAGAATCATAGACTG
* * * *
702273 TGGATGTCTTTGTACTGCTCATATCAGTTAATATACCTGTATGTCACGAATCTTGGTTTTATGTT
66 CGGATGTCTTTGTACTGCTTATATCGGTTAATATACCTGTATGTCACGAATCTGGGTTTTATGTT
702338 T
131 T
* * * * **
702339 CTTTTACCTAACTGCTAACTCATATCATTTTGCTCGTCCCGTTTCGTATTGAGAATCATAGACTG
1 CTTTTACCTAACTGCTAACTCATATAATTTTGCTCATCCCATCTCGTATCAAGAATCATAGACTG
* * * *
702404 CAGATGCCTTTGTACTGCATATATCTGTTA
66 CGGATGTCTTTGTACTGCTTATATCGGTTA
702434 TTCAAAAAAT
Statistics
Matches: 318, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
131 101 0.32
132 204 0.64
133 13 0.04
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (131 bp):
CTTTTACCTAACTGCTAACTCATATAATTTTGCTCATCCCATCTCGTATCAAGAATCATAGACTG
CGGATGTCTTTGTACTGCTTATATCGGTTAATATACCTGTATGTCACGAATCTGGGTTTTATGTT
T
Found at i:709553 original size:318 final size:317
Alignment explanation
Indices: 708971--709598 Score: 954
Period size: 318 Copynumber: 2.0 Consensus size: 317
708961 TGCAACTGAA
* ** * **
708971 TTATCTAATCCGGAGGTAACTATAAGCCATTACTACAAAATGCTTAGATCACCATTATTTCGAAA
1 TTATCCAATCCGGAGAAAACTATAAGCCATTACTACAAAATGCTTAGATAACCAGCATTTCGAAA
* * *
709036 CTCATTTTTATTATCATACATCTGTTTAAGAACCAACCAAACTCAAATCATACACTCTAAATCTA
66 CTCATTTTTATTATCATACATCTATTTAAGAACCAACCAAACTCAAAGCATACACTCTAAACCTA
* * * *
709101 TGTTCACTTGGACTTGGGTACGAGTTTCAAATAAAGGTATGTGTTTGACACTGATATATTCAATT
131 TGTTCACTTGGACTCGGGTACGAGTTTCAAATAAAGGCATGTGTTTGACACAGATATATTCAAAT
* *
709166 TTTTTTCATGTACCTAGAGGATCTTTGAAAAGACATATCACCGCACGCATGTTCAGATATTGAGT
196 TTTTTTCATGTACCTAGAGGATCTTTGAAAAGACACATCACCGCACACATGTTCAGATATTGAGT
* ** *
709231 CTAAAACGGGTACTTCAAGCAAAACTGAGAGTCAGAGAAACTTAGCTCTAAACCACT
261 CTAAAACGGGTACTTAAAGCAAAACCAAGAATCAGAGAAACTTAGCTCTAAACCACT
* * *
709288 TTATCCAATCCGGAGAAAACTATAAGCCATTACTACGAAATTCTTAGATAACCAGCATTTTGAAA
1 TTATCCAATCCGGAGAAAACTATAAGCCATTACTACAAAATGCTTAGATAACCAGCATTTCGAAA
* *
709353 TTCATTTTTATTATCATACATCTATCTTGAGAACCAACCAAACTCAAAGCATACACTCTAAACCT
66 CTCATTTTTATTATCATACATCTAT-TTAAGAACCAACCAAACTCAAAGCATACACTCTAAACCT
* *
709418 ATGTTCACTTGGACTCGGGTATGAGTTTCAAATACAGGCATGTGTTTGA-ACAGATATATTCAAA
130 ATGTTCACTTGGACTCGGGTACGAGTTTCAAATAAAGGCATGTGTTTGACACAGATATATTCAAA
* *
709482 TTTTTTTCATGTACCTAGAAGGATCTTTGAAAA-ATCACATCACCGTACACATGTTCGGATATTG
195 TTTTTTTCATGTACCTAG-AGGATCTTTGAAAAGA-CACATCACCGCACACATGTTCAGATATTG
*
709546 AGTCTAAAACTGGTACTTAAAGCAAAACCAAGAATCAGAGAAACTTAGCTCTA
258 AGTCTAAAACGGGTACTTAAAGCAAAACCAAGAATCAGAGAAACTTAGCTCTA
709599 CTTTTGTAGA
Statistics
Matches: 279, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
317 111 0.40
318 168 0.60
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (317 bp):
TTATCCAATCCGGAGAAAACTATAAGCCATTACTACAAAATGCTTAGATAACCAGCATTTCGAAA
CTCATTTTTATTATCATACATCTATTTAAGAACCAACCAAACTCAAAGCATACACTCTAAACCTA
TGTTCACTTGGACTCGGGTACGAGTTTCAAATAAAGGCATGTGTTTGACACAGATATATTCAAAT
TTTTTTCATGTACCTAGAGGATCTTTGAAAAGACACATCACCGCACACATGTTCAGATATTGAGT
CTAAAACGGGTACTTAAAGCAAAACCAAGAATCAGAGAAACTTAGCTCTAAACCACT
Found at i:715466 original size:156 final size:164
Alignment explanation
Indices: 715169--715467 Score: 474
Period size: 164 Copynumber: 1.9 Consensus size: 164
715159 AAGCACCAAA
* **
715169 AAGTTTGAACTTTGAACATGACAACCCATATTTCTATAAACTATTTCCCTTTGGACAAGAAAATG
1 AAGTTTGAACTCTGAACATGACAACCCATATTTCTATAAACTATTTAACTTTGGACAAGAAAATG
715234 ACCTTCAGGCCTAATCTTGGAGTCAAGGTGGCTTCTAAAGTTAACGGTGAAAAATACACATGATA
66 ACCTTCAGGCCTAATCTTGGAGTCAAGGTGGCTTCTAAAGTTAACGGTGAAAAATACACATGATA
715299 AGAGCACTAAAATTAAAGCATATAAAAAAAAAAT
131 AGAGCACTAAAATTAAAGCATATAAAAAAAAAAT
*
715333 AAGTTTGAACTCTGAACATGACAACCTATATTTCTATAAACTATTTAACTTT-GA-AAGAAAATG
1 AAGTTTGAACTCTGAACATGACAACCCATATTTCTATAAACTATTTAACTTTGGACAAGAAAATG
715396 A-C-TCAGGCCTAATC-TGGAG-CAA-GTGGC-TC-AACAGTTAACGGTG-AAAATACACCATGA
66 ACCTTCAGGCCTAATCTTGGAGTCAAGGTGGCTTCTAA-AGTTAACGGTGAAAAATACA-CATGA
715453 TAAGAGCACTAAAAT
129 TAAGAGCACTAAAAT
715468 GTATTATGCT
Statistics
Matches: 129, Mismatches: 4, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
155 10 0.08
156 33 0.26
157 5 0.04
158 3 0.02
159 5 0.04
160 12 0.09
161 1 0.01
162 10 0.08
163 2 0.02
164 48 0.37
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (164 bp):
AAGTTTGAACTCTGAACATGACAACCCATATTTCTATAAACTATTTAACTTTGGACAAGAAAATG
ACCTTCAGGCCTAATCTTGGAGTCAAGGTGGCTTCTAAAGTTAACGGTGAAAAATACACATGATA
AGAGCACTAAAATTAAAGCATATAAAAAAAAAAT
Found at i:729054 original size:36 final size:35
Alignment explanation
Indices: 729014--729085 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
729004 AATAAATTTA
729014 GAACTTATTTTTACGTATAAATATATTTAAATAGAT
1 GAACTTA-TTTTACGTATAAATATATTTAAATAGAT
*
729050 GAACTTATTTTACGTATAAATGTATTTAAATAGAT
1 GAACTTATTTTACGTATAAATATATTTAAATAGAT
729085 G
1 G
729086 TAATTGATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (35 bp):
GAACTTATTTTACGTATAAATATATTTAAATAGAT
Found at i:733612 original size:22 final size:25
Alignment explanation
Indices: 733559--733614 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
733549 TTAAACTATG
733559 TATTATTTAAAAAAAAATTATAATT
1 TATTATTTAAAAAAAAATTATAATT
* *
733584 TAATATTTAAAAAAATATT-T-ATT
1 TATTATTTAAAAAAAAATTATAATT
733607 T-TTATTTA
1 TATTATTTA
733615 TTGAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 1 0.04
25 17 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTATTTAAAAAAAAATTATAATT
Found at i:740134 original size:46 final size:45
Alignment explanation
Indices: 740034--740359 Score: 386
Period size: 46 Copynumber: 7.6 Consensus size: 45
740024 TACATATGAT
* *
740034 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
740077 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
740123 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
740159 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
740205 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
740241 CACTTATCACTTTTTCACTTGATCATATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
740287 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
740333 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
740360 AGTATTCAAA
Statistics
Matches: 247, Mismatches: 13, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
36 56 0.23
38 5 0.02
39 1 0.00
40 5 0.02
41 2 0.01
42 5 0.02
43 11 0.04
44 10 0.04
45 20 0.08
46 132 0.53
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:740164 original size:36 final size:36
Alignment explanation
Indices: 740123--740323 Score: 159
Period size: 36 Copynumber: 5.0 Consensus size: 36
740113 CTAAGGCTAC
740123 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
*
740159 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T--AG
* * *
740201 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
* *
740241 CACTTATCACTTTTTCACTTGATCATATAAGTGTAGCTAATG
1 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T-A-G
*
740283 CTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
740323 C
1 C
740324 TAATGCTACC
Statistics
Matches: 134, Mismatches: 11, Indels: 40
0.72 0.06 0.22
Matches are distributed among these distances:
36 57 0.43
38 5 0.04
40 5 0.04
41 2 0.01
42 5 0.04
44 4 0.03
46 56 0.42
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
Found at i:740184 original size:82 final size:82
Alignment explanation
Indices: 740077--740323 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
740067 GCTAGGCTAC
* * *
740077 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
*
740142 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
* *
740159 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
740224 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
740241 CACTTATCACTTTTTCACTTGATCATATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
740306 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
740323 C
1 C
740324 TAATGCTACC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 155 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
TGATCAGATAAGTGTAG
Found at i:740226 original size:128 final size:123
Alignment explanation
Indices: 740123--740359 Score: 340
Period size: 128 Copynumber: 1.9 Consensus size: 123
740113 CTAAGGCTAC
*
740123 CACTTATCACTTTCTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTCTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
*
740183 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
* *
740241 CACTTATCACTTTTTCACTTGATCATATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACT
* *
740306 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
740360 AGTATTCAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
118 28 0.27
120 3 0.03
122 1 0.01
123 1 0.01
124 1 0.01
128 69 0.67
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (123 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:742026 original size:21 final size:21
Alignment explanation
Indices: 742002--742043 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
741992 CTTTTTGCTC
*
742002 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
742023 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
742044 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:746627 original size:23 final size:23
Alignment explanation
Indices: 746600--746697 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
746590 AGTGTTATTG
746600 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
746623 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
746646 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
746668 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
746691 ATCAGTG
1 ATCAGTG
746698 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:746666 original size:45 final size:45
Alignment explanation
Indices: 746602--746690 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
746592 TGTTATTGAT
* *
746602 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
746647 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
746691 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:753259 original size:18 final size:19
Alignment explanation
Indices: 753226--753264 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
753216 TTGTATAAAT
753226 TGTGAATTATATTTG-ATA
1 TGTGAATTATATTTGAATA
753244 TGTGAATTA-ATATTGAATA
1 TGTGAATTATAT-TTGAATA
753263 TG
1 TG
753265 GAAGGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (19 bp):
TGTGAATTATATTTGAATA
Found at i:753517 original size:23 final size:23
Alignment explanation
Indices: 753490--753587 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
753480 AGTGTTATTG
753490 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
753513 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
753536 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
753558 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
753581 ATCAGTG
1 ATCAGTG
753588 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:753556 original size:45 final size:45
Alignment explanation
Indices: 753492--753580 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
753482 TGTTATTGAT
* *
753492 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
753537 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
753581 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:755275 original size:45 final size:45
Alignment explanation
Indices: 755206--755394 Score: 264
Period size: 45 Copynumber: 4.3 Consensus size: 45
755196 ATGTGCCGAC
*
755206 TACTATTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
755251 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
* *
755296 TACTGTTACTGTTATCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
* * *
755341 TACTGTTAC----A--GATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
* *
755380 TACTGCTACCGTTAC
1 TACTGTTACTGTTAC
755395 TGATTACTGT
Statistics
Matches: 133, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
39 35 0.26
41 1 0.01
43 1 0.01
45 96 0.72
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (45 bp):
TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
Found at i:758071 original size:48 final size:48
Alignment explanation
Indices: 758002--758098 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
757992 CAATCATGAA
* * *
758002 CCCCAAATATAAACAGGTTTCTAATGATAGAGTCGTCAATCACTTGCG
1 CCCCAAATATAAACAGCTTTCTAAGGATAGAGTCATCAATCACTTGCG
* * *
758050 CCCCAAATATGAAC-GACTTTCTAAGGATAGAGTCATTAATCATTTGCG
1 CCCCAAATATAAACAG-CTTTCTAAGGATAGAGTCATCAATCACTTGCG
758098 C
1 C
758099 TTGGTTGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (48 bp):
CCCCAAATATAAACAGCTTTCTAAGGATAGAGTCATCAATCACTTGCG
Found at i:760343 original size:57 final size:57
Alignment explanation
Indices: 760277--760387 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
760267 TCGGACATAA
* *
760277 CGAGTTCTGGGGATGCCGTCTCATCCTCATTTTGTTCTACCACAAATTGGATTGCTC
1 CGAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTGCTC
*
760334 CGAGTTCTGGGGATGCCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTG
1 CGAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTG
760388 AGAGCAACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (57 bp):
CGAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTGCTC
Found at i:761928 original size:46 final size:46
Alignment explanation
Indices: 761850--761964 Score: 191
Period size: 46 Copynumber: 2.5 Consensus size: 46
761840 TCACTTTGTC
761850 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCT
761894 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
761940 ACCACTTATCACTTTATCACTTGAT
1 ACCACTTATCACTTTGTCACTTGAT
761965 ATCACCTTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
44 14 0.21
45 4 0.06
46 49 0.73
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:761969 original size:18 final size:18
Alignment explanation
Indices: 761946--761982 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
761936 AGCTACCACT
*
761946 TATCACTTTATCACTTGA
1 TATCACCTTATCACTTGA
761964 TATCACCTTATCACTTGA
1 TATCACCTTATCACTTGA
761982 T
1 T
761983 CAGAAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (18 bp):
TATCACCTTATCACTTGA
Found at i:766059 original size:102 final size:102
Alignment explanation
Indices: 765944--766148 Score: 392
Period size: 102 Copynumber: 2.0 Consensus size: 102
765934 CTGACATCTC
765944 ATTTAACAATTAACTTAACAATTTTAGTAGGGGAAGGACCTTATTTATATAAAACCAATAGTTTA
1 ATTTAACAATTAACTTAACAATTTTAGTAGGGGAAGGACCTTATTTATATAAAACCAATAGTTTA
766009 AGGATAAAATTAAAATATTTTAAAGTTTATAAAAATA
66 AGGATAAAATTAAAATATTTTAAAGTTTATAAAAATA
*
766046 ATTTAACAATTAACTTAACAATTTTAGTATGGGAAGGACCTTATTTATATAAAACCAATAGTTTA
1 ATTTAACAATTAACTTAACAATTTTAGTAGGGGAAGGACCTTATTTATATAAAACCAATAGTTTA
*
766111 AGGATAAAATTAGAATATTTTAAAGTTTATAAAAATA
66 AGGATAAAATTAAAATATTTTAAAGTTTATAAAAATA
766148 A
1 A
766149 ATGAATATGG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (102 bp):
ATTTAACAATTAACTTAACAATTTTAGTAGGGGAAGGACCTTATTTATATAAAACCAATAGTTTA
AGGATAAAATTAAAATATTTTAAAGTTTATAAAAATA
Found at i:767115 original size:56 final size:57
Alignment explanation
Indices: 767053--767161 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
767043 CAGACATAAT
*
767053 GAGTTCT-GGGATGCCGGCTCATCCTCATTTTGTCCTACCACAAATTGGATTGCTTC
1 GAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTGCTTC
* *
767109 GAGTTCTGGGGATGTCGCCTCATCCTCGTTTTGTCCTACCACAAATTGGATTG
1 GAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTG
767162 AGAGCAACAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 7 0.14
57 42 0.86
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (57 bp):
GAGTTCTGGGGATGCCGCCTCATCCTCATTTTGTCCTACCACAAATTGGATTGCTTC
Found at i:768130 original size:5 final size:5
Alignment explanation
Indices: 768107--768145 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
768097 AAAAGTTAAG
*
768107 TATA- TATAT TAT-C TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
768146 TGTTGACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:768888 original size:109 final size:109
Alignment explanation
Indices: 768461--768869 Score: 648
Period size: 109 Copynumber: 3.8 Consensus size: 109
768451 ATGGCATGGA
* * ** *
768461 TTAAAATTC--AAAAGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTA
1 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
* * *
768522 GGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCTTTATT
66 GGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * * * *
768565 TTGAAATTTTTGAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAAATCAACACCCAGCACCTT
1 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAG-AAAAATCGACACCCAGCACCTT
*
768630 AGGACATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
65 AGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
768675 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
1 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
768740 GGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
66 GGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
768784 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
1 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
768849 GGGCATGTTTTCTCGAATTTC
66 GGGCATGTTTTCTCGAATTTC
768870 GAAATGCTAA
Statistics
Matches: 281, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
104 7 0.02
106 27 0.10
109 175 0.62
110 72 0.26
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (109 bp):
TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
GGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
Found at i:768888 original size:218 final size:214
Alignment explanation
Indices: 768461--768869 Score: 640
Period size: 219 Copynumber: 1.9 Consensus size: 214
768451 ATGGCATGGA
* *
768461 TTAAAATTCAAAAGGATATTTGGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGC
1 TTAAAATTCAAAAGGATATTTAGCAATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGC
* * * *
768526 ACGTTCCTCGAATTTCCAAACGCAAAACATTGCTTTATTTTGAAATTTTTGAAAGGATATTTAGC
66 ACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTCTTAAAAGGATATTTAGC
*
768591 TATTTGGTTGAACGAGAAAAAATCAACACCCAGCACCTTAGGACATGTTTTCTCGAATTTCCAAA
131 TATTTGGTCGAACGAGAAAAAATCAACACCCAGCACCTTAGGACATGTTTTCTCGAATTTCCAAA
768656 CGCAAAACATTGCCTTATT
196 CGCAAAACATTGCCTTATT
* * *
768675 TTAAAATTCTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTA
1 TTAAAATTC--AAAAGGATATTTAGCAATTTGGTCAAACGAG--AAATCGAAACCCAGCACCTTA
* *
768740 GGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTCTTAAAAGGATAT
62 GGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTCTTAAAAGGATAT
* *
768805 TTAGCTATTTGGTCGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT
126 TTAGCTATTTGGTCGAACGAGAAAAAATCAACACCCAGCACCTTAGGACATGTTTTCTCGAATTT
768869 C
191 C
768870 GAAATGCTAA
Statistics
Matches: 176, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
214 9 0.05
216 27 0.15
218 68 0.39
219 72 0.41
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (214 bp):
TTAAAATTCAAAAGGATATTTAGCAATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGC
ACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTCTTAAAAGGATATTTAGC
TATTTGGTCGAACGAGAAAAAATCAACACCCAGCACCTTAGGACATGTTTTCTCGAATTTCCAAA
CGCAAAACATTGCCTTATT
Found at i:769383 original size:3 final size:3
Alignment explanation
Indices: 769352--769416 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
769342 TAATGGAAAT
* * * * *
769352 ATA ATG ATA GTA ATA ATA TTA ATA TTA ATA ATA ATA GTA A-A GATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
769397 ACA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
769417 GTTAAGAATA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:770672 original size:5 final size:5
Alignment explanation
Indices: 770662--770694 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
770652 GGCTTGTGTA
770662 ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
770695 AAAGAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:771687 original size:22 final size:22
Alignment explanation
Indices: 771661--771718 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
771651 CTCTAATTAC
* *
771661 TAGCACGTTAGTGCTCTACGTT
1 TAGCACATTAGTGCTCTACGTA
* **
771683 TAGCACATTTGTGCTCTTTGTA
1 TAGCACATTAGTGCTCTACGTA
*
771705 TAGCACTTTAGTGC
1 TAGCACATTAGTGC
771719 CCTCTGTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTACGTA
Found at i:777095 original size:55 final size:54
Alignment explanation
Indices: 777011--777125 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 54
777001 ATGAAGGATG
*
777011 CACCATTAGTCCATCAAACTACGCTGCACATGAAGGTAAGCTTTATTGCAAACAT
1 CACCATTAGTCCATCAAACTACGCTGCACATGAAGG-AAGCTTTACTGCAAACAT
**
777066 CACCATTAGTCCATCAAACTACGCTGCACATGAAGGAAGCTTTACTGCAAGTAT
1 CACCATTAGTCCATCAAACTACGCTGCACATGAAGGAAGCTTTACTGCAAACAT
777120 CACCAT
1 CACCAT
777126 GTCCAGCTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 21 0.37
55 36 0.63
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (54 bp):
CACCATTAGTCCATCAAACTACGCTGCACATGAAGGAAGCTTTACTGCAAACAT
Found at i:784089 original size:120 final size:121
Alignment explanation
Indices: 783865--784166 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
783855 TTTAGCCCCC
* ** *
783865 AAAATAATATCTGTTCTCGTGATTGTTCAAAGTTTGTGCATTACTCCTCTTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
**
783930 GATTGCAGGGAGGCATTGTAACCTGAAGTTGCATATTTTT-CATTGTTGGTAGAAT
66 GATTGCAGCAAGGCATTGTAACCTGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
* * *
783985 AAGATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTACTCCTCCTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
* *
784050 GATTGCAGCAAGGCATTGTAACCTGAAGTTGCATTTTTTTCCGTTGTTGGTAGAAT
66 GATTGCAGCAAGGCATTGTAACCTGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
* * * *
784106 AAAATGGTATGTGTTCTCGTGATTGTTCAAAGGCTGTGCATTAATCCTCCTATTCCGAACA
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACA
784167 TAGAGGTTGT
Statistics
Matches: 163, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
120 95 0.58
121 68 0.42
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (121 bp):
AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
GATTGCAGCAAGGCATTGTAACCTGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
Found at i:810701 original size:9 final size:9
Alignment explanation
Indices: 810687--810751 Score: 103
Period size: 9 Copynumber: 7.2 Consensus size: 9
810677 TTTGGTTAAA
*
810687 AATTACCCG
1 AATTAACCG
*
810696 AATTACCCG
1 AATTAACCG
*
810705 AATTACCCG
1 AATTAACCG
810714 AATTAACCG
1 AATTAACCG
810723 AATTAACCG
1 AATTAACCG
810732 AATTAACCG
1 AATTAACCG
810741 AATTAACCG
1 AATTAACCG
810750 AA
1 AA
810752 AAATACCCGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:813419 original size:16 final size:18
Alignment explanation
Indices: 813386--813432 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
813376 ACCGATTTAA
*
813386 AATAAATATATT-ATGAT
1 AATAAATATATTAAAGAT
813403 AA-AAAT-TATTAAAGAT
1 AATAAATATATTAAAGAT
813419 AATAAATATATTAA
1 AATAAATATATTAA
813433 TATATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
17 6 0.23
18 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
AATAAATATATTAAAGAT
Found at i:813933 original size:2 final size:2
Alignment explanation
Indices: 813926--813953 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
813916 CTCATGTTTG
813926 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
813954 GTATTCGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:817543 original size:20 final size:19
Alignment explanation
Indices: 817501--817543 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
817491 GTCCCTTTTC
*
817501 AAAACAAATAAATTATTAA
1 AAAACAAATAAATTAATAA
817520 AAAACAGAATAAA-TAATAA
1 AAAACA-AATAAATTAATAA
817539 TAAAA
1 -AAAA
817544 TCTCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAACAAATAAATTAATAA
Found at i:820043 original size:376 final size:375
Alignment explanation
Indices: 819291--820135 Score: 1016
Period size: 376 Copynumber: 2.2 Consensus size: 375
819281 ATATTAAACC
** * * * * *
819291 AAAATTTAATGTTAAAAAGGCAAATTTTGAATTACAAATTTCTAGGAGAGGTCAAAAATGAAATT
1 AAAATTTAATGTTAAAAAGGCAAAACTTAAATTACAAATTTTTAGAAGGGGCCAAAAATGAAATT
* *
819356 TCACCATTTTATC-CAAGGTGCCAAATCCAAAGCCTCTGCCCTCTGGTCCCTTTGGAGTTTGGAT
66 TCACCATTTTATCTC---GTACCAAATCCAAAG---CT----TCT-ATCCC--T----TTTGGAT
* * * *
819420 TGGCCCTTTCTCTATCCTATTTTTTTCCGACTTGTTTTCGGACATGGCGTATGAGATATGATCGG
114 TGGCCCTTTCTCCATCCTATTTTTTTCCGACCTGTTTTCGGACATGGCGTACGAGATATGATCAG
* *
819485 TCAAATTATGATCTTGGTCCTTCTTATTATACTTAAATTTGATATTTAGTCTTTATACTTTAAAT
179 TCAAATTACGATCTTGGTCCTTCTTATTATACTCAAATTTGATATTTAGTCTTTATACTTTAAAT
* * * * * * **
819550 TGATATTATTGGTTTTTCTTCTTTTATAATATCATTTGTCGGTTCAAATCATTAACTATTTTGAT
244 TGATATAATTGATTTTTCTACGTTTATAATATCATTGGTCAGTTCAAATCATTAACTATTCCGAT
* * * **
819615 TAAAATATTACGATAAATATTTTATTGGGAGTCGAGGTAAAAATATAAATTCAACAGGCTGAAGC
309 TAAAACATTACGATAAATAATTTATTGGGAGTCAAGGTAAAAATATAAATTCAACAGGCCAAAGC
819680 TA
374 TA
* * * *
819682 AAAATTTAGTGTT-AAATGGCAAAA-TCTGAATTACAAATTTTTA-AGAGGGGCCAAAAATGAAT
1 AAAATTTAATGTTAAAAAGGCAAAACT-TAAATTACAAATTTTTAGA-AGGGGCCAAAAATGAAA
*
819744 TTTCACCATTTTATCTCGTACCAAATCCAAAGCTTCTATCCCTTTTGGATTTGCCCTTTCTCCAT
64 TTTCACCATTTTATCTCGTACCAAATCCAAAGCTTCTATCCCTTTTGGATTGGCCCTTTCTCCAT
* ** * * *
819809 CCTGTTTTTTGTTTGACCTGTTTTGGGACATGGGGTACGAGATATGATCAGTCAAATTACGGTCT
129 CCTATTTTTT-TCCGACCTGTTTTCGGACATGGCGTACGAGATATGATCAGTCAAATTACGATCT
* *
819874 TGGTCCTTCTTATTGTACTCAAATTTGATATTTAGTCTTTATACTTTAATTTGATATAATTTGAT
193 TGGTCCTTCTTATTATACTCAAATTTGATATTTAGTCTTTATACTTTAAATTGATATAA-TTGAT
** *
819939 CTTTT-TACGTTTATAATATTGTTGGTTAGTTCAAATCATTAACTATTCCGATTAAAACATTACG
257 -TTTTCTACGTTTATAATATCATTGGTCAGTTCAAATCATTAACTATTCCGATTAAAACATTACG
* *
820003 ATAAATAATTTATTGGGAGTCAAGGTAAATATATAAATTCAACTGGCCAAAGCTA
321 ATAAATAATTTATTGGGAGTCAAGGTAAAAATATAAATTCAACAGGCCAAAGCTA
* *
820058 AAAATTTAATGTTAAAAAGGTAAAACTTAAATTATAAATTTTTAGAAGGGGCCAAAAATGAAATT
1 AAAATTTAATGTTAAAAAGGCAAAACTTAAATTACAAATTTTTAGAAGGGGCCAAAAATGAAATT
*
820123 TCACTATTTTATC
66 TCACCATTTTATC
820136 CAGATGCCAA
Statistics
Matches: 395, Mismatches: 50, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
374 29 0.07
375 100 0.25
376 114 0.29
377 58 0.15
378 3 0.01
380 4 0.01
381 3 0.01
385 2 0.01
388 14 0.04
389 1 0.00
390 54 0.14
391 13 0.03
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (375 bp):
AAAATTTAATGTTAAAAAGGCAAAACTTAAATTACAAATTTTTAGAAGGGGCCAAAAATGAAATT
TCACCATTTTATCTCGTACCAAATCCAAAGCTTCTATCCCTTTTGGATTGGCCCTTTCTCCATCC
TATTTTTTTCCGACCTGTTTTCGGACATGGCGTACGAGATATGATCAGTCAAATTACGATCTTGG
TCCTTCTTATTATACTCAAATTTGATATTTAGTCTTTATACTTTAAATTGATATAATTGATTTTT
CTACGTTTATAATATCATTGGTCAGTTCAAATCATTAACTATTCCGATTAAAACATTACGATAAA
TAATTTATTGGGAGTCAAGGTAAAAATATAAATTCAACAGGCCAAAGCTA
Found at i:820676 original size:18 final size:17
Alignment explanation
Indices: 820649--820683 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
820639 CTAACTACAA
*
820649 TTATATTCATAAATTAAT
1 TTATAATCAT-AATTAAT
820667 TTATAATCATAATTAAT
1 TTATAATCATAATTAAT
820684 ATAACTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAATCATAATTAAT
Found at i:823453 original size:23 final size:21
Alignment explanation
Indices: 823416--823457 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
823406 AAATGGTCAC
823416 AAAGAAAAGCAAAACTACAAA
1 AAAGAAAAGCAAAACTACAAA
823437 AAAGAAGAAGACAAAACTACA
1 AAAGAA-AAG-CAAAACTACA
823458 TAATGTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.69, C:0.14, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGCAAAACTACAAA
Found at i:823928 original size:24 final size:23
Alignment explanation
Indices: 823901--823946 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
823891 TTTTATTTAT
823901 ATATTCAAATTAAATTTTTAAAAA
1 ATATT-AAATTAAATTTTTAAAAA
*
823925 ATATTATATTAAATTTTTAAAA
1 ATATTAAATTAAATTTTTAAAA
823947 GTTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTAAATTAAATTTTTAAAAA
Found at i:842192 original size:20 final size:21
Alignment explanation
Indices: 842147--842194 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
842137 AACAAAAAAA
*
842147 TATAAAAAAATCAAAATGGTT
1 TATAAAAAAATCAAAATGATT
* *
842168 T-TAAAATATTCAAAAT-ATT
1 TATAAAAAAATCAAAATGATT
842187 TATAAAAA
1 TATAAAAA
842195 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
TATAAAAAAATCAAAATGATT
Found at i:842226 original size:35 final size:36
Alignment explanation
Indices: 842169--842238 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
842159 AAAATGGTTT
*
842169 TAAAATATTCAAAATATTTATAAAAA-TAAAAAAAA
1 TAAAATATTCAAAATATATATAAAAAGTAAAAAAAA
* *
842204 TAAAA-ATTCTAAATAATATATAAAAAGTTAAAAAA
1 TAAAATATTCAAAAT-ATATATAAAAAGTAAAAAAA
842239 TTCCAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 8 0.27
35 15 0.50
36 7 0.23
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (36 bp):
TAAAATATTCAAAATATATATAAAAAGTAAAAAAAA
Found at i:843946 original size:31 final size:29
Alignment explanation
Indices: 843876--843947 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
843866 GACTCTGGTT
* *
843876 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
843905 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
843936 ACATTTTAGTCA
1 ACATTTTAGTCA
843948 TTGAGCCGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 2 0.06
31 14 0.40
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:844571 original size:31 final size:29
Alignment explanation
Indices: 844507--844574 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
844497 ACGATAACGT
* *
844507 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
844536 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
844567 AAGTGACT
1 AAGTGACT
844575 GTTTTGATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.55
31 15 0.45
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:848874 original size:22 final size:23
Alignment explanation
Indices: 848844--848889 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
848834 TGGCTGGCTT
* *
848844 GAAACTTTATGACTCAGAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
*
848867 GAAA-TTTAGGATTCAAAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
848889 G
1 G
848890 TTTGAGGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (23 bp):
GAAACTTTAGGACTCAAAGTTGA
Found at i:856511 original size:82 final size:76
Alignment explanation
Indices: 856395--856547 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 76
856385 TCATATATCG
*
856395 ATTAGTTCTTGTTTAATCGATCAATCCAAGTCGATTCCAACGACTATGAAAAATAGAACTTGAAG
1 ATTAGTTCTTGTTTAATCGATCAATACAAGTCGATTCC-A--AC-A--AAAAATAGAACTTGAAG
856460 AGTTATGCCACTCATTT
60 AGTTATGCCACTCATTT
* * * *
856477 ATTAGTTCTTGTTTGATTGATCAATATAATTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
1 ATTAGTTCTTGTTTAATCGATCAATACAAGTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
*
856542 GTCACT
66 GCCACT
856548 TGGCTCAACC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 28 0.43
78 1 0.02
79 2 0.03
81 1 0.02
82 33 0.51
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (76 bp):
ATTAGTTCTTGTTTAATCGATCAATACAAGTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
GCCACTCATTT
Found at i:857682 original size:33 final size:33
Alignment explanation
Indices: 857640--857705 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
857630 CATATTTGTT
*
857640 GGCCGGAGCCTATACGGCCTAGCCAGATTAATC
1 GGCCGGAGCCTATACGGCCGAGCCAGATTAATC
* * * *
857673 GGCCTGAGCCTATTCGGGCGAGCCAGGTTAATC
1 GGCCGGAGCCTATACGGCCGAGCCAGATTAATC
857706 AGCCAGGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.20
Consensus pattern (33 bp):
GGCCGGAGCCTATACGGCCGAGCCAGATTAATC
Found at i:857935 original size:78 final size:78
Alignment explanation
Indices: 857842--858076 Score: 380
Period size: 78 Copynumber: 3.0 Consensus size: 78
857832 GTCGGGCAGA
* **
857842 GCCAACTAGTGTGACTCAGAAAACCAATTTAACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
*
857907 CGGCATTCTGGAC
66 CGGCTTTCTGGAC
*
857920 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTATTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
857985 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
* * * * *
857998 ACCAACTAGTGTGACTCAGAAAACAAATTCGGCTCGTCCTAATCAAGCTACTGAGTCGGAAGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
858063 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
858076 G
1 G
858077 GCATGTCCGT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 145 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (78 bp):
GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
CGGCTTTCTGGAC
Found at i:861151 original size:41 final size:41
Alignment explanation
Indices: 861083--861179 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
861073 TGACTAAAAC
* *
861083 ATAAATATATTATATAGTACACTTAGATTTGTATGCCTGTG
1 ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
** *
861124 ATAGGTATCTCATATAGTACACTTAGATTTGTATGCTTGTG
1 ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
861165 ATAAATATCTCATAT
1 ATAAATATCTCATAT
861180 GGTAAGAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (41 bp):
ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
Found at i:867018 original size:24 final size:24
Alignment explanation
Indices: 866971--867019 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
866961 AATTTGGTAA
* * * *
866971 TATTTTTTAATTTGATTTTTAAAT
1 TATTTTTTAAGTTAATCTTAAAAT
866995 TATTTTTTAAGTTAATCTTAAAAT
1 TATTTTTTAAGTTAATCTTAAAAT
867019 T
1 T
867020 TGATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATTTTTTAAGTTAATCTTAAAAT
Found at i:867140 original size:20 final size:20
Alignment explanation
Indices: 867098--867140 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
867088 AAAACTTTTA
*
867098 AAAAATTATATATAAAATCT
1 AAAAATTATATATAAAATAT
*
867118 AAAAATTATGTA-AAAATTAT
1 AAAAATTATATATAAAA-TAT
867138 AAA
1 AAA
867141 TTTTTAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATATATAAAATAT
Found at i:868810 original size:60 final size:60
Alignment explanation
Indices: 868733--868846 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
868723 GATGAAATTT
* *
868733 GGGTTTGAAACTAAAAGCTTATTTGAGTTAGTAAGCGAAAGGTGCGAGTCCTTTCCATTC
1 GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTTCCATTC
* ** *
868793 GGGTTTGAAACTGAAAGCTCATTTGAGTTAGTAATTGAAAGGTTCAAGTCCTTT
1 GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTT
868847 TTGATTGTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (60 bp):
GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTTCCATTC
Found at i:872622 original size:6 final size:6
Alignment explanation
Indices: 872613--872650 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
872603 TAGTAGGAGT
* *
872613 AGTAGG AGTAGG AGTAGG AGTAGG AGCAGG AGCAGG AG
1 AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AG
872651 CTGCTGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.50, T:0.11
Consensus pattern (6 bp):
AGTAGG
Found at i:878367 original size:31 final size:31
Alignment explanation
Indices: 878327--878388 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
878317 AAAAAAAAAA
*
878327 CTCAGTGACTTAAATAAAAAAATTCAAATAG
1 CTCAATGACTTAAATAAAAAAATTCAAATAG
* **
878358 CTCAATGACTTAAATGAAAATTTTCAAATAG
1 CTCAATGACTTAAATAAAAAAATTCAAATAG
878389 TTTAATGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (31 bp):
CTCAATGACTTAAATAAAAAAATTCAAATAG
Found at i:885746 original size:29 final size:29
Alignment explanation
Indices: 885680--885746 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
885670 TTGTTTCCAG
885680 TCACCCAACTATGAAAAGTTACAAAATGA
1 TCACCCAACTATGAAAAGTTACAAAATGA
** *
885709 TCATTCAACTATGTAAAGTTACAAGAA-GA
1 TCACCCAACTATGAAAAGTTACAA-AATGA
885738 TCACCCAAC
1 TCACCCAAC
885747 GGTTCAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.22
Consensus pattern (29 bp):
TCACCCAACTATGAAAAGTTACAAAATGA
Found at i:892264 original size:18 final size:18
Alignment explanation
Indices: 892241--892283 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
892231 GAATAGGTTT
892241 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
892259 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
892277 TTAATTA
1 TTAATTA
892284 CAACTTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:896838 original size:6 final size:6
Alignment explanation
Indices: 896827--896871 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
896817 AGAGAGTATA
*
896827 TATATG TATATGTG TTTATG TATATG TATATG TATATG TATATG T
1 TATATG TATA--TG TATATG TATATG TATATG TATATG TATATG T
896872 GTTTTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 30 0.86
8 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (6 bp):
TATATG
Found at i:897186 original size:3 final size:3
Alignment explanation
Indices: 897172--897208 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
897162 ATTGTTTCTT
* *
897172 TTG TTC TTG TTG TTG TTG TTG TTC TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
897209 GTCTGTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.05, G:0.27, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:897208 original size:9 final size:9
Alignment explanation
Indices: 897167--897208 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
897157 TTTTGATTGT
897167 TTCTT-TTG
1 TTCTTGTTG
897175 TTCTTGTTG
1 TTCTTGTTG
*
897184 TTGTTGTTG
1 TTCTTGTTG
897193 TTCTTGTTG
1 TTCTTGTTG
*
897202 TTGTTGT
1 TTCTTGT
897209 GTCTGTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.00, C:0.07, G:0.24, T:0.69
Consensus pattern (9 bp):
TTCTTGTTG
Found at i:903870 original size:92 final size:90
Alignment explanation
Indices: 903675--903996 Score: 316
Period size: 90 Copynumber: 3.6 Consensus size: 90
903665 AAAGTTAATG
* * * * *
903675 CCCTAATATGGAAACAATTGA-CAAGCTCAAGGACTAACTTT-G-ACAAAAAAAGTTCATGCCTC
1 CCCT-ATATGGGAACAATT-ACCAAGTTCATGGACTAA-TTTAGAAAAAAAAAAGTTCAAGCCTC
* * *
903737 AATGTGAGAACCATTGCCTTGTTAAGGC
63 AATGTGAGAACAATTGCCTAGTTTAGGC
**
903765 CCCTATATGGGAACAATTGTCAAGTTC--GGAGGCTAATTTAGACAAAAAAGAAAGTTCAAGCCT
1 CCCTATATGGGAACAATTACCAAGTTCATGGA--CTAATTTAGA-AAAAAA-AAAGTTCAAGCCT
* *
903828 CAATGTGTGAACAATTGCCTAGTTTAGGT
62 CAATGTGAGAACAATTGCCTAGTTTAGGC
* *
903857 CCC-AGTATTGGAACAATTACCAAGTTCATGGACTAATTTAGATAAAAAAAAGTTCAAG-CTCCA
1 CCCTA-TATGGGAACAATTACCAAGTTCATGGACTAATTTAGAAAAAAAAAAGTTCAAGCCT-CA
*
903920 ATGTGAAAACAATTGCCTAGTTTAGGC
64 ATGTGAGAACAATTGCCTAGTTTAGGC
* * * * * * *
903947 CTCAATACGGGAACAATTACCAAGTTTAAGAACTAATTTAGACAAAAAAA
1 CCCTATATGGGAACAATTACCAAGTTCATGGACTAATTTAGAAAAAAAAA
903997 TTATTCAAAC
Statistics
Matches: 196, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
87 3 0.02
88 3 0.02
89 26 0.13
90 81 0.41
91 12 0.06
92 68 0.35
94 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (90 bp):
CCCTATATGGGAACAATTACCAAGTTCATGGACTAATTTAGAAAAAAAAAAGTTCAAGCCTCAAT
GTGAGAACAATTGCCTAGTTTAGGC
Found at i:907677 original size:7 final size:7
Alignment explanation
Indices: 907665--907690 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
907655 CTCAATCGAC
907665 TTAAATT
1 TTAAATT
907672 TTAAATT
1 TTAAATT
907679 TTAAATT
1 TTAAATT
907686 TTAAA
1 TTAAA
907691 AGAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:910534 original size:11 final size:11
Alignment explanation
Indices: 910520--910558 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
910510 TTGTTTTGCC
910520 ATTATTTTGTT
1 ATTATTTTGTT
*
910531 ATTATATTGTT
1 ATTATTTTGTT
*
910542 ACTATTTTGTT
1 ATTATTTTGTT
910553 ATTATT
1 ATTATT
910559 ATTTGAATGT
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:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (11 bp):
ATTATTTTGTT
Found at i:918839 original size:3 final size:3
Alignment explanation
Indices: 918831--918856 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
918821 GATTTCGGTA
918831 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
918857 AAAGTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:921697 original size:28 final size:27
Alignment explanation
Indices: 921637--921735 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 27
921627 TTAATAAGTA
*
921637 CGCACACTTAGTGCTTAAT-AATCAAACT
1 CGCACACTTAGTGCTT--TCAATTAAACT
* ** *
921665 TGCACACTTAGTGCTTTACCCTTATACT
1 CGCACACTTAGTGCTTT-CAATTAAACT
921693 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTTCAATTAAACT
*
921721 CGCACATTTAGTGCT
1 CGCACACTTAGTGCT
921736 AATCTCATTA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 53 0.91
29 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (27 bp):
CGCACACTTAGTGCTTTCAATTAAACT
Found at i:923531 original size:31 final size:31
Alignment explanation
Indices: 923493--923556 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
923483 ATTTCTTCAA
923493 ATGTGTACAATTAAA-T-CAAAATTAAAGTTTC
1 ATGTGTACAATTAAACTGC--AATTAAAGTTTC
*
923524 ATGTGTACATTTAAACTGCAATTAAAGTTTC
1 ATGTGTACAATTAAACTGCAATTAAAGTTTC
923555 AT
1 AT
923557 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 28 0.93
32 1 0.03
33 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (31 bp):
ATGTGTACAATTAAACTGCAATTAAAGTTTC
Found at i:925692 original size:31 final size:29
Alignment explanation
Indices: 925651--925718 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
925641 ACCTAAAAAA
925651 GCCATTTTTTTTCAAAATTTACCGAAATGG
1 GCCATTTTTTTT-AAAATTTACCGAAATGG
** *
925681 GCCGATTTTTTTTATTATTTACCGGAATGG
1 GCC-ATTTTTTTTAAAATTTACCGAAATGG
*
925711 TCCATTTT
1 GCCATTTT
925719 CCGGGAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 19 0.58
31 9 0.27
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.46
Consensus pattern (29 bp):
GCCATTTTTTTTAAAATTTACCGAAATGG
Found at i:926106 original size:124 final size:125
Alignment explanation
Indices: 925895--926186 Score: 489
Period size: 124 Copynumber: 2.3 Consensus size: 125
925885 TTATTTCGAG
* *
925895 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCACCCTCGAGGATGCTAATTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGT
925959 GAAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-ATTTTTTT
65 GAAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
*
926019 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGTCCTCGTGGATGCTAATTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
* *
926084 AAATCGTGCCCTCGTGGGCGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
* **
926144 TTGACATCGCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
926187 CGCGATTTTG
Statistics
Matches: 157, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
124 109 0.69
125 48 0.31
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
AAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
Found at i:928328 original size:23 final size:23
Alignment explanation
Indices: 928298--928439 Score: 140
Period size: 23 Copynumber: 5.7 Consensus size: 23
928288 TACCTTAGTC
*
928298 AATTAGGTTAGGGTTTTTAAATA
1 AATTAGGTTAGGGTTTTTAATTA
928321 AATTAGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGGGTTTTTAATTA
*
928344 AATTAGGGTAGGGTTGGGGTTTTTAATTAA
1 AA-T----TA-GGTTAGGGTTTTTAATT-A
928374 ATTAGGTTAAGGTTAGGGTTTTTAATTA
1 A--A--TT-AGGTTAGGGTTTTTAATTA
* *
928402 AATTAGGGTATGGTTTTTAATTA
1 AATTAGGTTAGGGTTTTTAATTA
928425 AATTAGGTTAGGGTT
1 AATTAGGTTAGGGTT
928440 AGGGTATGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
23 54 0.54
24 3 0.03
26 1 0.01
28 4 0.04
29 33 0.33
30 3 0.03
32 1 0.01
33 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (23 bp):
AATTAGGTTAGGGTTTTTAATTA
Found at i:928363 original size:29 final size:29
Alignment explanation
Indices: 928326--928444 Score: 160
Period size: 29 Copynumber: 4.3 Consensus size: 29
928316 AAATAAATTA
928326 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGGTAG
* * *
928355 GGTTGGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGGTAG
928384 GGTTAGGGTTTTTAATTAAATTAGGGTA-
1 GGTTAGGGTTTTTAATTAAATTAGGGTAG
*
928412 ---T--GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGGTAG
928436 GGTTAGGGT
1 GGTTAGGGT
928445 ATGAAATAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
23 21 0.27
25 1 0.01
27 1 0.01
29 55 0.71
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGGTAG
Found at i:928365 original size:52 final size:50
Alignment explanation
Indices: 928301--928439 Score: 160
Period size: 58 Copynumber: 2.7 Consensus size: 50
928291 CTTAGTCAAT
*
928301 TAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGG
1 TAGGTT-GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGG
928352 TAGGGTTGGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGG
1 TA-GGTT-GGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAATTAAATTAGGG
928410 TA---T-GGTTTTTAATTAAATTAGGTTAGGGTT
1 TAGGTTGGGTTTTTAATTAAATTAGGTTAGGGTT
928440 AGGGTATGAA
Statistics
Matches: 79, Mismatches: 2, Indels: 19
0.79 0.02 0.19
Matches are distributed among these distances:
46 11 0.14
47 2 0.03
49 1 0.01
51 4 0.05
52 26 0.33
53 2 0.03
54 1 0.01
55 1 0.01
57 2 0.03
58 29 0.37
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (50 bp):
TAGGTTGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGG
Found at i:928440 original size:52 final size:54
Alignment explanation
Indices: 928325--928444 Score: 181
Period size: 52 Copynumber: 2.2 Consensus size: 54
928315 TAAATAAATT
928325 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTGGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGGTA--G-T-GGGTTTTTAATTAAATTAGGTTA
928383 AGGTTAGGGTTTTTAATTAAATTAGGGTA-T-GGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGGTAGTGGGTTTTTAATTAAATTAGGTTA
*
928435 GGGTTAGGGT
1 AGGTTAGGGT
928445 ATGAAATAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
52 31 0.51
54 1 0.02
58 29 0.48
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (54 bp):
AGGTTAGGGTTTTTAATTAAATTAGGGTAGTGGGTTTTTAATTAAATTAGGTTA
Found at i:930788 original size:10 final size:10
Alignment explanation
Indices: 930769--930834 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
930759 GCCATTAATG
*
930769 AAAATATAAA
1 AAAATTTAAA
930779 AAAATTTAAA
1 AAAATTTAAA
* *
930789 ATTATTTTAAA
1 A-AAATTTAAA
*
930800 AAAATATAAA
1 AAAATTTAAA
*
930810 AAAATTTGAA
1 AAAATTTAAA
**
930820 ATTATTTAAA
1 AAAATTTAAA
930830 AAAAT
1 AAAAT
930835 GAAATTGAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
10 34 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:930804 original size:31 final size:30
Alignment explanation
Indices: 930769--930834 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
930759 GCCATTAATG
930769 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTA-TTTAAA
*
930800 AAAATATAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
930830 AAAAT
1 AAAAT
930835 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:930816 original size:21 final size:21
Alignment explanation
Indices: 930775--930816 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
930765 AATGAAAATA
* **
930775 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATATAAAAAAATTT
930796 TAAAAAAATATAAAAAAATTT
1 TAAAAAAATATAAAAAAATTT
930817 GAAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATAAAAAAATTT
Found at i:930893 original size:22 final size:21
Alignment explanation
Indices: 930868--930918 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
930858 TAATATGGAT
*
930868 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
930890 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
930912 TTGAGAG
1 TTGAGAG
930919 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:930935 original size:52 final size:52
Alignment explanation
Indices: 930871--930969 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
930861 TATGGATTTG
* * *
930871 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
930923 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
930970 TAGGATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
Found at i:930953 original size:22 final size:22
Alignment explanation
Indices: 930923--930969 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
930913 TGAGAGTTTA
*
930923 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
*
930945 AGAGGATTTTGAAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
930967 AGA
1 AGA
930970 TAGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGAAAGGAAATTG
Found at i:936645 original size:31 final size:30
Alignment explanation
Indices: 936610--936704 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 30
936600 ATTTCTTCAA
*
936610 ATGTGTACAATTGAATCAAAATCAAAGTTTC
1 ATGTGTACAATTAAATC-AAATCAAAGTTTC
* *
936641 ATGTGTACATTTAAACTGC-AATTAAAGTTTC
1 ATGTGTACAATTAAA-T-CAAATCAAAGTTTC
* *
936672 ATGTATAAAAATTAAATCAAATCAAAG-TTC
1 ATGTGT-ACAATTAAATCAAATCAAAGTTTC
936702 ATG
1 ATG
936705 CATCAAATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
30 7 0.13
31 37 0.70
32 8 0.15
33 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (30 bp):
ATGTGTACAATTAAATCAAATCAAAGTTTC
Found at i:936805 original size:30 final size:30
Alignment explanation
Indices: 936769--936825 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
936759 AAAAAAAAAT
936769 TTGTTTTAAATAGGGAAAGAAATCTTGGAA
1 TTGTTTTAAATAGGGAAAGAAATCTTGGAA
* *
936799 TTGTTTTTAATAGGGAAAGGAATCTTG
1 TTGTTTTAAATAGGGAAAGAAATCTTG
936826 AAATATTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
TTGTTTTAAATAGGGAAAGAAATCTTGGAA
Found at i:938396 original size:40 final size:40
Alignment explanation
Indices: 938331--938514 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
938321 GGCCCATTTT
* *
938331 TATTTTAAAAATTTTAAAAAATTAAAAAAGTATTTTTTAAAA
1 TATTTT-AAAATTTAAAAAAATTAAAAAAGTA-TTTTAAAAA
*
938373 TATTTTAAAA-TTAAAAAAATTAAAAAATATATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAA-GTATTTTAAAAA
938413 TATTTTAAAA-TT-AAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATT-AAAAAAGTATTTTAAAAA
* *
938452 TATTTTAAAATTTAAAAAAAAATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTT--AAAAAAATTAAAAAAGTATTTTAAAAA
*
938494 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAATTTAAAAAAAT
938515 AAATATATTT
Statistics
Matches: 129, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
39 29 0.22
40 51 0.40
41 6 0.05
42 35 0.27
43 8 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:938481 original size:20 final size:20
Alignment explanation
Indices: 938458--938518 Score: 50
Period size: 23 Copynumber: 2.9 Consensus size: 20
938448 AAAATATTTT
938458 AAAATTTAAAAAAAAATTAA
1 AAAATTTAAAAAAAAATTAA
* * *
938478 AAAAGTATGTAAAAAATATTTTA
1 AAAA-T-T-TAAAAAAAAATTAA
*
938501 AAATTTTAAAAAATAAAT
1 AAAATTTAAAAAA-AAAT
938519 ATATTTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
20 11 0.35
21 4 0.13
22 2 0.06
23 14 0.45
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAAAAATTAA
Found at i:938484 original size:42 final size:44
Alignment explanation
Indices: 938425--938518 Score: 147
Period size: 42 Copynumber: 2.2 Consensus size: 44
938415 TTTTAAAATT
* *
938425 AAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTTAAA
1 AAAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAA
938468 AAAAAATT-AAAAAAGTATGTAAAAAATATTTTAAAATTTTAAA
1 AAAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAA
938511 AAATAAAT
1 AAA-AAAT
938519 ATATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 26 0.55
43 17 0.36
44 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (44 bp):
AAAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAA
Found at i:944330 original size:29 final size:29
Alignment explanation
Indices: 944258--944332 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
944248 TTTTTCATTT
*
944258 ATATCTAAATTTAGTTTCAATGTTGAATTAG
1 ATATTTAAATTT--TTTCAATGTTGAATTAG
** * *
944289 ATATTTAGGTTTTTTCAATGTTTAATTTG
1 ATATTTAAATTTTTTCAATGTTGAATTAG
*
944318 GTATTTAAATTTTTT
1 ATATTTAAATTTTTT
944333 TTATCCCAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 27 0.75
31 9 0.25
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (29 bp):
ATATTTAAATTTTTTCAATGTTGAATTAG
Found at i:944841 original size:10 final size:10
Alignment explanation
Indices: 944826--944863 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
944816 AGAGTAGAAA
944826 ATTTTCTTTC
1 ATTTTCTTTC
*
944836 ATTTTCCTTC
1 ATTTTCTTTC
944846 ATTTTCTTTC
1 ATTTTCTTTC
*
944856 GTTTTCTT
1 ATTTTCTT
944864 CTCTCTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTCTTTC
Found at i:955039 original size:16 final size:17
Alignment explanation
Indices: 955020--955065 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
955010 ATAAGGTATC
955020 ATATAAAAATTAAGAAAT
1 ATATAAAAATTAA-AAAT
955038 ATATTAAAAATTAAAAAT
1 ATA-TAAAAATTAAAAAT
955056 ATA-AAAAATT
1 ATATAAAAATT
955066 TGTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.26
18 10 0.37
19 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATATAAAAATTAAAAAT
Found at i:955045 original size:19 final size:18
Alignment explanation
Indices: 955023--955058 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
955013 AGGTATCATA
955023 TAAAAATTAAGAAATATAT
1 TAAAAATTAA-AAATATAT
955042 TAAAAATTAAAAATATA
1 TAAAAATTAAAAATATA
955059 AAAAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAATTAAAAATATAT
Found at i:960545 original size:18 final size:18
Alignment explanation
Indices: 960518--960606 Score: 151
Period size: 18 Copynumber: 4.9 Consensus size: 18
960508 CCCAACTACT
*
960518 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
960536 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
960554 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
960572 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
960590 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
960607 TGTAAACGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:960570 original size:36 final size:36
Alignment explanation
Indices: 960518--960606 Score: 169
Period size: 36 Copynumber: 2.5 Consensus size: 36
960508 CCCAACTACT
*
960518 GTATACGTGAACAGTACCGTATATGTGAATAGTACC
1 GTATACGTGAATAGTACCGTATATGTGAATAGTACC
960554 GTATACGTGAATAGTACCGTATATGTGAATAGTACC
1 GTATACGTGAATAGTACCGTATATGTGAATAGTACC
960590 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
960607 TGTAAACGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATATGTGAATAGTACC
Found at i:966555 original size:3 final size:3
Alignment explanation
Indices: 966549--966573 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
966539 TACCATTATT
966549 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
966574 AAATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:975282 original size:31 final size:31
Alignment explanation
Indices: 975244--975339 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
975234 TTTCCTGCTC
975244 AACGAATCTGAGTCGACGTTAGATACAGATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
*
975275 AACGAATCCGAGTCGACGTTAGATACAGATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
* * * *
975306 AACGAATCTGAGTTGATGTTAGAGACAAATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
975337 AAC
1 AAC
975340 ATAAAACACA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AACGAATCTGAGTCGACGTTAGATACAGATT
Found at i:978330 original size:17 final size:19
Alignment explanation
Indices: 978305--978341 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
978295 AAACAATCAA
*
978305 TTAATATT-GGAGATAAAT
1 TTAATATTGGGAAATAAAT
978323 TTAA-ATTGGGAAATAAAT
1 TTAATATTGGGAAATAAAT
978341 T
1 T
978342 CGGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATATTGGGAAATAAAT
Found at i:1009814 original size:75 final size:75
Alignment explanation
Indices: 1009686--1009832 Score: 206
Period size: 75 Copynumber: 2.0 Consensus size: 75
1009676 GAGTGTGGAT
* **
1009686 AGGCCAACTTCTAGCTTCGCTGATGAGATTGCAACTTCTTCAGAATCGAAAGTAGAAGTTGCTAC
1 AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAATCGAAAGTAGAAGTTGCTAC
1009751 TGAATCTGTG
66 TGAATCTGTG
* * * * *
1009761 AGGCCACCTTCTGGCTTAGTTGATGAGATTGCAGCTTCCCCAGAATTTG-AAGTAGAAGTTGCTA
1 AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAA-TCGAAAGTAGAAGTTGCTA
1009825 CTGAATCT
65 CTGAATCT
1009833 ATCGGCGGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 61 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (75 bp):
AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAATCGAAAGTAGAAGTTGCTAC
TGAATCTGTG
Found at i:1012181 original size:78 final size:78
Alignment explanation
Indices: 1012052--1012213 Score: 236
Period size: 78 Copynumber: 2.1 Consensus size: 78
1012042 CCAGAGTGTG
1012052 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
*
1012117 TACTGAATCAGCC
66 TACAGAATCAGCC
* ** * *
1012130 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCTGAATCAGAAGTAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTG
* *
1012194 CTACAGAATCTGTC
65 CTACAGAATCAGCC
1012208 GATGGG
1 GATGGG
1012214 AGGAAGCGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
77 2 0.03
78 73 0.97
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGC
TACAGAATCAGCC
Found at i:1014414 original size:78 final size:78
Alignment explanation
Indices: 1014280--1014436 Score: 237
Period size: 78 Copynumber: 2.0 Consensus size: 78
1014270 CCAGAGTGTG
* *
1014280 GATGGGCCAACTTCTGACTTCGTTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
*
1014345 TACTGAATCTGTC
66 TACTAAATCTGTC
* *
1014358 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATC-GTAAGTAGAAGTT
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAG-AAGTAGAAGTT
1014421 GCTACTAAATCTGTC
64 GCTACTAAATCTGTC
1014436 G
1 G
1014437 GAGGGAGGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
77 3 0.04
78 69 0.96
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTAAATCTGTC
Found at i:1016722 original size:78 final size:78
Alignment explanation
Indices: 1016593--1016745 Score: 245
Period size: 78 Copynumber: 2.0 Consensus size: 78
1016583 CCAGAGTGTG
*
1016593 GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGC
1 GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTGC
1016658 TACTGAATCTATC
66 TACTGAATCTATC
* * * *
1016671 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGCAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTG
1016735 CTACTGAATCT
65 CTACTGAATCT
1016746 GTCGGCGGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 2 0.03
78 67 0.97
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTGC
TACTGAATCTATC
Found at i:1019099 original size:78 final size:78
Alignment explanation
Indices: 1018970--1019126 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 78
1018960 CCAGAGTGTG
**
1018970 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTTGAAGTTGA
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGTTGA
1019035 TACTGAATCTGTC
66 TACTGAATCTGTC
* *
1019048 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGCAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGTTG
*
1019112 CTACTGAATCTGTC
65 ATACTGAATCTGTC
1019126 G
1 G
1019127 GCGGGAGGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 2 0.03
78 71 0.97
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGTTGA
TACTGAATCTGTC
Found at i:1021480 original size:78 final size:78
Alignment explanation
Indices: 1021351--1021510 Score: 234
Period size: 78 Copynumber: 2.1 Consensus size: 78
1021341 AGAGTGTTGG
1021351 TGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAA-GTTGCT
1 TGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTT-CT
* *
1021415 ACTGAATCTGCCGA
65 ACAGAAGCTGCCGA
* * *
1021429 TGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGGTTCT
1 TGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTTCT
*
1021493 ACAGAAGCTGTCGA
65 ACAGAAGCTGCCGA
1021507 TGGG
1 TGGG
1021511 AGGAAGCGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.03
78 69 0.93
79 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGGTTCTA
CAGAAGCTGCCGA
Found at i:1023794 original size:78 final size:78
Alignment explanation
Indices: 1023665--1023818 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
1023655 CCAGAGTGTG
1023665 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1023730 TACTGAATCTGCC
66 TACTGAATCTGCC
*
1023743 GATGGGCC-ACATTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTT
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
1023807 CTACTGAATCTG
65 CTACTGAATCTG
1023819 TCGGCGGGAG
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 2 0.03
78 72 0.97
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTGAATCTGCC
Found at i:1028678 original size:23 final size:22
Alignment explanation
Indices: 1028646--1028692 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
1028636 CTATGTTGCT
1028646 TTGACACTGTTATTTATTGGCA
1 TTGACACTGTTATTTATTGGCA
1028668 TTGACTACTGTTATTTATTGGCA
1 TTGAC-ACTGTTATTTATTGGCA
1028691 TT
1 TT
1028693 TACATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (22 bp):
TTGACACTGTTATTTATTGGCA
Found at i:1030947 original size:14 final size:14
Alignment explanation
Indices: 1030928--1030955 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1030918 ACAAGAACCT
1030928 TTTAAAGTATCATA
1 TTTAAAGTATCATA
1030942 TTTAAAGTATCATA
1 TTTAAAGTATCATA
1030956 AACCTTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTAAAGTATCATA
Found at i:1032575 original size:16 final size:16
Alignment explanation
Indices: 1032551--1032584 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1032541 ATCATTACTT
*
1032551 AGTTTCGAATAAAGGG
1 AGTTCCGAATAAAGGG
1032567 AGTTCCGAATAAAGGG
1 AGTTCCGAATAAAGGG
1032583 AG
1 AG
1032585 AATGCCAAGC
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:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (16 bp):
AGTTCCGAATAAAGGG
Found at i:1036429 original size:37 final size:37
Alignment explanation
Indices: 1036385--1036513 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
1036375 CACTTGTCCC
*
1036385 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1036422 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
*
1036459 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1036496 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
1036514 TAAAGCTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Done.