Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 93 of 344
Found at i:31036547 original size:43 final size:43
Alignment explanation
Indices: 31036486--31036674 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
31036476 TGCATTTCAA
31036486 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31036529 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
31036572 GCTCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31036615 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31036658 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
31036675 TGAAAACCAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:31038588 original size:37 final size:37
Alignment explanation
Indices: 31038528--31038603 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
31038518 TATTACGAAA
* * *
31038528 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
31038565 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
31038602 TC
1 TC
31038604 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:31038802 original size:47 final size:47
Alignment explanation
Indices: 31038724--31039314 Score: 911
Period size: 47 Copynumber: 12.6 Consensus size: 47
31038714 CCCTTCGGGA
* * * * * **
31038724 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31038771 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31038818 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31038865 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31038912 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31038959 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31039008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
31039055 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT--GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
31039100 CTTAT--CATCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31039146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31039193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31039240 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
31039287 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
31039315 ATGGGTTTAA
Statistics
Matches: 511, Mismatches: 24, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
43 3 0.01
44 33 0.06
45 7 0.01
46 7 0.01
47 399 0.78
48 3 0.01
49 59 0.12
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:31041988 original size:50 final size:50
Alignment explanation
Indices: 31041917--31042190 Score: 342
Period size: 50 Copynumber: 5.6 Consensus size: 50
31041907 CATTGAAGTC
* * *
31041917 GATGCCATGTTCCAGATATGGTCTTACACTGGCTCTCATATATCGAGACT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAGACT
* * *
31041967 GATTCCATGTCCCAAACATGGTCTTGCACTGGCTCTCATATATCGAGACC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAGACT
* *
31042017 GATGCCAAGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGAGACT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAGACT
* * * * *
31042067 GATGCCATTTCCCAAACATGGTCTTACACTGGCTCTCATTTGTC-AGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAG-ACT
* * * *
31042117 GATGCCATGTCCCAAACATGGTCTTGCACTGGCTCTCGTA-AT-GTGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAGACT
*
31042165 GATG-CATGTCCCAGACAT-GTCTTACA
1 GATGCCATGTCCCAAACATGGTCTTACA
31042191 GTAGCACACA
Statistics
Matches: 195, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
46 7 0.04
47 13 0.07
48 6 0.03
49 4 0.02
50 165 0.85
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGAGACT
Found at i:31048152 original size:613 final size:612
Alignment explanation
Indices: 31046946--31048173 Score: 2341
Period size: 613 Copynumber: 2.0 Consensus size: 612
31046936 ACTCGCTCTC
31046946 ACACCTTGATCTCTATCTTTCTCGACCATCTCGGGACAACACGAATGAAATGGTCTAGCGACCCA
1 ACACCTTGATCTCTATCTTTCTCGACCATCTCGGGACAACACGAATGAAATGGTCTAGCGACCCA
*
31047011 CATTTGAAATAGCCCCTTTCATTTCCTTGGCACTCCCAAAATGTCGTCTACCACACTGCGAACAC
66 CATTTGAAATAGCCCCTTTCATTTCCTTGGCACTCACAAAATGTCGTCTACCACACTGCGAACAC
31047076 TCTGGTTTATTTGGTCGAGCACTACCAATGCTCGTGATAGAGGTGGTTTGAGCTTTAGACGCTAT
131 TCTGGTTTATTTGGTCGAGCACTACCAATGCTCGTGATAGAGGTGGTTTGAGCTTTAGACGCTAT
31047141 ATACTATTTATTCTTGTTTCTACTCGAGAATCCTACTGGCGCATTTGATTAAGTAGGAAACTCTC
196 ATACTATTTATTCTTGTTTCTACTCGAGAATCCTACTGGCGCATTTGATTAAGTAGGAAACTCTC
* *
31047206 TCGATCTCTTTGATAAATTCTGATGTGATTTCCCCATCTGTCTTTTCTTTGAGTCATGATACTCA
261 TCGATCTCTTGGATAAATTCTGATGTGATTTCCCCATCTGTCTTTTCTTTGAGTCACGATACTCA
* *
31047271 ATATCAGCTCTTCTCTTCTCTTTGGCCAACTCTTTGGCCTTACACGCTCTCTCAATGAGTACCAC
326 ATATCAGCTCTTCTCTTCTCTTTAGCCAACTCTTTGGCCTTACACGCTCTCTCAATGAGCACCAC
31047336 AAATTCTTTTAACTCTAGGATGCCAACCAACAATCGGATGTCTTCATTCAACCCATCTTCAAACC
391 AAATTCTTTTAACTCTAGGATGCCAACCAACAATCGGATGTCTTCATTCAACCCATCTTCAAACC
31047401 TCTTACACATGGTGGCTTCTGCAGATTCGCACTCCCGCGCATATTTGCTGAGCCTCACGAACTCA
456 TCTTACACATGGTGGCTTCTGCAGATTCGCACTCCCGCGCATATTTGCTGAGCCTCACGAACTCA
31047466 TGTTCATATTTTGTCATTGTCATACGGCCTTGCTTCAGTTCAAGAAATTCTTTCCTCTTTTGATC
521 TGTTCATATTTTGTCATTGTCATACGGCCTTGCTTCAGTTCAAGAAATTCTTTCCTCTTTTGATC
31047531 TATGAACCTTTGACTAATGTACTTTTT
586 TATGAACCTTTGACTAATGTACTTTTT
31047558 ACACCTTGATCTCTATCTTTCTCGACCATCTCGGGACAACTACGAATGAAATGGTCTAGCGACCC
1 ACACCTTGATCTCTATCTTTCTCGACCATCTCGGGACAAC-ACGAATGAAATGGTCTAGCGACCC
* *
31047623 ACATTTGAAATAGCCCCTTTCATTTCCTTGGCACTCATAAATTGTCGTCTACCACACTGCGAACA
65 ACATTTGAAATAGCCCCTTTCATTTCCTTGGCACTCACAAAATGTCGTCTACCACACTGCGAACA
*
31047688 CTCTGGTTTATTTGGTCGAGCACTACCAATGCTCGTGATAGAGGTGGTTTGAGCTTTAGGCGCTA
130 CTCTGGTTTATTTGGTCGAGCACTACCAATGCTCGTGATAGAGGTGGTTTGAGCTTTAGACGCTA
*
31047753 TATACTATTTATTCTTGTTTCTACTCGAGAATCCTACTGGCGCATTTGATTAAGTAGTAAACTCT
195 TATACTATTTATTCTTGTTTCTACTCGAGAATCCTACTGGCGCATTTGATTAAGTAGGAAACTCT
31047818 CTCGATCTCTTGGATAAATTCTGATGTGATTTCCCCATCTGTCTTTTCTTTGAGTCACGATACTC
260 CTCGATCTCTTGGATAAATTCTGATGTGATTTCCCCATCTGTCTTTTCTTTGAGTCACGATACTC
31047883 AATATCAGCTCTTCTCTTCTCTTTAGCCAACTCTTTGGCCTTACACGCTCTCTCAATGAGCACCA
325 AATATCAGCTCTTCTCTTCTCTTTAGCCAACTCTTTGGCCTTACACGCTCTCTCAATGAGCACCA
31047948 CAAATTCTTTTAACTCTAGGATGCCAACCAACAATCGGATGTCTTCATTCAACCCATCTTCAAAC
390 CAAATTCTTTTAACTCTAGGATGCCAACCAACAATCGGATGTCTTCATTCAACCCATCTTCAAAC
*
31048013 CTCTTACACATGGTGGCTTTTGCAGATTCGCACTCCCGCGCATATTTGCTGAGCCTCACGAACTC
455 CTCTTACACATGGTGGCTTCTGCAGATTCGCACTCCCGCGCATATTTGCTGAGCCTCACGAACTC
31048078 ATGTTCATATTTTGTCATTGTCATACGGCCTTGCTTCAGTTCAAGAAATTCTTTCCTCTTTTGAT
520 ATGTTCATATTTTGTCATTGTCATACGGCCTTGCTTCAGTTCAAGAAATTCTTTCCTCTTTTGAT
31048143 C-ATTGAACCTTTGACTAATGTACTTTTT
585 CTA-TGAACCTTTGACTAATGTACTTTTT
31048171 ACA
1 ACA
31048174 GAACTCTTCT
Statistics
Matches: 604, Mismatches: 10, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
612 41 0.07
613 563 0.93
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (612 bp):
ACACCTTGATCTCTATCTTTCTCGACCATCTCGGGACAACACGAATGAAATGGTCTAGCGACCCA
CATTTGAAATAGCCCCTTTCATTTCCTTGGCACTCACAAAATGTCGTCTACCACACTGCGAACAC
TCTGGTTTATTTGGTCGAGCACTACCAATGCTCGTGATAGAGGTGGTTTGAGCTTTAGACGCTAT
ATACTATTTATTCTTGTTTCTACTCGAGAATCCTACTGGCGCATTTGATTAAGTAGGAAACTCTC
TCGATCTCTTGGATAAATTCTGATGTGATTTCCCCATCTGTCTTTTCTTTGAGTCACGATACTCA
ATATCAGCTCTTCTCTTCTCTTTAGCCAACTCTTTGGCCTTACACGCTCTCTCAATGAGCACCAC
AAATTCTTTTAACTCTAGGATGCCAACCAACAATCGGATGTCTTCATTCAACCCATCTTCAAACC
TCTTACACATGGTGGCTTCTGCAGATTCGCACTCCCGCGCATATTTGCTGAGCCTCACGAACTCA
TGTTCATATTTTGTCATTGTCATACGGCCTTGCTTCAGTTCAAGAAATTCTTTCCTCTTTTGATC
TATGAACCTTTGACTAATGTACTTTTT
Found at i:31057494 original size:53 final size:54
Alignment explanation
Indices: 31057413--31057562 Score: 194
Period size: 53 Copynumber: 2.8 Consensus size: 54
31057403 TTTCCTTTTT
* * *
31057413 AAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 AAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * *
31057466 GAACTCACCATTGTCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTGTA
1 AAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* *
31057520 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATC
1 AAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATC
31057563 ATTAAACCCT
Statistics
Matches: 80, Mismatches: 16, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 44 0.55
54 36 0.45
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
AAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:31064221 original size:46 final size:46
Alignment explanation
Indices: 31064168--31064341 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
31064158 TATTTGGGCA
31064168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
31064214 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTGGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT--G
* * *
31064259 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
31064307 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
31064342 AGGCGGGTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 7 0.06
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:31064317 original size:93 final size:93
Alignment explanation
Indices: 31064162--31064335 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
31064152 CTGGGATATT
* * *
31064162 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
31064227 AGTTGAGTCCGAGTTCGTGAGATGTAAC
66 AGTTGAGTCCGAGTTCGTGAGATGTAAC
* *
31064255 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
31064320 AGTTGAGTCCGAGTTC
66 AGTTGAGTCCGAGTTC
31064336 ACTTATAGGC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAGATGTAAC
Found at i:31076927 original size:27 final size:27
Alignment explanation
Indices: 31076886--31076939 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31076876 TGTCATGTGA
*
31076886 AATTGAATGGCAAATTATTATCACATG
1 AATTGAATGGCAAATTACTATCACATG
** *
31076913 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATCACATG
31076940 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATCACATG
Found at i:31077314 original size:50 final size:50
Alignment explanation
Indices: 31077192--31077367 Score: 194
Period size: 50 Copynumber: 3.5 Consensus size: 50
31077182 TGAGGTCATG
* ** * * *
31077192 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* * ** *
31077243 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
31077293 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
31077342 TGTGTAGTACTAAGTGTC-GGCTACTA
1 TGTGTAGTACTAAGTG-CAGGCTACTA
31077368 TGCATACCAG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 29 0.28
50 44 0.42
51 32 0.30
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:31083207 original size:50 final size:49
Alignment explanation
Indices: 31083037--31083268 Score: 277
Period size: 49 Copynumber: 4.7 Consensus size: 49
31083027 TCTATTGTGA
* *
31083037 GGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * ** *
31083086 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
31083136 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
31083186 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
31083236 GGTCGCATGTGTAGTACTAAGTGTC-GGCTACTA
1 GGTCACGTGTGTAGTACTAAGTG-CAGGCTACTA
31083269 TGCATACTAG
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 68 0.44
50 49 0.32
51 36 0.24
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:31083282 original size:99 final size:99
Alignment explanation
Indices: 31083039--31083282 Score: 239
Period size: 100 Copynumber: 2.4 Consensus size: 99
31083029 TATTGTGAGG
* * * * * ** * *
31083039 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATT-GGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAC-TGCATCAGATGGTTAGGTCACGTGTGTAGTAC
*
31083103 TAAATGCAGGCTACTATGCATACCCGATAACTTCGA
65 TAAATGCAGGCTACTATG-ATACCAGATAACTTCGA
* *
31083139 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAC-TGCATCAGATGGTTAGGTCACGTGTGTAGTAC
* *
31083204 TAAGTGCAGGCTACTACATG-TACCAGATAA-TT-GG
65 TAAATGCAGGCTACT--ATGATACCAGATAACTTCGA
*
31083238 TCGCATGTGTAGTACTAAGTGTC-GGCTACTA-TGCATACTAGATGG
1 TCACATGTGTAGTACTAAGTG-CAGGCTACTACTGCAT-C-AGATGG
31083283 CCTTGTCTAC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
97 4 0.03
98 1 0.01
99 34 0.27
100 45 0.36
101 38 0.30
103 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACTGCATCAGATGGTTAGGTCACGTGTGTAGTACT
AAATGCAGGCTACTATGATACCAGATAACTTCGA
Found at i:31087880 original size:17 final size:17
Alignment explanation
Indices: 31087858--31087890 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31087848 TTTAGCACTA
*
31087858 ATTATGAGAAAGTAAAG
1 ATTATGAGAAACTAAAG
31087875 ATTATGAGAAACTAAA
1 ATTATGAGAAACTAAA
31087891 CCACTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (17 bp):
ATTATGAGAAACTAAAG
Found at i:31090022 original size:12 final size:12
Alignment explanation
Indices: 31090002--31090039 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31089992 AAAAATTGTC
31090002 AAAATTGAATTA
1 AAAATTGAATTA
*
31090014 AAAACTGAA-TA
1 AAAATTGAATTA
31090025 AAATATTGAATTA
1 AAA-ATTGAATTA
31090038 AA
1 AA
31090040 TCTTAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 5 0.23
12 13 0.59
13 4 0.18
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (12 bp):
AAAATTGAATTA
Found at i:31093094 original size:11 final size:12
Alignment explanation
Indices: 31093078--31093106 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
31093068 TCTTCAAATG
31093078 AAAAAACTC-TA
1 AAAAAACTCATA
31093089 AAAAAACTCATA
1 AAAAAACTCATA
31093101 AAAAAA
1 AAAAAA
31093107 AAGGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAACTCATA
Found at i:31094083 original size:25 final size:25
Alignment explanation
Indices: 31094023--31094083 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
31094013 ATTCTAAAAA
* * *
31094023 TATAAAAATCTAAAAAATTATATATTT
1 TATAAAAA--TAAAAAATTACAAAATT
* *
31094050 TAGAGAAATAAAAAATTACAAAATT
1 TATAAAAATAAAAAATTACAAAATT
31094075 TATAAAAAT
1 TATAAAAAT
31094084 TAATACATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 21 0.78
27 6 0.22
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (25 bp):
TATAAAAATAAAAAATTACAAAATT
Found at i:31097928 original size:40 final size:40
Alignment explanation
Indices: 31097858--31097993 Score: 206
Period size: 40 Copynumber: 3.4 Consensus size: 40
31097848 AAACCAAGTA
* *
31097858 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
*
31097897 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
31097937 CCTTCGGGACTTAGCCCGGATATAGTAACTCG-TACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCT-CAAATG
31097977 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
31097994 AGTTATCATC
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 14 0.16
40 76 0.84
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:31103479 original size:402 final size:403
Alignment explanation
Indices: 31102716--31103522 Score: 1391
Period size: 402 Copynumber: 2.0 Consensus size: 403
31102706 TTTTGGGGGG
*
31102716 TATCATTTTCTTCAACCTATCTTTTGAAGCTTTTCAGCTTTGGCAGCTTAAGCCTCCTACAGGTG
1 TATCATTTTCTTCAACCTATCTTTTGAAGCTTTTCAGCTTTGGCAGCTTAAGCATCCTACAGGTG
* * * *
31102781 AATCTATGTGAAAGGGATACAATTAGCTCTTGGCAAAGATCCCTAAGTAGGATACAAGAGGGAAT
66 AATCGACGTGAAAGGGATACAATTAGCTCTTGGCAAAGATCCCTAAGTACGACACAAGAGGGAAT
31102846 TGAGAGATCAAGTCGAGATTTTCTAGGAATAGTACTTTCCACTTGTTTCTTTTATATTTCTTTTC
131 TGAGAGATCAAGTCGAGATTTTCTAGGAATAGTACTTTCCACTTGTTTCTTTTATATTTCTTTTC
*
31102911 TAAACGTTGGTGATTACTTTCTATTTCATGTTTGTACGAAAGTATACATGATTTTTGGGTTAAAT
196 TAAACGTTGGTCATTACTTTCTATTTCATGTTTGTACGAAAGTATACATGATTTTTGGGTTAAAT
*
31102976 GTTATTTTATTCAATCTTGTTTCTACTGTTTAATCTTTGGGTTTGAATGTTTTTAACATAGAAGT
261 GTTATTTTATTCAATCTTGTTTCTACTATTTAATCTTTGGGTTTGAATGTTTTTAACATAGAAGT
* * *
31103041 GTTATTGCGATCACTAACACTGGAAAGTGCAGCTATAGTTCAAGCTAACAAGCATGACAACAGAA
326 GCTATTGCAATCACTAACACTGGAAAGTACAGCTATAGTTCAAGCTAACAAGCATGACAACAGAA
31103106 GTTGCTAGAGGAT
391 GTTGCTAGAGGAT
** *
31103119 TATCATTTTCTTCAACCTATCTTTTGAAGCTTTTCAGCTTTGGTGGCTTAAGCATCTTACAGGTG
1 TATCATTTTCTTCAACCTATCTTTTGAAGCTTTTCAGCTTTGGCAGCTTAAGCATCCTACAGGTG
* * * * *
31103184 AATCGACGTGAAAGGGGTGCAATTATCTCTTGGCGAAGATCCCTGAGTACGACACAAGAGGGAAT
66 AATCGACGTGAAAGGGATACAATTAGCTCTTGGCAAAGATCCCTAAGTACGACACAAGAGGGAAT
31103249 TGAGAGATCAAGTCGAGATTTTCTAGGAATAGTACTTTCCACTTGTTT-TTTTATATTTCTTTTC
131 TGAGAGATCAAGTCGAGATTTTCTAGGAATAGTACTTTCCACTTGTTTCTTTTATATTTCTTTTC
*
31103313 TAAACGTTGGTCATTACTTTCTATTTCATGTTTGTATGAAAGTATACATGATTTTTGGGTTAAAT
196 TAAACGTTGGTCATTACTTTCTATTTCATGTTTGTACGAAAGTATACATGATTTTTGGGTTAAAT
* *
31103378 GTTATTTTATTCAATCTTGTTTCTACTATTTAATCTTTGGGTTTGAATGTTTTTAGCATGGAAGT
261 GTTATTTTATTCAATCTTGTTTCTACTATTTAATCTTTGGGTTTGAATGTTTTTAACATAGAAGT
* * *
31103443 GCTCTTGCAATCTCTAACACTGGAAAGTATAGCTATAGTTCAAGCTAACAAGCATGACAACAGAA
326 GCTATTGCAATCACTAACACTGGAAAGTACAGCTATAGTTCAAGCTAACAAGCATGACAACAGAA
31103508 GTTGCTAGAGGAT
391 GTTGCTAGAGGAT
31103521 TA
1 TA
31103523 GAGGAATTTA
Statistics
Matches: 380, Mismatches: 24, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
402 215 0.57
403 165 0.43
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (403 bp):
TATCATTTTCTTCAACCTATCTTTTGAAGCTTTTCAGCTTTGGCAGCTTAAGCATCCTACAGGTG
AATCGACGTGAAAGGGATACAATTAGCTCTTGGCAAAGATCCCTAAGTACGACACAAGAGGGAAT
TGAGAGATCAAGTCGAGATTTTCTAGGAATAGTACTTTCCACTTGTTTCTTTTATATTTCTTTTC
TAAACGTTGGTCATTACTTTCTATTTCATGTTTGTACGAAAGTATACATGATTTTTGGGTTAAAT
GTTATTTTATTCAATCTTGTTTCTACTATTTAATCTTTGGGTTTGAATGTTTTTAACATAGAAGT
GCTATTGCAATCACTAACACTGGAAAGTACAGCTATAGTTCAAGCTAACAAGCATGACAACAGAA
GTTGCTAGAGGAT
Found at i:31108310 original size:23 final size:24
Alignment explanation
Indices: 31108256--31108310 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
31108246 CAGCTCTTCG
* *
31108256 TGAACGTCCTGATATAAGCTCTTA
1 TGAACTTCCTGATATAAGCTCCTA
*
31108280 TGAGCTTCCTGATAT-AGCTCGCT-
1 TGAACTTCCTGATATAAGCTC-CTA
31108303 TGAACTTC
1 TGAACTTC
31108311 TTGTTATGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
TGAACTTCCTGATATAAGCTCCTA
Found at i:31114585 original size:23 final size:23
Alignment explanation
Indices: 31114555--31114614 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
31114545 GGTTATGCCT
*
31114555 CACACGCCCGTGTGAAGGCAAAG
1 CACACGCCCATGTGAAGGCAAAG
*
31114578 CACACGCCCATGTGATGGCAAAG
1 CACACGCCCATGTGAAGGCAAAG
31114601 CACACGCCCATGTG
1 CACACGCCCATGTG
31114615 CTTGGGGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.33, G:0.27, T:0.12
Consensus pattern (23 bp):
CACACGCCCATGTGAAGGCAAAG
Found at i:31127105 original size:48 final size:48
Alignment explanation
Indices: 31126983--31127450 Score: 418
Period size: 48 Copynumber: 9.6 Consensus size: 48
31126973 GTAAGATCCT
* * *
31126983 GATGCCATGTTCCGAACATGGTCTTACACTGGCTCTCATATATCG-GTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAG-GCC
* * * *
31127033 GATGCCATGTTCCAAACATAGTCTTACAGTAGCCCAGATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
** * * * * * * *
31127081 GATGCTGTGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * **
31127129 GATGCCATGTTCCAAATATGGTCTTACACTAGCTCTTATATATCGATTCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAGGCC
* ** *
31127179 GATGCCATGTTCCAAACATGGTCTTACGCTAGCCCACATGCCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * * * * *
31127227 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * *
31127275 GATGCCATGTTCGAAACATGGTCTTACATTGGCTCTCATATATCG-GTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAG-GCC
* * *
31127325 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTTGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * * * *
31127373 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
* * *
31127421 GATTCCATGTTCCAAGCATGGTTTTACACT
1 GATGCCATGTTCCAAACATGGTCTTACACT
31127451 GGCTCGTATA
Statistics
Matches: 331, Mismatches: 80, Indels: 16
0.78 0.19 0.04
Matches are distributed among these distances:
48 220 0.66
49 5 0.02
50 106 0.32
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCC
Found at i:31127247 original size:146 final size:146
Alignment explanation
Indices: 31126983--31127455 Score: 732
Period size: 146 Copynumber: 3.2 Consensus size: 146
31126973 GTAAGATCCT
*
31126983 GATGCCATGTTCCGAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
* * * **
31127048 ACATAGTCTTACAG-TAGCCCAGATGTCGAGGCCGATGCTGTGTCCCAGACATGGTCTTACACTA
66 ACATGGTCTTAC-GCTAGCCCACATGTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTA
*
31127112 GCTCTCATCTCAATGCC
130 GCTCTCATATCAATGCC
* * * * *
31127129 GATGCCATGTTCCAAATATGGTCTTACACTAGCTCTTATATATCGATTCCGATGCCATGTTCCAA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
*
31127194 ACATGGTCTTACGCTAGCCCACATGCCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
66 ACATGGTCTTACGCTAGCCCACATGTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
* *
31127259 CTCTCATATCAACGCT
131 CTCTCATATCAATGCC
* *
31127275 GATGCCATGTTCGAAACATGGTCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
* *
31127340 ACATGGTCTTACACTAGCCCACATGTTGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
66 ACATGGTCTTACGCTAGCCCACATGTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
31127405 CTCTCATATCAATGCC
131 CTCTCATATCAATGCC
* * *
31127421 GATTCCATGTTCCAAGCATGGTTTTACACTGGCTC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTC
31127456 GTATAACCCT
Statistics
Matches: 294, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
145 1 0.00
146 293 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (146 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
ACATGGTCTTACGCTAGCCCACATGTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
CTCTCATATCAATGCC
Found at i:31132034 original size:48 final size:48
Alignment explanation
Indices: 31131970--31132293 Score: 330
Period size: 48 Copynumber: 6.7 Consensus size: 48
31131960 GGTTATGTGT
*
31131970 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGA
* * **
31132018 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCAATAT-A
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATCGTTATGA
* *
31132065 CGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 -GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGA
* * * * * ** *
31132114 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGA
* * *
31132161 GAGCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGA
* * * * * ** *
31132209 GAGCCAATATAAGACCATGTCTGGGACATAGCATTAGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCG-T-TATGA
* * *
31132259 CAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
31132294 AAAATTTTAC
Statistics
Matches: 223, Mismatches: 46, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
47 42 0.19
48 142 0.64
49 5 0.02
50 34 0.15
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGA
Found at i:31132134 original size:96 final size:95
Alignment explanation
Indices: 31131970--31132293 Score: 436
Period size: 96 Copynumber: 3.4 Consensus size: 95
31131960 GGTTATGTGT
*
31131970 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
*
31132035 TGTCTAGGACATGGCATCGGCATCAATATAC
66 TGTCTGGGACATGGCATC-GCATCAATATAC
31132066 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
* * *
31132131 TGTCTGGGACATGGCATCACCTCAATATGC
66 TGTCTGGGACATGGCATCGCATCAATATAC
* * * *
31132161 GAG-CAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCCAATATAAGACC
1 GAGCCAA-TGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACC
* * * *
31132225 ATGTCTGGGACATAGCATTAGCACCGATGTATGAC
65 ATGTCTGGGACATGGCA-TCGCATC-A-ATAT-AC
* * *
31132260 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAATGTAAGACCATGTTTGGAACATGGCATC
31132294 AAAATTTTAC
Statistics
Matches: 203, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
94 3 0.01
95 81 0.40
96 84 0.41
97 1 0.00
98 31 0.15
99 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGCATCAATATAC
Found at i:31132222 original size:95 final size:96
Alignment explanation
Indices: 31131970--31132242 Score: 433
Period size: 95 Copynumber: 2.9 Consensus size: 96
31131960 GGTTATGTGT
*
31131970 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
* *
31132035 TGTCTAGGACATGGCATCGGCATCAATATAC
66 TGTCTGGGACATGGCATCGACATCAATATAC
31132066 GAGCCAA-TGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACC
1 GAG-CAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACC
* *
31132130 ATGTCTGGGACATGGCATC-ACCTCAATATGC
65 ATGTCTGGGACATGGCATCGACATCAATATAC
* * * *
31132161 GAGCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCCAATATAAGACCA
1 GAGCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
*
31132226 TGTCTGGGACATAGCAT
66 TGTCTGGGACATGGCAT
31132243 TAGCACCGAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
94 3 0.02
95 82 0.50
96 78 0.47
97 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCAAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGACATCAATATAC
Found at i:31134785 original size:20 final size:21
Alignment explanation
Indices: 31134760--31134798 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31134750 TCCTTAAAAT
31134760 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
31134780 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
31134799 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:31136109 original size:46 final size:45
Alignment explanation
Indices: 31136023--31136195 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 45
31136013 GCATATCCGT
* *
31136023 GCCGATGCTATCTCCCAGACATGATCTTACACT-GACACATCTCGTA-
1 GCCGATGCT-TGTCCCAGACATG-TCTTACACTGGATACATCTC-TAG
31136069 GCCGATGCTTGTCCCAGACATGTCTTACACTGGATTACATCT-TAAG
1 GCCGATGCTTGTCCCAGACATGTCTTACACTGGA-TACATCTCT-AG
* * * * *
31136115 GCCGATGGTTGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCTTGTCCCAGACATGTCTTACACT-GGA-TACATCTCTAG
*
31136161 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
1 GCCGATG-CTTGTCCCAGACAT-GTCTTACACTGG
31136196 CTCACACCAA
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.09
45 15 0.14
46 57 0.53
47 16 0.15
48 10 0.09
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCTTGTCCCAGACATGTCTTACACTGGATACATCTCTAG
Found at i:31139542 original size:16 final size:16
Alignment explanation
Indices: 31139521--31139598 Score: 55
Period size: 16 Copynumber: 5.4 Consensus size: 16
31139511 ATAAGGGACA
31139521 ATATGATTAGTTTTAG
1 ATATGATTAGTTTTAG
**
31139537 ATATGAACAG---TA-
1 ATATGATTAGTTTTAG
31139549 ATATGATTAGTTTTAG
1 ATATGATTAGTTTTAG
**
31139565 ATATGAACAG---TA-
1 ATATGATTAGTTTTAG
*
31139577 ATATGATTATTTTTAG
1 ATATGATTAGTTTTAG
31139593 ATATGA
1 ATATGA
31139599 ACAGTAAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
12 15 0.33
13 4 0.09
15 4 0.09
16 22 0.49
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (16 bp):
ATATGATTAGTTTTAG
Found at i:31139552 original size:28 final size:28
Alignment explanation
Indices: 31139520--31139609 Score: 164
Period size: 28 Copynumber: 3.2 Consensus size: 28
31139510 TATAAGGGAC
31139520 AATATGATTAGTTTTAGATATGAACAGT
1 AATATGATTAGTTTTAGATATGAACAGT
31139548 AATATGATTAGTTTTAGATATGAACAGT
1 AATATGATTAGTTTTAGATATGAACAGT
*
31139576 AATATGATTATTTTTAGATATGAACAGT
1 AATATGATTAGTTTTAGATATGAACAGT
31139604 AA-ATGA
1 AATATGA
31139610 CATGAACTAC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
27 4 0.07
28 57 0.93
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (28 bp):
AATATGATTAGTTTTAGATATGAACAGT
Found at i:31141420 original size:15 final size:14
Alignment explanation
Indices: 31141387--31141413 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31141377 AAAAATATAT
31141387 AAATTTTAAAAATA
1 AAATTTTAAAAATA
31141401 AAATTTTAAAAAT
1 AAATTTTAAAAAT
31141414 GATAATTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTTTAAAAATA
Found at i:31141669 original size:26 final size:25
Alignment explanation
Indices: 31141639--31141690 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
31141629 GCATTCAAAT
31141639 ATTTAATATTATAAT-TTTCTT-TTTTA
1 ATTTAA-ATT-TAATGTTT-TTATTTTA
31141665 ATTTAAATTTAATGTTTTTATTTTA
1 ATTTAAATTTAATGTTTTTATTTTA
31141690 A
1 A
31141691 ATAAACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.25
25 12 0.50
26 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTAAATTTAATGTTTTTATTTTA
Found at i:31141947 original size:7 final size:7
Alignment explanation
Indices: 31141935--31141962 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
31141925 ATTAACAAAA
31141935 AAAATAT
1 AAAATAT
31141942 AAAATAT
1 AAAATAT
31141949 AAAATAT
1 AAAATAT
31141956 AAAATAT
1 AAAATAT
31141963 GAGGAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:31143006 original size:16 final size:15
Alignment explanation
Indices: 31142985--31143014 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31142975 TTTTTCATCG
31142985 TTTTCTACCTCTTTCA
1 TTTTCTACCT-TTTCA
31143001 TTTTCTACCTTTTC
1 TTTTCTACCTTTTC
31143015 CATCTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTCTACCTTTTCA
Found at i:31145845 original size:39 final size:39
Alignment explanation
Indices: 31145778--31145869 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 39
31145768 TCCCTACCTT
* ** * *
31145778 CACTATTTAATTCCTCATTGTAATTTGGTAACTCTGCCC
1 CACTATTTAGTTCCTCATTACAAGTTGGTAACTCAGCCC
* * *
31145817 TACTCTTTAGTTCCTCATTACAAGTTGGTATCTCAGCCC
1 CACTATTTAGTTCCTCATTACAAGTTGGTAACTCAGCCC
31145856 CACTATTTAGTTCC
1 CACTATTTAGTTCC
31145870 ATTTCCATAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (39 bp):
CACTATTTAGTTCCTCATTACAAGTTGGTAACTCAGCCC
Found at i:31150191 original size:28 final size:28
Alignment explanation
Indices: 31150151--31150206 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31150141 AGAGAAGGAA
31150151 GAATTATGCCAAGGCCATGCCACTAAAC
1 GAATTATGCCAAGGCCATGCCACTAAAC
31150179 GAATTATGCCAAGGCCATGCCACTAAAC
1 GAATTATGCCAAGGCCATGCCACTAAAC
31150207 TAACAGGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (28 bp):
GAATTATGCCAAGGCCATGCCACTAAAC
Found at i:31156008 original size:19 final size:20
Alignment explanation
Indices: 31155984--31156021 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31155974 GGTACCACCA
31155984 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
31156003 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
31156022 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:31156316 original size:46 final size:46
Alignment explanation
Indices: 31156249--31156370 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
31156239 CGCCCCTAAG
* * *
31156249 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
31156295 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
31156341 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
31156371 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:31156389 original size:46 final size:45
Alignment explanation
Indices: 31156247--31156389 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
31156237 CCCGCCCCTA
* ** *
31156247 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
31156292 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
31156338 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
31156385 AGTGA
1 AGTGA
31156390 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:31167277 original size:25 final size:25
Alignment explanation
Indices: 31167219--31167280 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
31167209 TTTGCTTGAA
*
31167219 AATTTATATGATAGGAAAATCGTATG
1 AATTTAT-TGATAGGAAAATCGTATC
** **
31167245 AAAATATTGATAGGAAAATTTTATC
1 AATTTATTGATAGGAAAATCGTATC
31167270 AATTTATTGAT
1 AATTTATTGAT
31167281 TAGTTAGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.39
Consensus pattern (25 bp):
AATTTATTGATAGGAAAATCGTATC
Found at i:31174012 original size:19 final size:20
Alignment explanation
Indices: 31173988--31174025 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31173978 GGTACCACCA
31173988 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
31174007 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
31174026 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:31174320 original size:46 final size:45
Alignment explanation
Indices: 31174253--31174416 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 45
31174243 CGCCCCTAAG
* *
31174253 TGAACTCGGATTCAACTCAACGAGCTCAGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATCCATAAA
* * **
31174299 TGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCAT-AAA
* * * *
31174346 CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCATAAA
31174392 TGAACTCGGACTCAACTCAACGAGT
1 TGAACTCGGACTCAACTCAACGAGT
31174417 CCGGATCCTC
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 52 0.55
47 32 0.34
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAA
Found at i:31174413 original size:93 final size:93
Alignment explanation
Indices: 31174254--31174422 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
31174244 GCCCCTAAGT
* *
31174254 GAACTCGGATTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
31174319 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTCCGGATGCCTAGTTACATCTCAC
* * *
31174347 GAACTCGAACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
31174411 ACGAGTCCGGAT
65 ACGAGTCCGGAT
31174423 CCTCAACCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTCCGGATGCCTAGTTACATCTCAC
Found at i:31174440 original size:46 final size:45
Alignment explanation
Indices: 31174248--31174433 Score: 114
Period size: 46 Copynumber: 4.0 Consensus size: 45
31174238 TAACCCGCCC
* * *
31174248 CTAAGTGAACTCGGATTCAACTCAACGAGCTCAGGCATTCGC-ATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAG-TCCGG-A-TC-CTAACCAT
* *
31174295 -TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTCCGGAT-CCTA---ACCAT
* * * * * ***
31174342 CTCA-CGAACTCGAACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTCCGGATCCTAACCAT
31174385 CCATAAGTGAACTCGGACTCAACTCAACGAGTCCGGATCCTCAACCAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTCCGGATCCT-AACCAT
31174433 C
1 C
31174434 CTAGTGACAT
Statistics
Matches: 107, Mismatches: 19, Indels: 26
0.70 0.12 0.17
Matches are distributed among these distances:
43 5 0.05
44 4 0.04
45 7 0.07
46 55 0.51
47 31 0.29
48 5 0.05
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTCCGGATCCTAACCAT
Found at i:31174879 original size:30 final size:30
Alignment explanation
Indices: 31174845--31174904 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31174835 ATTTAATACG
31174845 AACTTGAAG-AAAATTACACTTTTGCCCCTA
1 AACTT-AAGCAAAATTACACTTTTGCCCCTA
** *
31174875 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTAAGCAAAATTACACTTTTGCCCCTA
31174905 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTAAGCAAAATTACACTTTTGCCCCTA
Found at i:31178928 original size:61 final size:63
Alignment explanation
Indices: 31178853--31179004 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 63
31178843 CTATTCAGAA
* *
31178853 ATCAGAGT-TAACTGGGCCTTAGCCCATATTAATATTAATCTGGGCCATAGCCC-CTTAC-AGT
1 ATCAGAGTAT-ACTGGGCCTTAGCCCATATTAATATCAATCTGGGCCATAGCCCTATTACAAGT
* * * *
31178914 ATCAGAGTATACTGGG-CTTAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTTAGCCCATATTAATATCAATCTGGGCCATAGCCCTATTACAAGT
* **
31178976 -TGAGA-TATGTTGGGCCTT-GCCCATATTAA
1 ATCAGAGTATACTGGGCCTTAGCCCATATTAA
31179005 CACAGTTGGG
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
60 47 0.62
61 25 0.33
62 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (63 bp):
ATCAGAGTATACTGGGCCTTAGCCCATATTAATATCAATCTGGGCCATAGCCCTATTACAAGT
Found at i:31179019 original size:20 final size:20
Alignment explanation
Indices: 31178994--31179039 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
31178984 GTTGGGCCTT
31178994 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
31179014 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
31179033 GCCCATA
1 GCCCATA
31179040 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:31183418 original size:40 final size:40
Alignment explanation
Indices: 31183370--31183598 Score: 395
Period size: 40 Copynumber: 5.7 Consensus size: 40
31183360 ACAAACACAT
* *
31183370 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31183410 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
31183450 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31183490 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31183530 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31183570 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
31183599 CAATGCTCAT
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31197362 original size:30 final size:29
Alignment explanation
Indices: 31197326--31197467 Score: 126
Period size: 30 Copynumber: 4.8 Consensus size: 29
31197316 TCCTCTTGAC
31197326 TTAGATAGCCACAGAGGCATCCATACATCA
1 TTAGATAGCCACA-AGGCATCCATACATCA
* *
31197356 TTAGATAGCCACAAGGGAATCCACACATCA
1 TTAGATAGCCACAA-GGCATCCATACATCA
* * *
31197386 TTAGATAGTCACAAAGGCATCC--ACTTGAA
1 TTAGATAGCCAC-AAGGCATCCATACAT-CA
* * **
31197415 TTATATAGCCACAGAAGTGTCCATACATCA
1 TTAGATAGCCACA-AGGCATCCATACATCA
*
31197445 TTAGATAGTCACAAGGGCATCCA
1 TTAGATAGCCACAA-GGCATCCA
31197468 GATTCATACA
Statistics
Matches: 87, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
28 4 0.05
29 18 0.21
30 60 0.69
31 5 0.06
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (29 bp):
TTAGATAGCCACAAGGCATCCATACATCA
Found at i:31197599 original size:32 final size:31
Alignment explanation
Indices: 31197547--31197660 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 31
31197537 ATAATTTTTT
*
31197547 CACAAAGG-TT-TACATGTAACATAGAACAAC
1 CACAAAGGCTTCTACATATAACA-AGAACAAC
* *
31197577 CACAAAGGCTTCTACATATAACAAGTTA-TAC
1 CACAAAGGCTTCTACATATAACAAG-AACAAC
*
31197608 CAAAAAGGC-TC-ACATATAACACAGAACAAC
1 CACAAAGGCTTCTACATATAACA-AGAACAAC
*
31197638 CACAAAGGCTTCCACATATAACA
1 CACAAAGGCTTCTACATATAACA
31197661 CGTTCCGCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.16
30 22 0.31
31 16 0.23
32 21 0.30
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (31 bp):
CACAAAGGCTTCTACATATAACAAGAACAAC
Found at i:31197623 original size:29 final size:30
Alignment explanation
Indices: 31197574--31197687 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 30
31197564 AACATAGAAC
*
31197574 AACCACAAAGGCTTCTACATATAACAAGTTA
1 AACCAAAAAGGCTTC-ACATATAACAAGTTA
* *
31197605 TACCAAAAAGGC-TCACATATAACACAG-AA
1 AACCAAAAAGGCTTCACATATAACA-AGTTA
* * *
31197634 CAACCACAAAGGCTTCCACATATAACACGTTC
1 -AACCAAAAAGGCTT-CACATATAACAAGTTA
** *
31197666 CGCCAAAAAGG-ATCACATATAA
1 AACCAAAAAGGCTTCACATATAA
31197688 TAGATTTAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
29 20 0.30
30 15 0.23
31 20 0.30
32 11 0.17
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (30 bp):
AACCAAAAAGGCTTCACATATAACAAGTTA
Found at i:31197634 original size:61 final size:61
Alignment explanation
Indices: 31197558--31197687 Score: 188
Period size: 61 Copynumber: 2.1 Consensus size: 61
31197548 ACAAAGGTTT
* * * * *
31197558 ACATGTAACATAGAACAACCACAAAGGCTTCTACATATAACAAGTTATACCAAAAAGGCTC
1 ACATATAACACAGAACAACCACAAAGGCTTCCACATATAACAAGTTACACCAAAAAGGATC
* * *
31197619 ACATATAACACAGAACAACCACAAAGGCTTCCACATATAACACGTTCCGCCAAAAAGGATC
1 ACATATAACACAGAACAACCACAAAGGCTTCCACATATAACAAGTTACACCAAAAAGGATC
31197680 ACATATAA
1 ACATATAA
31197688 TAGATTTAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (61 bp):
ACATATAACACAGAACAACCACAAAGGCTTCCACATATAACAAGTTACACCAAAAAGGATC
Found at i:31197661 original size:32 final size:32
Alignment explanation
Indices: 31197558--31197661 Score: 117
Period size: 32 Copynumber: 3.3 Consensus size: 32
31197548 ACAAAGGTTT
* * *
31197558 ACATGTAACATAGAACAACCACAAAGGCTTCT
1 ACATATAACACAGAACAACCACAAAGGCTTCC
* * *
31197590 ACATATAACA-AGTTA-TACCAAAAAGGC-T-C
1 ACATATAACACAG-AACAACCACAAAGGCTTCC
31197619 ACATATAACACAGAACAACCACAAAGGCTTCC
1 ACATATAACACAGAACAACCACAAAGGCTTCC
31197651 ACATATAACAC
1 ACATATAACAC
31197662 GTTCCGCCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
29 11 0.19
30 13 0.22
31 13 0.22
32 22 0.37
ACGTcount: A:0.47, C:0.26, G:0.10, T:0.17
Consensus pattern (32 bp):
ACATATAACACAGAACAACCACAAAGGCTTCC
Found at i:31204560 original size:8 final size:8
Alignment explanation
Indices: 31204549--31204573 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31204539 CGGCAAATCT
31204549 CGAAATGC
1 CGAAATGC
31204557 CGAAATGC
1 CGAAATGC
31204565 CGAAATGC
1 CGAAATGC
31204573 C
1 C
31204574 AAAAAACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.24, T:0.12
Consensus pattern (8 bp):
CGAAATGC
Found at i:31204990 original size:29 final size:29
Alignment explanation
Indices: 31204810--31204988 Score: 270
Period size: 29 Copynumber: 6.2 Consensus size: 29
31204800 ATGAAACCAT
* *
31204810 CCATATGAATGTGATTTGGGCCAAATGGG
1 CCATACGAATGTGATTTGGGCCTAATGGG
*
31204839 CCATACGGATGTGATTTGGGCCTAATGGG
1 CCATACGAATGTGATTTGGGCCTAATGGG
*
31204868 CCATACAAATGTGATTTGGGCCTAATGGG
1 CCATACGAATGTGATTTGGGCCTAATGGG
31204897 CCATACGAATGTGATTTGGGCCTAATGGG
1 CCATACGAATGTGATTTGGGCCTAATGGG
*
31204926 CCATA-GAAATGTGATTTGGGCCTAGTGGG
1 CCATACG-AATGTGATTTGGGCCTAATGGG
* * *
31204955 CCATATGAATGAGATTTGGGCCTAGTGGG
1 CCATACGAATGTGATTTGGGCCTAATGGG
31204984 CCATA
1 CCATA
31204989 TGCATGTATG
Statistics
Matches: 140, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
28 1 0.01
29 138 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
CCATACGAATGTGATTTGGGCCTAATGGG
Found at i:31227700 original size:47 final size:47
Alignment explanation
Indices: 31227631--31227735 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
31227621 CCCTTCGGGA
* *
31227631 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATACGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATACGGC
*
31227678 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATACGGC
31227725 CTTATCACATA
1 CTTATCACATA
31227736 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATACGGC
Found at i:31231358 original size:49 final size:47
Alignment explanation
Indices: 31231235--31231362 Score: 132
Period size: 49 Copynumber: 2.7 Consensus size: 47
31231225 AAGGTGTAAT
* * * * *
31231235 GCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCATCCATTGA
1 GCCGATGCTATGTCCCAGACATGGTCTTACACAGACTCATCCATCGA
** * *
31231282 GTTGATGCTAAAGTCCTAGACATGGTCTTACACAGACT-ATCGACATCGA
1 GCCGATGCT-ATGTCCCAGACATGGTCTTACACAGACTCATC--CATCGA
31231331 GGCCGATGCTATGTCCCAGACATGGTCTTACA
1 -GCCGATGCTATGTCCCAGACATGGTCTTACA
31231363 TTGGCTCTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
47 9 0.14
48 23 0.36
49 25 0.39
50 7 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (47 bp):
GCCGATGCTATGTCCCAGACATGGTCTTACACAGACTCATCCATCGA
Found at i:31239714 original size:59 final size:54
Alignment explanation
Indices: 31239641--31239769 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 54
31239631 TAGGGTCTGA
* *
31239641 ATTTAGCCTGGACTGGTAATTCAGATCCAA-GCTC-ATTAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGA--CAATACTCTA-T-GAGT--TTAT-ATTGCAGGGG
*
31239700 ATTTAGCCTGGACTGGTAATTCTGACAATACTCTATGAGTTTATATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGACAATACTCTATGAGTTTATATTGCAGGGG
31239754 ATTTAGCCTGGACTGG
1 ATTTAGCCTGGACTGG
31239770 CAATCCCGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
54 26 0.40
55 3 0.05
57 7 0.11
58 4 0.06
59 25 0.38
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATTCAGACAATACTCTATGAGTTTATATTGCAGGGG
Found at i:31250932 original size:29 final size:29
Alignment explanation
Indices: 31250889--31250947 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
31250879 AACCACTTAG
31250889 ACTAAGGTTCATTTCATATTAGTTTTATT
1 ACTAAGGTTCATTTCATATTAGTTTTATT
*
31250918 ACTAAGGTTCCTTTCATATTAGTTTTATT
1 ACTAAGGTTCATTTCATATTAGTTTTATT
31250947 A
1 A
31250948 ATACTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (29 bp):
ACTAAGGTTCATTTCATATTAGTTTTATT
Found at i:31256419 original size:40 final size:40
Alignment explanation
Indices: 31256345--31256569 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
31256335 AACCCAAGTA
* * * *
31256345 CCTTCAGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
31256384 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
31256424 CCTTCGGGACTTAGCCCAGG-TATAGCAACCACTCA-CACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAG---TCACT-AGCACAAATG
*
31256467 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
31256507 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
31256547 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
31256570 CATCCGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
39 12 0.07
40 113 0.69
41 3 0.02
42 2 0.01
43 33 0.20
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:31256465 original size:83 final size:80
Alignment explanation
Indices: 31256345--31256569 Score: 319
Period size: 83 Copynumber: 2.8 Consensus size: 80
31256335 AACCCAAGTA
* * * * * *
31256345 CCTTCAGGATTTAG-CCGGATATAGCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
31256409 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
31256424 CCTTCGGGACTTAGCCCAGG-TATAGCAACCACTCACACAAATGCCTTCGGGACTTCGCCCGGAT
1 CCTTCGGGACTTAGCCC-GGATATAG-AA--ACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
31256488 ATAGTCACTAGCACAAATG
62 ATAGTCACTAGCACAAATG
* *
31256507 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
31256570 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 12 0.09
80 41 0.32
81 3 0.02
82 3 0.02
83 71 0.55
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:31263874 original size:37 final size:37
Alignment explanation
Indices: 31263814--31263889 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
31263804 TATTACGAAA
* * *
31263814 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
31263851 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
31263888 TC
1 TC
31263890 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:31264088 original size:47 final size:47
Alignment explanation
Indices: 31264010--31264639 Score: 936
Period size: 47 Copynumber: 13.2 Consensus size: 47
31264000 CCCTTCGGGA
* * * * * **
31264010 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264057 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31264104 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31264200 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264247 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31264296 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264343 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31264391 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264438 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31264487 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31264534 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31264582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
31264631 CTTATCACA
1 CTTATCACA
31264640 ATTTAGAATT
Statistics
Matches: 531, Mismatches: 42, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
47 265 0.50
48 88 0.17
49 178 0.34
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:31264205 original size:96 final size:95
Alignment explanation
Indices: 31264010--31264641 Score: 1009
Period size: 96 Copynumber: 6.6 Consensus size: 95
31264000 CCCTTCGGGA
** * * * * ** * *
31264010 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
*
31264074 CTTTCACATTCATCACATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
31264104 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31264169 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
31264200 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31264265 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31264296 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACAATATATAC
31264360 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
31264391 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31264456 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31264487 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACAATATATAC
31264551 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
31264582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAAT
31264642 TTAGAATTCA
Statistics
Matches: 506, Mismatches: 23, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
94 48 0.09
95 134 0.26
96 274 0.54
97 50 0.10
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31264432 original size:191 final size:191
Alignment explanation
Indices: 31264010--31264639 Score: 1050
Period size: 191 Copynumber: 3.3 Consensus size: 191
31264000 CCCTTCGGGA
** * * * * ** * *
31264010 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * *
31264073 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
* *
31264138 TCGGCCATTAAGCCTTA-TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAAGCCCTATTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31264200 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
31264265 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
31264330 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31264391 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
31264456 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
31264521 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31264582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA
31264640 ATTTAGAATT
Statistics
Matches: 418, Mismatches: 17, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
190 45 0.11
191 237 0.57
192 86 0.21
193 50 0.12
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (191 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31266323 original size:39 final size:38
Alignment explanation
Indices: 31266269--31266345 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 38
31266259 CTCTCCCTAA
*
31266269 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCC-AATGCTAACCT
*
31266308 ATCCAAGTTCGGCATATTCAACAACCCAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAATGCTAACCT
31266346 CAACGTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 11 0.31
39 25 0.69
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.23
Consensus pattern (38 bp):
ATCCAAATTCGGCATATTCAACAACCCAATGCTAACCT
Found at i:31268443 original size:40 final size:40
Alignment explanation
Indices: 31268399--31268677 Score: 160
Period size: 40 Copynumber: 7.0 Consensus size: 40
31268389 GAATACATGT
* * * *
31268399 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* ***
31268439 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* *
31268479 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* * ** * * *
31268519 CCACAAGCTC-AATTGC-CTTCGGGTCTTAACCCGGGTATAG
1 -CACCAGCACGAA-TGCTCTTCGGAACTTAGCCCGGATATAA
** * *
31268559 CAACTC-GCACGAATGC-CTTCGGGTCTTAGCCCGGATGTAT
1 C-AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
** ** *
31268599 CAACTTGCAC-AATTGC-CTTCGGGTCTTAGCCCGGATATAT
1 C-ACCAGCACGAA-TGCTCTTCGGAACTTAGCCCGGATATAA
* * **
31268639 CAATTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATATA
1 C-A-CCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
31268678 TCAATTCGCA
Statistics
Matches: 198, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.02
40 181 0.91
41 14 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
Found at i:31268579 original size:80 final size:80
Alignment explanation
Indices: 31268484--31268728 Score: 321
Period size: 80 Copynumber: 3.0 Consensus size: 80
31268474 TACCTCACTA
* * * * *
31268484 GCACGAATGCTCTTCGGAAT-TTAGCCCGGATATAACCACAAGCTCAATTGCCTTCGGGTCTTAA
1 GCACGAATGC-CTTCGG-GTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAA
* * *
31268548 CCCGGGTATAGCAACTC
64 CCCGGATATATCAATTC
* * *
31268565 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACAATTGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
31268630 CGGATATATCAATTC
66 CGGATATATCAATTC
* * * * *
31268645 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
31268710 CGGATATATCAATTC
66 CGGATATATCAATTC
31268725 GCAC
1 GCAC
31268729 ACATAGTGCT
Statistics
Matches: 146, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 135 0.92
81 10 0.07
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
CGGATATATCAATTC
Found at i:31268579 original size:120 final size:120
Alignment explanation
Indices: 31268428--31268721 Score: 283
Period size: 120 Copynumber: 2.5 Consensus size: 120
31268418 CGGGACCTAG
* * *
31268428 CCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGA
1 CCCGGATATAGCAACTC-GCACGAATGC-CTTCGGAACTTAGCCCGGATACATCAACTAGCAC-A
* * *
31268490 A-TGCTCTTCGGAAT-TTAGCCCGGATATAACCACAAGCTCAATTGCCTTCGGGTCTTAA
63 ATTGC-CTTCGG-ATCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
* ** ** *
31268548 CCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACAATT
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
* * *** *
31268613 GCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAG
66 GCCTTCGGATCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
* * * ** * *
31268668 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAA
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAA
31268722 TTCGCACACA
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
119 1 0.01
120 121 0.83
121 22 0.15
122 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (120 bp):
CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
GCCTTCGGATCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
Found at i:31268678 original size:40 final size:40
Alignment explanation
Indices: 31268532--31268729 Score: 308
Period size: 40 Copynumber: 5.0 Consensus size: 40
31268522 CAAGCTCAAT
* * * * *
31268532 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
31268572 TGCCTTCGGGTCTTAGCCCGGATGTATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
31268612 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
31268652 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
31268692 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACA
31268730 CATAGTGCTT
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 143 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:31268786 original size:29 final size:29
Alignment explanation
Indices: 31268747--31268825 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31268737 CTTAATAATC
*
31268747 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31268777 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31268806 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31268826 ATCTCCAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31268891 original size:43 final size:43
Alignment explanation
Indices: 31268830--31268944 Score: 221
Period size: 43 Copynumber: 2.7 Consensus size: 43
31268820 GTGCCAATCT
31268830 CCAATCTCGCAACCGTGAACACTTATTGCCCGCACACTTAGTG
1 CCAATCTCGCAACCGTGAACACTTATTGCCCGCACACTTAGTG
*
31268873 CCAATCTCGCAACCGTGAATACTTATTGCCCGCACACTTAGTG
1 CCAATCTCGCAACCGTGAACACTTATTGCCCGCACACTTAGTG
31268916 CCAATCTCGCAACCGTGAACACTTATTGC
1 CCAATCTCGCAACCGTGAACACTTATTGC
31268945 TGAAAACCAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
CCAATCTCGCAACCGTGAACACTTATTGCCCGCACACTTAGTG
Found at i:31270870 original size:37 final size:37
Alignment explanation
Indices: 31270810--31270885 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
31270800 TATTACGAAA
* * *
31270810 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
31270847 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
31270884 TC
1 TC
31270886 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:31271084 original size:47 final size:47
Alignment explanation
Indices: 31271006--31271635 Score: 936
Period size: 47 Copynumber: 13.2 Consensus size: 47
31270996 CCCTTCGGGA
* * * * * **
31271006 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271053 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
31271100 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271147 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31271196 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31271292 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271339 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31271387 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271434 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31271483 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
31271530 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
31271578 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
31271627 CTTATCACA
1 CTTATCACA
31271636 ATTTAGAATT
Statistics
Matches: 531, Mismatches: 42, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
47 265 0.50
48 88 0.17
49 178 0.34
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:31271201 original size:96 final size:95
Alignment explanation
Indices: 31271006--31271637 Score: 1009
Period size: 96 Copynumber: 6.6 Consensus size: 95
31270996 CCCTTCGGGA
** * * * * ** * *
31271006 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
*
31271070 CTTTCACATTCATCACATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
31271100 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31271165 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
31271196 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31271261 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31271292 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACAATATATAC
31271356 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
31271387 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
31271452 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31271483 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACAATATATAC
31271547 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
31271578 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAAT
31271638 TTAGAATTCA
Statistics
Matches: 506, Mismatches: 23, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
94 48 0.09
95 134 0.26
96 274 0.54
97 50 0.10
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31271428 original size:191 final size:191
Alignment explanation
Indices: 31271006--31271635 Score: 1050
Period size: 191 Copynumber: 3.3 Consensus size: 191
31270996 CCCTTCGGGA
** * * * * ** * *
31271006 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * *
31271069 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
* *
31271134 TCGGCCATTAAGCCTTA-TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAAGCCCTATTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31271196 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
31271261 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
31271326 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31271387 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
31271452 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
31271517 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31271578 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA
31271636 ATTTAGAATT
Statistics
Matches: 418, Mismatches: 17, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
190 45 0.11
191 237 0.57
192 86 0.21
193 50 0.12
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (191 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCCATTAAGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31273321 original size:39 final size:39
Alignment explanation
Indices: 31273267--31273344 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
31273257 CTCTCCCTAA
*
31273267 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
31273306 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
31273345 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:31276531 original size:79 final size:81
Alignment explanation
Indices: 31276395--31276579 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31276385 TTGAATGATG
*
31276395 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31276459 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31276474 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31276536 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
31276554 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31276580 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:31276593 original size:40 final size:40
Alignment explanation
Indices: 31276396--31276579 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
31276386 TGAATGATGT
* * * *
31276396 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31276436 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
31276476 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31276514 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31276555 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31276580 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31276601 original size:79 final size:79
Alignment explanation
Indices: 31276396--31276612 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
31276386 TGAATGATGT
** * * * **
31276396 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
31276459 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
31276476 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
31276541 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
31276555 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
31276613 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:31284368 original size:39 final size:41
Alignment explanation
Indices: 31284253--31284435 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 41
31284243 TTGAATGATG
* * *
31284253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
31284293 TCCGGACTAAGAT-CCGAAGGCATTTGTG-GAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
31284332 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
31284371 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
31284410 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31284436 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
38 16 0.13
39 67 0.54
40 33 0.27
41 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:31284457 original size:78 final size:78
Alignment explanation
Indices: 31284254--31284468 Score: 181
Period size: 78 Copynumber: 2.7 Consensus size: 78
31284244 TGAATGATGT
** * * * **
31284254 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
31284317 TGTGGAGATACTAATT
63 TGTGGAGATACTAATA
** * *
31284333 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA-TTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
31284397 GCGAGTTACT-ATAA
66 G-GAGATACTAAT-A
* * *
31284411 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
31284469 TACGTGATTT
Statistics
Matches: 114, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
77 8 0.07
78 64 0.56
79 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GGAGATACTAATA
Found at i:31286793 original size:38 final size:35
Alignment explanation
Indices: 31286738--31286839 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 35
31286728 GGGCTAAAGA
*
31286738 CCCACAGGCTATATGCTGGAAATATATCCGGGTTAAAT
1 CCCACAGGCT-TGTGCTGG-AATATATCC-GGTTAAAT
*
31286776 CCCACAGGCTTCGTGCTGGTATTATATCCGGTTAAAT
1 CCCACAGGCTT-GTGCTGG-AATATATCCGGTTAAAT
* * *
31286813 CCCGCAGGCCTAGTGCTGGTATATATC
1 CCCACAGG-CTTGTGCTGGAATATATC
31286840 TGAGCTTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 6 0.11
37 23 0.42
38 26 0.47
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (35 bp):
CCCACAGGCTTGTGCTGGAATATATCCGGTTAAAT
Found at i:31286821 original size:37 final size:36
Alignment explanation
Indices: 31286759--31286865 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 36
31286749 TATGCTGGAA
*
31286759 ATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGT
1 ATATATCC-GGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
31286796 ATTATATCCGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 A-TATATCCGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
31286833 ATATATCTGAGCTTAAGT-CCGCAGGTTTCGTGC
1 ATATATCCG-G-TTAAATCCCGCAGGCTTCGTGC
31286866 CAGTGACTGG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
36 7 0.12
37 40 0.68
38 12 0.20
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (36 bp):
ATATATCCGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:31294198 original size:31 final size:31
Alignment explanation
Indices: 31294155--31294241 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
31294145 TCAATCTCAG
31294155 CATAT-ACTGGGCCGAGGCCTTTACATTACT
1 CATATCACTGGGCCGAGGCCTTTACATTACT
* * * *
31294185 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAGGCCTTTACATTACT
*
31294216 CATATCACTGGGCCGAAGCCCTTTAC
1 CATATCACTGGGCCG-AGGCCTTTAC
31294242 TGTAACAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.11
31 35 0.74
32 7 0.15
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAGGCCTTTACATTACT
Found at i:31294472 original size:25 final size:25
Alignment explanation
Indices: 31294444--31294527 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
31294434 CTAGAGGCCT
*
31294444 AGCCTCTTTTAAT-AATTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
31294469 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
**
31294495 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
31294520 AG-CCTTTT
1 AGCCCTTTT
31294528 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.13
25 18 0.34
26 28 0.53
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:31294496 original size:26 final size:26
Alignment explanation
Indices: 31294460--31294527 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
31294450 TTTTAATAAT
*
31294460 TGGGGCAAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAAGCCCTTTTCGATAAAC
*
31294486 TGGGGCAAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAAGCCCTTTTCGATAAAC
31294512 TGGGGC-AAAG-CCTTTT
1 TGGGGCAAAAGCCCTTTT
31294528 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 6 0.15
25 4 0.10
26 30 0.75
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
TGGGGCAAAAGCCCTTTTCGATAAAC
Found at i:31297188 original size:27 final size:26
Alignment explanation
Indices: 31297144--31297194 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31297134 CCTCGCTGAA
*
31297144 TCTGGTGGCCTCGCCACATATATCTTT
1 TCTGGTGACCTCGCCACA-ATATCTTT
* *
31297171 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
31297195 GGCAGCCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTTT
Found at i:31300824 original size:47 final size:47
Alignment explanation
Indices: 31300707--31300981 Score: 388
Period size: 47 Copynumber: 5.8 Consensus size: 47
31300697 AATTCTAAAT
* * *
31300707 TGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
31300756 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
31300803 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
31300850 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
31300897 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * *
31300944 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
31300982 TAAATGTGAT
Statistics
Matches: 204, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 166 0.81
49 38 0.19
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:31301166 original size:36 final size:37
Alignment explanation
Indices: 31301111--31301188 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
31301101 TCGAGCTCTA
* *
31301111 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31301147 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31301184 AAGAC
1 AAGAC
31301189 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31302956 original size:18 final size:18
Alignment explanation
Indices: 31302935--31302973 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
31302925 TGTTTGAGTT
31302935 TTCGAGATTAGATTTGTG
1 TTCGAGATTAGATTTGTG
31302953 TTCGAGATTAGATTTGTG
1 TTCGAGATTAGATTTGTG
31302971 TTC
1 TTC
31302974 CGAAAANNNN
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (18 bp):
TTCGAGATTAGATTTGTG
Found at i:31319160 original size:40 final size:39
Alignment explanation
Indices: 31319076--31319260 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
31319066 TTGAATGATG
* * * *
31319076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
31319116 TCCGGACTAAGATCCGAAGGCATTTGTGAGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31319156 TCCGGGCTAAGCCCGAAAGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31319195 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
31319236 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
31319261 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 33 0.28
40 78 0.65
41 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31319282 original size:79 final size:79
Alignment explanation
Indices: 31319132--31319283 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
31319122 CTAAGATCCG
* ** *
31319132 AAGGCATTTGTGAGAGATACTAATTCCGGGCTAAGCCCGAAAGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAAGCATTTGAACGAGTGACTAAATC
31319197 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * * *
31319211 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTAT
1 AAGGCATTTGTGAGAGATACTAAT-ACCGGGCTAAG-CCCGAAAGCATTTGAACGAGTGA-CTAA
31319274 ATCC-GGTTAA
63 ATCCGGGTTAA
31319284 ATTCCGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.03
79 35 0.57
80 24 0.39
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAAGCATTTGAACGAGTGACTAAATC
CGGGTTAAGTCCCA
Found at i:31322979 original size:65 final size:65
Alignment explanation
Indices: 31322899--31323028 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
31322889 TTTGTAAGCC
31322899 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
1 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
31322964 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
1 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
31323029 AACAAATTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (65 bp):
TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
Found at i:31330446 original size:47 final size:47
Alignment explanation
Indices: 31330328--31330626 Score: 490
Period size: 47 Copynumber: 6.3 Consensus size: 47
31330318 TCGTAGTGTA
31330328 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31330375 TATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
31330424 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
31330471 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31330518 TATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
31330565 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31330612 TATAAATGTGATAAG
1 TATATATGTGATAAG
31330627 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 190 0.81
49 46 0.19
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:31330801 original size:37 final size:37
Alignment explanation
Indices: 31330745--31330823 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31330735 CCGAGCTCTA
* * *
31330745 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31330782 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31330819 AAGAC
1 AAGAC
31330824 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31337498 original size:22 final size:23
Alignment explanation
Indices: 31337473--31337520 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
31337463 CTGAATTTTT
31337473 TTCT-TTTTGCCCCT-GAATTGCA
1 TTCTGTTTT-CCCCTAGAATTGCA
* *
31337495 TTCTGTTTTCTCCTAGATTTGCA
1 TTCTGTTTTCCCCTAGAATTGCA
31337518 TTC
1 TTC
31337521 GACCACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (23 bp):
TTCTGTTTTCCCCTAGAATTGCA
Found at i:31348708 original size:47 final size:47
Alignment explanation
Indices: 31348654--31348783 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
31348644 GTGCGAATAA
* * * *
31348654 TACCTTGATTTGGCTACGGGGCATGATATAGGTATTTTGAGAGGAA-C
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGA-GAAGC
* * * * * *
31348701 TACCTTGATTTGGCTATGGGTCATGGTATAAGTACTCTGTGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGC
*
31348748 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
31348784 TACCGATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 2 0.03
47 67 0.97
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGC
Found at i:31349457 original size:136 final size:136
Alignment explanation
Indices: 31349213--31349478 Score: 469
Period size: 136 Copynumber: 2.0 Consensus size: 136
31349203 TTAGAGTCAT
* * * *
31349213 TTTGATATTTTTTGAGCTGTGATTGTTAGTCATGTGATTTGGCTTGTTAATGATGTAAATGTTGG
1 TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
31349278 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
66 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
31349343 GAGGCA
131 GAGGCA
31349349 TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
1 TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
* * *
31349414 TATGTTTTTAGCCATTTATGTTGGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
66 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
31349479 AATGCCTTAT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 123 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (136 bp):
TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
GAGGCA
Found at i:31350568 original size:161 final size:161
Alignment explanation
Indices: 31350301--31350745 Score: 739
Period size: 161 Copynumber: 2.8 Consensus size: 161
31350291 CTCGAACCTC
* *
31350301 GTTTAAGCAAGTTTTAAGGTCTCGTAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* *
31350366 TGTGATATTGAATGTTTGATAATTGTTATATTGTTTGGTAATGCCTCGTAACCCTATTCTAG-CG
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTC-AGACG
* * *
31350430 ATGGATACGGGTTAGGGGTATTACATTTTTTG
130 ATGAATACGGGTTAGGGGTATTACATTTATTA
* *
31350462 GTTTAAGCATGTTTTAAGGTCTCATAGACCTATTTAACGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* * *
31350527 TGTGATATTGAAAGTTTGATAAATGTTATATTGTCTGGTAATGCCTCATAACCCTATTCCGACGA
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCAGACGA
31350592 TGAATACGGGTTAGGGGTATTACATTTATTA
131 TGAATACGGGTTAGGGGTATTACATTTATTA
*
31350623 GTTTAAGCATGTTTTAAGGTCTCACAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* *
31350688 TGTGATATTGAATGTTTGATAAATGTTATATTGTCCGGTAATGCCTTGTAACCCTATT
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATT
31350746 ATGACGGTGG
Statistics
Matches: 264, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
160 1 0.00
161 263 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (161 bp):
GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCAGACGA
TGAATACGGGTTAGGGGTATTACATTTATTA
Found at i:31356517 original size:49 final size:48
Alignment explanation
Indices: 31356453--31356554 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
31356443 GGGACACGTT
* * *
31356453 CGTGTGAGGTGGCTTAAGCCGTGTTTAGAGTCTGCTAAATAGACACGGC
1 CGTGTGAGGTGGCTTAAGCCATG-TTACAATCTGCTAAATAGACACGGC
* * *
31356502 CGTGTG-GTGTGGCTTAGGCCATGTTACAATCTGTTAAATAGACACGGG
1 CGTGTGAG-GTGGCTTAAGCCATGTTACAATCTGCTAAATAGACACGGC
31356550 CGTGT
1 CGTGT
31356555 CAACTACACG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 27 0.59
49 19 0.41
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (48 bp):
CGTGTGAGGTGGCTTAAGCCATGTTACAATCTGCTAAATAGACACGGC
Found at i:31358209 original size:28 final size:28
Alignment explanation
Indices: 31358147--31358214 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
31358137 AATTAATAAA
* *
31358147 AATAAAATTATATTTTATTTTTTAAATT
1 AATAAAATTATATTTAATTTTTAAAATT
*
31358175 AAAAAAATTAT-TTTAATTATTTAAAAATT
1 AATAAAATTATATTTAATT-TTT-AAAATT
*
31358204 -ATAAAAATATA
1 AATAAAATTATA
31358215 AACTATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 6 0.19
28 21 0.66
29 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATAAAATTATATTTAATTTTTAAAATT
Found at i:31363033 original size:12 final size:12
Alignment explanation
Indices: 31363016--31363041 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31363006 AAAATAGGGC
31363016 TTTAGCGGCGTT
1 TTTAGCGGCGTT
31363028 TTTAGCGGCGTT
1 TTTAGCGGCGTT
31363040 TT
1 TT
31363042 ACCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:31367804 original size:63 final size:63
Alignment explanation
Indices: 31367705--31367833 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
31367695 TGATGCGGTC
31367705 ATGTTTAAATTATTTTATATTCTTATAAAATTTGATACATAAATAATTTGTATTATATACAAT
1 ATGTTTAAATTATTTTATATTCTTATAAAATTTGATACATAAATAATTTGTATTATATACAAT
*
31367768 ATGTTTAAATTATTTTATTTTCTTATAAAATTTGATACATAAATAATTTGTATTATATACAAT
1 ATGTTTAAATTATTTTATATTCTTATAAAATTTGATACATAAATAATTTGTATTATATACAAT
31367831 ATG
1 ATG
31367834 CAATATTTCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (63 bp):
ATGTTTAAATTATTTTATATTCTTATAAAATTTGATACATAAATAATTTGTATTATATACAAT
Found at i:31368911 original size:240 final size:240
Alignment explanation
Indices: 31368482--31368973 Score: 896
Period size: 240 Copynumber: 2.0 Consensus size: 240
31368472 ATAAGTATGA
31368482 ATTAAT-TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTC
1 ATTAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTC
31368546 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
31368611 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACATATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACATATGATGAATCTTAA
31368676 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
196 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
* * *
31368721 ATTAATATTTATTACCATGTAGCTTGCTTGTTCATTAAAATTACAACAATAGCTGACCTTCTCTC
1 ATTAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTC
31368786 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
* *
31368851 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACATATGATGAATCTTAA
* **
31368916 AAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATTTCATTTACT
196 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
31368961 ATTGAATATTTAT
1 ATT-AATATTTAT
31368974 ATAACCTTAA
Statistics
Matches: 243, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
239 6 0.02
240 228 0.94
241 9 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (240 bp):
ATTAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTC
CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
TATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACATATGATGAATCTTAA
AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
Found at i:31369188 original size:9 final size:9
Alignment explanation
Indices: 31369161--31369327 Score: 136
Period size: 9 Copynumber: 17.6 Consensus size: 9
31369151 ATTGATCATT
*
31369161 ACTTAAATA
1 ACTTACATA
*
31369170 AATTACATA
1 ACTTACATA
*
31369179 ACTTAAATA
1 ACTTACATA
* *
31369188 ACTCATATA
1 ACTTACATA
31369197 ACTTACATA
1 ACTTACATA
*
31369206 ATTTACATAACA
1 ACTTACAT---A
31369218 ACTTACATA
1 ACTTACATA
*
31369227 ACTCACATA
1 ACTTACATA
31369236 ACTTACATA
1 ACTTACATA
* *
31369245 ATTTACTTAACA
1 ACTTAC---ATA
31369257 ACTTACATA
1 ACTTACATA
*
31369266 ACTCACATA
1 ACTTACATA
31369275 ACTTACATA
1 ACTTACATA
*
31369284 ATTTACATA
1 ACTTACATA
*
31369293 ACTCACATA
1 ACTTACATA
*
31369302 ACGTACATAACA
1 ACTTACAT---A
31369314 ACTTACATA
1 ACTTACATA
31369323 ACTTA
1 ACTTA
31369328 ACTAATACAT
Statistics
Matches: 125, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 102 0.82
12 23 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:31369228 original size:48 final size:47
Alignment explanation
Indices: 31369172--31369328 Score: 161
Period size: 48 Copynumber: 3.3 Consensus size: 47
31369162 CTTAAATAAA
* * *
31369172 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * * *
31369220 TTACATAACTCACATAACTTACATAATTTACTTAACAACTTACATAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
31369268 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAAC-TACATAACAAC
31369316 TTACATAACTTAA
1 TTACATAACTTAA
31369329 CTAATACATG
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
47 4 0.05
48 78 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (47 bp):
TTACATAACTTAAATAACTTACATAACTTACATAACTACATAACAAC
Found at i:31369231 original size:39 final size:39
Alignment explanation
Indices: 31369178--31369294 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
31369168 TAAATTACAT
* *
31369178 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
31369217 AACTTACATAACTCACATAACTTACATAATTTACTTAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
31369256 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
31369295 TCACATAACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:31369278 original size:57 final size:57
Alignment explanation
Indices: 31369217--31369325 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
31369207 TTTACATAAC
* ** *
31369217 AACTTACATAACTCACATAACTTACATAATTTACTTAACAACTTACATAACTCACAT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCACAT
* *
31369274 AACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
31369326 TAACTAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (57 bp):
AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCACAT
Found at i:31369323 original size:39 final size:36
Alignment explanation
Indices: 31369161--31369312 Score: 180
Period size: 39 Copynumber: 4.1 Consensus size: 36
31369151 ATTGATCATT
* * * *
31369161 ACTTAAATAAATTACATAACTTAAATAACTCATATA
1 ACTTACATAATTTACATAACTTACATAACTCACATA
31369197 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT---AACTTACATAACTCACATA
*
31369236 ACTTACATAATTTACTTAACAACTTACATAACTCACATA
1 ACTTACATAATTTAC---ATAACTTACATAACTCACATA
*
31369275 ACTTACATAATTTACATAACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAACTTACATAAC-TCACATA
31369311 AC
1 AC
31369313 AACTTACATA
Statistics
Matches: 102, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
36 34 0.33
37 1 0.01
39 66 0.65
42 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (36 bp):
ACTTACATAATTTACATAACTTACATAACTCACATA
Found at i:31375275 original size:43 final size:43
Alignment explanation
Indices: 31375174--31375290 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
31375164 ACTGGGCAAA
* * * *
31375174 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAGATCCTGGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTAGTCT
*
31375217 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTAGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTAGTCT
**
31375260 TTAGCGGCGTTTTTTGTGGAAGCGCCGCTAA
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAA
31375291 TTTTTGTGGC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTAGTCT
Found at i:31375730 original size:7 final size:7
Alignment explanation
Indices: 31375718--31375781 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
31375708 TTTATTTTTT
*
31375718 GGTTTAC
1 GGTTTAA
31375725 GGTTTAA
1 GGTTTAA
**
31375732 TATTTAA
1 GGTTTAA
31375739 GGTTTAA
1 GGTTTAA
* *
31375746 GGTCTAT
1 GGTTTAA
31375753 GGTTTAA
1 GGTTTAA
*
31375760 GGTTTTAT
1 GG-TTTAA
31375768 GGTTTAA
1 GGTTTAA
31375775 GGTTTAA
1 GGTTTAA
31375782 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:31375770 original size:15 final size:15
Alignment explanation
Indices: 31375734--31375784 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
31375724 CGGTTTAATA
*
31375734 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
*
31375748 TCTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
31375763 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
31375778 TTAATGG
1 TTTATGG
31375785 CCATGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:31375780 original size:14 final size:14
Alignment explanation
Indices: 31375718--31375780 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
31375708 TTTATTTTTT
*
31375718 GGTTTACGGTTTAA
1 GGTTTATGGTTTAA
** *
31375732 TATTTAAGGTTTAA
1 GGTTTATGGTTTAA
*
31375746 GGTCTATGGTTTAA
1 GGTTTATGGTTTAA
31375760 GGTTTTATGGTTTAA
1 GG-TTTATGGTTTAA
31375775 GGTTTA
1 GGTTTA
31375781 ATGGCCATGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:31376386 original size:7 final size:7
Alignment explanation
Indices: 31376376--31376429 Score: 99
Period size: 7 Copynumber: 7.6 Consensus size: 7
31376366 AAATAAACTC
31376376 AAAATTT
1 AAAATTT
31376383 AAAAATTT
1 -AAAATTT
31376391 AAAATTT
1 AAAATTT
31376398 AAAATTT
1 AAAATTT
31376405 AAAATTT
1 AAAATTT
31376412 AAAATTT
1 AAAATTT
31376419 AAAATTT
1 AAAATTT
31376426 AAAA
1 AAAA
31376430 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 39 0.85
8 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:31376393 original size:21 final size:22
Alignment explanation
Indices: 31376376--31376486 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 22
31376366 AAATAAACTC
31376376 AAAATTTAAAAATTTAAAATTT-
1 AAAATTT-AAAATTTAAAATTTA
31376398 AAAATTTAAAATTTAAAATTT-
1 AAAATTTAAAATTTAAAATTTA
* * * *
31376419 AAAATTTAAAAATAAAAAATAA
1 AAAATTTAAAATTTAAAATTTA
** * * * *
31376441 AAAATAAAAAAATAAAAAATAA
1 AAAATTTAAAATTTAAAATTTA
*
31376463 AAAACTTAAAAATTTAAAATTTA
1 AAAA-TTTAAAATTTAAAATTTA
31376486 A
1 A
31376487 TATTTTAGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
21 31 0.41
22 31 0.41
23 14 0.18
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATTTAAAATTTAAAATTTA
Found at i:31376396 original size:15 final size:15
Alignment explanation
Indices: 31376376--31376486 Score: 111
Period size: 15 Copynumber: 7.6 Consensus size: 15
31376366 AAATAAACTC
31376376 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
31376391 AAAATTT-AAAATTT
1 AAAATTTAAAAATTT
31376405 AAAATTT-AAAATTT
1 AAAATTTAAAAATTT
*
31376419 AAAATTTAAAAA-TA
1 AAAATTTAAAAATTT
* * **
31376433 AAAAATAAAAAATAA
1 AAAATTTAAAAATTT
* * **
31376448 AAAAATAAAAAATAA
1 AAAATTTAAAAATTT
*
31376463 AAAACTTAAAAATTT
1 AAAATTTAAAAATTT
31376478 AAAATTTAA
1 AAAATTTAA
31376487 TATTTTAGTC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
14 39 0.46
15 46 0.54
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTTAAAAATTT
Found at i:31376436 original size:7 final size:7
Alignment explanation
Indices: 31376426--31376466 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
31376416 TTTAAAATTT
31376426 AAAAATA
1 AAAAATA
31376433 AAAAATA
1 AAAAATA
31376440 AAAAATAA
1 AAAAAT-A
31376448 AAAAATA
1 AAAAATA
31376455 AAAAATA
1 AAAAATA
31376462 AAAAA
1 AAAAA
31376467 CTTAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:31380617 original size:43 final size:43
Alignment explanation
Indices: 31380555--31380811 Score: 376
Period size: 43 Copynumber: 6.0 Consensus size: 43
31380545 TTGTGTGTGT
*
31380555 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*
31380598 GCGTTTGCGAAAAAGGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* *
31380641 GCGTTTGCGAAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*** *
31380684 GC-TTT--TTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* ** *
31380724 GCGTTTGAGAAAACTGCGCCGCTAAAGGTTATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*
31380767 GCGTTTGCGAAAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
31380810 GC
1 GC
31380812 ATTTTTTTTC
Statistics
Matches: 188, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
40 31 0.16
41 3 0.02
42 3 0.02
43 151 0.80
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (43 bp):
GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
Found at i:31380795 original size:126 final size:127
Alignment explanation
Indices: 31380566--31380818 Score: 427
Period size: 126 Copynumber: 2.0 Consensus size: 127
31380556 CGTTTGTGAA
*
31380566 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAGGCGCCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCTAAAGGTCATG
*
31380631 GTCTTTAGCGGCGTTTGCGAAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCGGC-TTTTTT
66 GTCTTTAGCGGCGTTTGCGAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTTT
* ** *
31380692 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGAGAAAACTGCGCCGCTAAAGGTTATG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCTAAAGGTCATG
**
31380757 GTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCATTTTTT
66 GTCTTTAGCGGCGTTTGCGAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTTT
31380819 TTCAAAAAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
126 112 0.95
127 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (127 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCTAAAGGTCATG
GTCTTTAGCGGCGTTTGCGAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTTT
Found at i:31384839 original size:46 final size:47
Alignment explanation
Indices: 31384750--31384970 Score: 206
Period size: 46 Copynumber: 4.7 Consensus size: 47
31384740 GGTAAAGTGT
* *
31384750 CGATGCCATGTCCCAGACATAGTCTTACACTAAC-TATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CGTCTCGTAGGC
*
31384798 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCG-AGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGTAGGC
* * * *
31384844 CGATGCATGTCCCAGACATGTCTTACATTAGCTCT-CGTCTC-AATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGTAGGC
* * **
31384890 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTTA--TAACGT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG--CTTACGTCTCGTAGGC
*
31384938 CGATGCATGTCCTAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
31384971 CACACACAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 24
0.79 0.09 0.13
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 76 0.52
47 42 0.29
48 23 0.16
49 1 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGTAGGC
Done.