Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 103 of 318
Found at i:31478648 original size:55 final size:56
Alignment explanation
Indices: 31478583--31478697 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
31478573 AGCATGGCTG
* *
31478583 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
31478639 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
31478694 CCAG
1 CCAG
31478698 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:31478660 original size:27 final size:27
Alignment explanation
Indices: 31478608--31478697 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
31478598 GTGACAGAGT
31478608 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
31478637 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
31478664 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
31478692 CACCAG
1 CACCAG
31478698 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:31478850 original size:28 final size:29
Alignment explanation
Indices: 31478803--31478864 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
31478793 AAATTAACCC
*
31478803 TAGGGGTATAAAGGTCATTTTGCACACA-
1 TAGGGGTATAAAGGTAATTTTGCACACAT
* *
31478831 TAGGGGTATAATGGTAATTTTGCATACAT
1 TAGGGGTATAAAGGTAATTTTGCACACAT
31478860 TAGGG
1 TAGGG
31478865 TATTCTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (29 bp):
TAGGGGTATAAAGGTAATTTTGCACACAT
Found at i:31485373 original size:49 final size:49
Alignment explanation
Indices: 31485295--31485487 Score: 242
Period size: 49 Copynumber: 3.9 Consensus size: 49
31485285 AGACAAGGCC
* * * *
31485295 ATCTGGTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACGAATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
* * * * * **
31485344 ATCCGGTACACATAGTAGCCCGCACTTAGTGCTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATT
*
31485394 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
* * *
31485443 ATCTGGTACACGTAGTAGCGTGCACTTAGTACTACACATGTGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
31485488 TCACAATAGA
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 79 0.66
50 41 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
Found at i:31485468 original size:99 final size:99
Alignment explanation
Indices: 31485293--31485488 Score: 293
Period size: 99 Copynumber: 2.0 Consensus size: 99
31485283 GTAGACAAGG
* * * * *
31485293 CCATCTGGTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACGAATTATCCGGTACACATA
1 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATA
*
31485358 GTAGCCCGCACTTAGTGCTACACACGTGACCTAA
66 GTAGCCCGCACTTAGTACTACACACGTGACCTAA
* *
31485392 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTA
1 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATA
** *
31485457 GTAGCGTGCACTTAGTACTACACATGTGACCT
66 GTAGCCCGCACTTAGTACTACACACGTGACCT
31485489 CACAATAGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATA
GTAGCCCGCACTTAGTACTACACACGTGACCTAA
Found at i:31485763 original size:27 final size:27
Alignment explanation
Indices: 31485733--31485786 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31485723 TCATACAACC
* *
31485733 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAAGAATAATTTAACATTCAATT
**
31485760 CATGTAAGAATAATTTGCCATTCAATT
1 CATGTAAGAATAATTTAACATTCAATT
31485787 TCACATGACA
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:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (27 bp):
CATGTAAGAATAATTTAACATTCAATT
Found at i:31494239 original size:93 final size:93
Alignment explanation
Indices: 31494110--31494281 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
31494100 GCCCATAAGT
* * *
31494110 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAAATCGGACTCAACTCAA
31494175 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
31494203 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAAATCGGACTCAACTCAA
*
31494268 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
31494282 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:31494277 original size:46 final size:46
Alignment explanation
Indices: 31494102--31494277 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
31494092 TGTAACTCGC
* * **
31494102 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
31494148 CCATAAGTGAAATCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
31494194 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
31494241 CCATAAGTGAACTCGGACTCAACTCATCGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31494278 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:31497205 original size:49 final size:49
Alignment explanation
Indices: 31496985--31497219 Score: 265
Period size: 49 Copynumber: 4.7 Consensus size: 49
31496975 AAGTCCATCT
* *
31496985 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCA
* * * * ** *
31497034 AGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCA
** * * *
31497084 GACACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCA
* * *
31497135 GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATTATTC-
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-TCA
*
31497184 GGTACACATAGTAACCTGCACTTAGTACTACACACG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACG
31497220 TGACTTCACA
Statistics
Matches: 153, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 70 0.46
50 47 0.31
51 36 0.24
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCA
Found at i:31503748 original size:31 final size:31
Alignment explanation
Indices: 31503707--31503770 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31503697 CCTTTTCATA
*
31503707 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
31503738 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
31503769 TT
1 TT
31503771 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:31504013 original size:24 final size:24
Alignment explanation
Indices: 31503962--31504125 Score: 221
Period size: 24 Copynumber: 7.0 Consensus size: 24
31503952 GCTTTATCAT
* *
31503962 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * **
31503987 ATAACTGGGGAAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
31504011 ATAACTGGGGCATAAGCCC---T-
1 ATAACTGGGGCATAAGCCCTTTTG
31504031 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31504055 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31504079 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31504103 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31504126 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 7, Indels: 11
0.88 0.05 0.08
Matches are distributed among these distances:
20 19 0.15
23 1 0.01
24 95 0.75
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:31504201 original size:20 final size:20
Alignment explanation
Indices: 31504176--31504235 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
31504166 TATGATTACC
31504176 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
31504196 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
*
31504216 TCATGTGCATATAATACATA
1 TCATGTGCATATCATACATA
31504236 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:31504306 original size:25 final size:25
Alignment explanation
Indices: 31504278--31504325 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31504268 ATACATAAAC
* * *
31504278 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31504303 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31504326 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31505515 original size:27 final size:26
Alignment explanation
Indices: 31505480--31505535 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
31505470 GGGCATATTC
* *
31505480 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCATACAGGGCT-TTACG
*
31505507 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTACCATACAGGGCTTTACG
31505533 GTC
1 GTC
31505536 TTTTTACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTTTACG
Found at i:31505541 original size:26 final size:27
Alignment explanation
Indices: 31505465--31505543 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
31505455 TCATACGGAA
31505465 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
31505490 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
31505517 CCTACAGGGCT-TTACGGTCTTTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
31505543 C
1 C
31505544 TTTTAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 8 0.18
26 19 0.42
27 18 0.40
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:31505627 original size:27 final size:26
Alignment explanation
Indices: 31505597--31505652 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
31505587 GTAAATCAAC
*
31505597 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTT-T
*
31505624 AAACCAATGGTACTTCTATAATTTTT
1 AAACCAAAGGTACTTCTATAATTTTT
31505650 AAA
1 AAA
31505653 AAGTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAAGGTACTTCTATAATTTTT
Found at i:31505693 original size:27 final size:27
Alignment explanation
Indices: 31505605--31505743 Score: 95
Period size: 27 Copynumber: 5.0 Consensus size: 27
31505595 ACAAACCAAA
* * **
31505605 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCTGTAATTTTGTAAATCAGG
* * *
31505632 GGTACTTCTATAATTTT-TAAAAAGTCAAG
1 GGTATTTCTGTAATTTTGT--AAA-TCAGG
*
31505661 GGTATTTCTGTAACTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTGTAAATCAGG
** *
31505688 GGTATTT-TGGTAATTTTACAAAT-TGAG
1 GGTATTTCT-GTAATTTTGTAAATCAG-G
*
31505715 GGTATTTCGGTAATTTTGTAAATCGAGG
1 GGTATTTCTGTAATTTTGTAAATC-AGG
31505743 G
1 G
31505744 TAAAATAGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
26 3 0.03
27 56 0.65
28 8 0.09
29 18 0.21
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTGTAAATCAGG
Found at i:31505744 original size:27 final size:27
Alignment explanation
Indices: 31505696--31506150 Score: 271
Period size: 27 Copynumber: 16.9 Consensus size: 27
31505686 GGGGTATTTT
* * **
31505696 GGTAATTTTACAAATTGAGGGTATTTC
1 GGTAATTTTATAAATCGAGGGTAAATC
*
31505723 GGTAATTTTGTAAATCGAGGGTAAAAT-
1 GGTAATTTTATAAATCGAGGGT-AAATC
* * * *
31505750 AGTAATTCTGTAAATCAAGGGTAAAAT-
1 GGTAATTTTATAAATCGAGGGT-AAATC
* * *
31505777 AGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAATC
*
31505804 GGTAATTCTT-TAAATCGAGGGTAAAAC
1 GGTAATT-TTATAAATCGAGGGTAAATC
* * * *
31505831 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAATC
* * * * *
31505858 GATAATTATGTAAATCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAATC
* * * *
31505885 GGTAATTATGTAAATTGTA-GGTAAAAC
1 GGTAATTTTATAAATCG-AGGGTAAATC
* * *
31505912 GGTAATTCTGTAAGTCGAGGGTAAAAT-
1 GGTAATTTTATAAATCGAGGGT-AAATC
* * * *
31505939 GATAATTATGTAAATC-AGGGGTAAAAC
1 GGTAATTTTATAAATCGA-GGGTAAATC
* * * *
31505966 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 GGTAATTTTATAAATCGA-GGGTAAATC
*
31505993 GGTAATTCTATAAATCGAGGGTAAAAT-
1 GGTAATTTTATAAATCGAGGGT-AAATC
* * * * *
31506020 AGTAATTCTGTAAA-CTAAGGGTAAAAC
1 GGTAATTTTATAAATC-GAGGGTAAATC
* *
31506047 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAATC
* *
31506074 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAATC
* * ** *
31506101 AGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAAATC
* * *
31506128 GTTAATTTTACAAGTCGAGGGTA
1 GGTAATTTTATAAATCGAGGGTA
31506151 TTTCAATAAT
Statistics
Matches: 357, Mismatches: 56, Indels: 30
0.81 0.13 0.07
Matches are distributed among these distances:
26 13 0.04
27 332 0.93
28 12 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAATC
Found at i:31505771 original size:54 final size:54
Alignment explanation
Indices: 31505722--31506123 Score: 477
Period size: 54 Copynumber: 7.4 Consensus size: 54
31505712 GAGGGTATTT
* **
31505722 CGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
** * * *
31505776 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTTTAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* * *
31505830 CGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* * * *
31505884 CGGTAATTATGTAAATTGTA-GGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCG-AGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* * * * * *
31505938 TGATAATTATGTAAATC-AGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* **
31505992 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAA
* * ** *
31506046 CGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
* *
31506100 CAGTAATTCTATAAATCGAGGGTA
1 CGGTAATTCTGTAAATCGAGGGTA
31506124 CTTTGTTAAT
Statistics
Matches: 295, Mismatches: 47, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
52 1 0.00
54 291 0.99
55 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (54 bp):
CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
Found at i:31505782 original size:81 final size:81
Alignment explanation
Indices: 31505722--31506123 Score: 476
Period size: 81 Copynumber: 5.0 Consensus size: 81
31505712 GAGGGTATTT
** *
31505722 CGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTA
1 CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTA
31505787 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
31505803 CGGTAATTCTT-TAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA-CGATAATTA
1 CGGTAATT-TTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTC
* *
31505866 TGTAAATCAAGGGTAAAA
64 TATAAATCGAGGGTAAAA
* * * *
31505884 CGGTAATTATGTAAATTGTA-GGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAT-GATAATTA
1 CGGTAATTTTGTAAATCG-AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTC
*
31505947 TGTAAATC-AGGGGTAAAA
64 TATAAATCGA-GGGTAAAA
* * *
31505965 CGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCT
1 CGGTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCT
* *
31506029 GTAAA-CTAAGGGTAAAA
65 ATAAATC-GAGGGTAAAA
* * * ** *
31506046 CGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTA
1 CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTA
31506111 TAAATCGAGGGTA
66 TAAATCGAGGGTA
31506124 CTTTGTTAAT
Statistics
Matches: 286, Mismatches: 22, Indels: 26
0.86 0.07 0.08
Matches are distributed among these distances:
79 1 0.00
80 4 0.01
81 274 0.96
82 7 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (81 bp):
CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:31506160 original size:27 final size:27
Alignment explanation
Indices: 31506048--31506351 Score: 183
Period size: 27 Copynumber: 11.3 Consensus size: 27
31506038 GGGTAAAACG
* * *** *
31506048 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTATTTCA
***
31506075 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
31506102 GTAATTCTATAAATCGAGGGTACTTT--
1 GTAATTTTACAAATCGAGGGTA-TTTCA
*
31506128 GTTAATTTTACAAGTCGAGGGTATTTCA
1 G-TAATTTTACAAATCGAGGGTATTTCA
* **
31506156 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * **
31506183 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* *
31506210 GTAATTTTACAAA-CTAGGGGTATTT-T
1 GTAATTTTACAAATCGA-GGGTATTTCA
* **
31506236 GATAATTTTACAAA-CTAGGGGTATTTTG
1 G-TAATTTTACAAATCGA-GGGTATTTCA
* **
31506264 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* * * *
31506291 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* **
31506318 GTAATTTTACAAAGC-AGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCA
31506344 GTAATTTT
1 GTAATTTT
31506352 GTAAACCAAA
Statistics
Matches: 239, Mismatches: 29, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.10
27 212 0.89
28 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:31506204 original size:81 final size:80
Alignment explanation
Indices: 31506119--31506330 Score: 237
Period size: 81 Copynumber: 2.6 Consensus size: 80
31506109 TATAAATCGA
* * * * * **
31506119 GGGTACTTTGTTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTCA
1 GGGTATTTTGGTAATTTTACAA-ACAAGGGTATTTTAATAATTTTACA-AACGAGGGGTATTTCA
*
31506183 GTAATTTCACAAATTAG
64 GTAATTTCACAAACTAG
* * * **
31506200 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAG
*
31506265 TAATTTTACAAACTAG
65 TAATTTCACAAACTAG
* *
31506281 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACAAA
31506331 GCAGGGTATT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 106 0.96
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAGT
AATTTCACAAACTAG
Found at i:31506365 original size:26 final size:26
Alignment explanation
Indices: 31506201--31506368 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
31506191 ACAAATTAGG
* *
31506201 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
31506228 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
31506255 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
31506282 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
31506308 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
31506335 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
31506361 AGTATTTT
1 GGTATTTT
31506369 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:31508345 original size:48 final size:48
Alignment explanation
Indices: 31508285--31508390 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
31508275 CGGCCACAAT
* *
31508285 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
31508333 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
31508381 ACATATATAT
1 ATATACATAT
31508391 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:31509595 original size:2 final size:2
Alignment explanation
Indices: 31509556--31509586 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31509546 TACATAAGGC
31509556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31509587 CCTATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31511864 original size:14 final size:14
Alignment explanation
Indices: 31511847--31511889 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
31511837 ACACAAAAAT
*
31511847 TTCACAGATATTAA
1 TTCACAGATAATAA
*
31511861 TTCACACATAATAA
1 TTCACAGATAATAA
*
31511875 -TCACAGAAAATAA
1 TTCACAGATAATAA
31511888 TT
1 TT
31511890 TTTAAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (14 bp):
TTCACAGATAATAA
Found at i:31514457 original size:155 final size:155
Alignment explanation
Indices: 31514221--31514554 Score: 385
Period size: 155 Copynumber: 2.2 Consensus size: 155
31514211 TTTAGCAAAA
31514221 GTTGTTGAGCTTTAGTGGCATT-GTCAGCGATTTTTAAAAAATACTACAATAGATCGAGAATTAA
1 GTTGTTGAGCTTTAGTGGCATTAGT-AGCGATTTTTAAAAAATACTACAATAGATCGAGAATTAA
* * * * *
31514285 CGATGCTTGTTGAAAAACACCACTATAGGTCGAGCATTAGTGGCGCTTTTCGAAAAGCCCCATAA
65 CGACGCTTGTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACCCCACAA
* *
31514350 AAAATTTGAGCAAAATGACGTCT-TTT
130 AAAAGTTGAGCAAAAGGACGT-TGTTT
* * * * *
31514376 TTTGTTGAGCTTTAGTGGCATTAGT-GTCGCTTTTTAAAAAATGC-AGTAATGGATTCGAGAATT
1 GTTGTTGAGCTTTAGTGGCATTAGTAG-CGATTTTTAAAAAATACTA-CAATAGA-TCGAGAATT
* * * **
31514439 -A-GTAGCGCTTGTTG-AAAACGCCGCTATAGATTGAGCATTAGCGGCGCTTTTCGAAAAACGTC
63 AACG-A-CGCTTGTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACCCC
*
31514501 GCAAAAAAGTTGAGCAAAAGGACGTTGTTT
126 ACAAAAAAGTTGAGCAAAAGGACGTTGTTT
*
31514531 GTTGTTGAGCTTTAGTAGCATTAG
1 GTTGTTGAGCTTTAGTGGCATTAG
31514555 GGGTGTTAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
154 4 0.03
155 129 0.85
156 19 0.12
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (155 bp):
GTTGTTGAGCTTTAGTGGCATTAGTAGCGATTTTTAAAAAATACTACAATAGATCGAGAATTAAC
GACGCTTGTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACCCCACAAA
AAAGTTGAGCAAAAGGACGTTGTTT
Found at i:31514943 original size:21 final size:21
Alignment explanation
Indices: 31514887--31514945 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
31514877 AAGACATATA
** *
31514887 TTTAGGGTTTAGGGTGT-AGG
1 TTTAGGGTTTAGAATTTAAGG
* *
31514907 TTTATGGTTTGGAATTTAAGG
1 TTTAGGGTTTAGAATTTAAGG
*
31514928 TTTAGGGTTTATAATTTA
1 TTTAGGGTTTAGAATTTA
31514946 GTGTTAATGG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAGAATTTAAGG
Found at i:31519557 original size:74 final size:74
Alignment explanation
Indices: 31519472--31519621 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
31519462 AGATGGATCT
31519472 TTTATTATTATATGAATCGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAACTCTT
1 TTTATTATTATATGAATCGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAACTCTT
31519537 GTTTTAATA
66 GTTTTAATA
31519546 TTTATTATTATATGAATCGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAACTCTT
1 TTTATTATTATATGAATCGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAACTCTT
31519611 GTTTTAATA
66 GTTTTAATA
31519620 TT
1 TT
31519622 CCAAGATATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (74 bp):
TTTATTATTATATGAATCGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAACTCTT
GTTTTAATA
Found at i:31525018 original size:61 final size:62
Alignment explanation
Indices: 31524876--31525018 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 62
31524866 TCAAGCTCTA
*
31524876 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * *
31524938 CTGGGCCATAGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAAT
1 CTGGGCC-TAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
31524998 CTGGGCCGTAGCCCTATTACA
1 CTGGGCC-TAGCCCTATTACA
31525019 AGTTGAGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
60 32 0.46
61 22 0.31
62 15 0.21
63 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (62 bp):
CTGGGCCTAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:31528002 original size:40 final size:40
Alignment explanation
Indices: 31527958--31528218 Score: 136
Period size: 41 Copynumber: 6.4 Consensus size: 40
31527948 TTTAAAATAA
*
31527958 AGAGCAATAGCGGCGTCTTAAGGAAAATGCCACTAAAAAC
1 AGAGCAATAGCGGCGTCTTAAGGAAAACGCCACTAAAAAC
* * ** *
31527998 AGAGCAACAGCGGCGTTTTAGTAAAAAAACGCCACTAAAAAT
1 AGAGCAATAGCGGCGTCTTA--AGGAAAACGCCACTAAAAAC
* * *
31528040 AGAG-AACTAGTGGCG-CTTTAGGTAAAACGCCGCTAAAAACC
1 AGAGCAA-TAGCGGCGTCTTAAGG-AAAACGCCACTAAAAA-C
* * * ** *
31528081 AGATCATTAGTGGCG-CTTTGGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGTCTTAAGG-AAAACGCCACTAAAAA-C
* * ** *
31528122 AGATCATTAGCGGCG-CTTTGGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGTCTTAAGG-AAAACGCCACTAAAAA-C
* * * * **
31528163 AGATCATTAGTGGCG-CTTTAGGTAAAACGCCGGTAAAAACC
1 AGAGCAATAGCGGCGTCTTAAGG-AAAACGCCACTAAAAA-C
* *
31528204 AGATCATTAGCGGCG
1 AGAGCAATAGCGGCG
31528219 GTTTTGGTAA
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 33 0.17
41 132 0.68
42 27 0.14
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (40 bp):
AGAGCAATAGCGGCGTCTTAAGGAAAACGCCACTAAAAAC
Found at i:31528105 original size:41 final size:41
Alignment explanation
Indices: 31528047--31528241 Score: 327
Period size: 41 Copynumber: 4.8 Consensus size: 41
31528037 AATAGAGAAC
31528047 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
1 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
*
31528088 TAGTGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGATCAT
1 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
* *
31528129 TAGCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGATCAT
1 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
*
31528170 TAGTGGCGCTTTAGGTAAAACGCCGGTAAAAACCAGATCAT
1 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
* * *
31528211 TAGCGGCGGTTTTGGTAAAACGCCGCTAAAA
1 TAGTGGCGCTTTAGGTAAAACGCCGCTAAAA
31528242 GTCATAAACC
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
TAGTGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCAT
Found at i:31528487 original size:36 final size:39
Alignment explanation
Indices: 31528417--31528492 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
31528407 ATAGTTTAAG
* * *
31528417 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
31528456 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
31528492 A
1 A
31528493 GTATTTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:31528680 original size:25 final size:25
Alignment explanation
Indices: 31528651--31528702 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
31528641 GAGATTTTGA
31528651 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
*
31528676 ATGTGGAATTAGCATTTGTTTAACT
1 ATGTGGAATTAGCATTTGTTGAACT
31528701 AT
1 AT
31528703 TAGCTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (25 bp):
ATGTGGAATTAGCATTTGTTGAACT
Found at i:31529091 original size:15 final size:15
Alignment explanation
Indices: 31529071--31529101 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31529061 TTTAATTTAG
*
31529071 AAGATAAATGTATAT
1 AAGATAAATATATAT
31529086 AAGATAAATATATAT
1 AAGATAAATATATAT
31529101 A
1 A
31529102 TTATTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:31534294 original size:21 final size:21
Alignment explanation
Indices: 31534265--31534304 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31534255 GTTTTTATAT
*
31534265 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
31534286 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
31534305 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:31541405 original size:40 final size:40
Alignment explanation
Indices: 31541339--31541489 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
31541329 AAATTGAATG
* *
31541339 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
31541378 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
31541418 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
31541458 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31541490 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:31541503 original size:40 final size:39
Alignment explanation
Indices: 31541376--31541505 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
31541366 ATGCTGGAAA
* * *
31541376 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
31541417 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
31541455 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
31541496 TTATATCCGG
1 TTATATCCGG
31541506 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:31544887 original size:24 final size:24
Alignment explanation
Indices: 31544848--31544953 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
31544838 GCCGGCCAAC
*
31544848 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
31544873 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
* *
31544897 TCCTCTCCCTTATTAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
31544921 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
31544945 TCTTCTCCT
1 TCCTCTCCT
31544954 GACAGCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:31547130 original size:20 final size:20
Alignment explanation
Indices: 31547107--31547149 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
31547097 TATTTTTTTT
*
31547107 TTTGGAAAGAATATAATTCC
1 TTTGGAAAGAACATAATTCC
31547127 TTTGGAAAGAACATAATTCC
1 TTTGGAAAGAACATAATTCC
31547147 TTT
1 TTT
31547150 TTTAACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (20 bp):
TTTGGAAAGAACATAATTCC
Found at i:31549649 original size:41 final size:41
Alignment explanation
Indices: 31549604--31549721 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31549594 TGAAAGATAA
31549604 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31549645 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31549675 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31549716 ATGTAG
1 ATGTAG
31549722 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31549660 original size:71 final size:71
Alignment explanation
Indices: 31549572--31549735 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31549562 GAGATGTATC
31549572 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31549637 AGGACA
66 AGGACA
31549643 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31549708 AGGACA
66 AGGACA
31549714 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31549736 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31557215 original size:41 final size:41
Alignment explanation
Indices: 31557170--31557287 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31557160 TGAAAGATAA
31557170 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31557211 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31557241 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31557282 ATGTAG
1 ATGTAG
31557288 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31557226 original size:71 final size:71
Alignment explanation
Indices: 31557138--31557301 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31557128 GAGATGTATC
31557138 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31557203 AGGACA
66 AGGACA
31557209 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31557274 AGGACA
66 AGGACA
31557280 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31557302 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31560966 original size:20 final size:20
Alignment explanation
Indices: 31560938--31561006 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
31560928 TAGCTGTCCT
*
31560938 TATTCGCACTACGGTGCCCC
1 TATTTGCACTACGGTGCCCC
**
31560958 TATTTGCAC-ATTTGTGCCCC
1 TATTTGCACTA-CGGTGCCCC
* * * *
31560978 TGTCTGCACTTCGGTGCTCC
1 TATTTGCACTACGGTGCCCC
31560998 TATTATGCA
1 TATT-TGCA
31561007 TTTATGATGC
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.86
21 4 0.11
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.35
Consensus pattern (20 bp):
TATTTGCACTACGGTGCCCC
Found at i:31565954 original size:175 final size:175
Alignment explanation
Indices: 31565663--31566008 Score: 656
Period size: 175 Copynumber: 2.0 Consensus size: 175
31565653 GTTATTATCG
***
31565663 GCTACTAGTGAAAGATTCGGATGTGCCGAAAACTACATTTAGAACCAGGTATGGACACTATGAAT
1 GCTACTAGTGAAAGATTCGGATGTGAAAAAAACTACATTTAGAACCAGGTATGGACACTATGAAT
31565728 TCCTTGTGATGCCGTTTGGTTTAACTAACACACCTGCAGTATTTATGGATTTGATGAACAAAATC
66 TCCTTGTGATGCCGTTTGGTTTAACTAACACACCTGCAGTATTTATGGATTTGATGAACAAAATC
*
31565793 TTCAGATTGTATTTAGACAGATTTGTTGTGGTATTTATTGAATCA
131 TTCAGATTGTATTTAGACAAATTTGTTGTGGTATTTATTGAATCA
31565838 GCTACTAGTGAAAGATTCGGATGTGAAAAAAACTACATTTAGAACCAGGTATGGACACTATGAAT
1 GCTACTAGTGAAAGATTCGGATGTGAAAAAAACTACATTTAGAACCAGGTATGGACACTATGAAT
31565903 TCCTTGTGATGCCGTTTGGTTTAACTAACACACCTGCAGTATTTATGGATTTGATGAACAAAATC
66 TCCTTGTGATGCCGTTTGGTTTAACTAACACACCTGCAGTATTTATGGATTTGATGAACAAAATC
31565968 TTCAGATTGTATTTAGACAAATTTGTTGTGGTATTTATTGA
131 TTCAGATTGTATTTAGACAAATTTGTTGTGGTATTTATTGA
31566009 TGATATTCTG
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 167 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (175 bp):
GCTACTAGTGAAAGATTCGGATGTGAAAAAAACTACATTTAGAACCAGGTATGGACACTATGAAT
TCCTTGTGATGCCGTTTGGTTTAACTAACACACCTGCAGTATTTATGGATTTGATGAACAAAATC
TTCAGATTGTATTTAGACAAATTTGTTGTGGTATTTATTGAATCA
Found at i:31567028 original size:21 final size:21
Alignment explanation
Indices: 31567002--31567044 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31566992 TACAAAAAAT
*
31567002 TTTGCACGAAGCTCATAGTGG
1 TTTGCACAAAGCTCATAGTGG
31567023 TTTGCACAAAGCTCATAGTGG
1 TTTGCACAAAGCTCATAGTGG
31567044 T
1 T
31567045 AACTTGTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (21 bp):
TTTGCACAAAGCTCATAGTGG
Found at i:31567144 original size:14 final size:14
Alignment explanation
Indices: 31567125--31567155 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31567115 TGAAACACGA
*
31567125 TATTTCTGACTTTG
1 TATTTCTAACTTTG
31567139 TATTTCTAACTTTG
1 TATTTCTAACTTTG
31567153 TAT
1 TAT
31567156 CCAAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (14 bp):
TATTTCTAACTTTG
Found at i:31575907 original size:40 final size:40
Alignment explanation
Indices: 31575703--31575907 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
31575693 CGGAGTTTAA
** *
31575703 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31575743 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
31575783 CCAGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31575823 CCGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31575863 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTGAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31575903 CCGGA
1 CCGGA
31575908 CATCATTCGA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.90
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31578245 original size:55 final size:55
Alignment explanation
Indices: 31578118--31578245 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
31578108 GCTGTGGGAG
* ** ** * *
31578118 AACCTGCCAAAACAACACGGGCGTGCGACACTTCCGTGCCTTGAAACCGTGGCTG
1 AACCTGCCAAAACAACACGGGCGTGAGACACGCCCGTGCCAAGAAACCATGGCTA
* ** *
31578173 AACCTGTCAAATTAACACGGGCGTGAGACACGCCCGTGCCAAGCAACCATGGGC-A
1 AACCTGCCAAAACAACACGGGCGTGAGACACGCCCGTGCCAAGAAACCAT-GGCTA
31578228 AACCTGCCAAAACAACAC
1 AACCTGCCAAAACAACAC
31578246 TGGCATGGAC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
55 55 0.95
56 3 0.05
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (55 bp):
AACCTGCCAAAACAACACGGGCGTGAGACACGCCCGTGCCAAGAAACCATGGCTA
Found at i:31582619 original size:12 final size:13
Alignment explanation
Indices: 31582583--31582620 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31582573 AAATATTTGA
31582583 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
31582596 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
31582610 CTTG-TCTTAAT
1 CTTGTTCTTAAT
31582621 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:31585249 original size:25 final size:26
Alignment explanation
Indices: 31585215--31585263 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
31585205 AGGGTTGCCG
** *
31585215 ATTTCAGCTCTTATGAGCTTACCGAT
1 ATTTCAGCTCGGAGGAGCTTACCGAT
31585241 ATTT-AGCTCGGAGGAGCTTACCG
1 ATTTCAGCTCGGAGGAGCTTACCG
31585264 TTTATAGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
ATTTCAGCTCGGAGGAGCTTACCGAT
Found at i:31596575 original size:22 final size:22
Alignment explanation
Indices: 31596549--31596595 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
31596539 CCAAATTCCA
31596549 TACTAAGCACATTCCAAAAACT
1 TACTAAGCACATTCCAAAAACT
*
31596571 TACTAAGCACATTCCAAAAGCT
1 TACTAAGCACATTCCAAAAACT
31596593 TAC
1 TAC
31596596 CAATTTGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.28, G:0.06, T:0.23
Consensus pattern (22 bp):
TACTAAGCACATTCCAAAAACT
Found at i:31597260 original size:42 final size:43
Alignment explanation
Indices: 31597214--31597318 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 43
31597204 CCTCAGACAG
*
31597214 GGTCTTACACGAAAACA-AA-TACGATGCGAATGTCCCAGATGT
1 GGTCTTACACGAAAACATAAGT-CGATGCCAATGTCCCAGATGT
*
31597256 GGTCTTACACGTAAATCATAAGTCGATGCCAATGTCCCAGATGT
1 GGTCTTACACG-AAAACATAAGTCGATGCCAATGTCCCAGATGT
*
31597300 GGTCTTACACCAAAACATA
1 GGTCTTACACGAAAACATA
31597319 TATCGGATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.20
43 12 0.21
44 32 0.57
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAAACATAAGTCGATGCCAATGTCCCAGATGT
Found at i:31597290 original size:44 final size:42
Alignment explanation
Indices: 31597152--31597316 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
31597142 AGCTCGTACA
** * * * * *
31597152 ATGCCAACATCCCAGACGTGGTCGTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACACGAAAACAAATA-CG
* *
31597195 ATGCCACTG-CCTCAGACAG-GGTCTTACACGAAAACAAATACG
1 ATGCCAATGTCC-CAGA-TGTGGTCTTACACGAAAACAAATACG
* *
31597237 ATGCGAATGTCCCAGATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGATGTGGTCTTACACG-AAAACA-AA-TACG
*
31597281 ATGCCAATGTCCCAGATGTGGTCTTACACCAAAACA
1 ATGCCAATGTCCCAGATGTGGTCTTACACGAAAACA
31597317 TATATCGGAT
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 39 0.39
44 33 0.33
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATGTGGTCTTACACGAAAACAAATACG
Found at i:31604831 original size:40 final size:40
Alignment explanation
Indices: 31604786--31605032 Score: 261
Period size: 40 Copynumber: 6.2 Consensus size: 40
31604776 TCGGAATACA
*
31604786 CCGGATATAACCACAT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
31604826 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
31604866 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
31604906 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
31604945 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
31604985 CCGGATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTC-GCACGAATGCCTTCGGGTCTTAGC
31605025 CCGGATAT
1 CCGGATAT
31605033 CATTCAATTG
Statistics
Matches: 178, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.17
40 143 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:31605015 original size:119 final size:120
Alignment explanation
Indices: 31604802--31605030 Score: 295
Period size: 119 Copynumber: 1.9 Consensus size: 120
31604792 ATAACCACAT
* *
31604802 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
* * *
31604867 CGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
66 CGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
* * *
31604922 GCACGAATGCCTTCGGGTCTTAG-CCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAA
** * *
31604984 CCCGGATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGCCCGGAT
64 CCCGGATATAACAACTC-GCACAAATGCCTTCGGGACTTAGCCCGGAT
31605031 ATCATTCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
117 1 0.01
118 3 0.03
119 67 0.71
120 23 0.24
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (120 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
Found at i:31612887 original size:40 final size:40
Alignment explanation
Indices: 31612842--31613088 Score: 268
Period size: 40 Copynumber: 6.2 Consensus size: 40
31612832 TCGGAATACA
*
31612842 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGC
* * * * *
31612882 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
31612922 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
31612962 CCGGATTTAACAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
31613001 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTAGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
31613041 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
31613081 CCGGATAT
1 CCGGATAT
31613089 CATTCAATTG
Statistics
Matches: 179, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.17
40 144 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:31613071 original size:119 final size:120
Alignment explanation
Indices: 31612858--31613086 Score: 302
Period size: 119 Copynumber: 1.9 Consensus size: 120
31612848 ATAACCACAT
* *
31612858 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
* * * *
31612923 CGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
66 CGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
* * *
31612978 GCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAA
** * *
31613040 CCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
64 CCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
31613087 ATCATTCAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
117 1 0.01
118 2 0.02
119 77 0.82
120 14 0.15
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
Found at i:31619410 original size:26 final size:26
Alignment explanation
Indices: 31619355--31619410 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
31619345 CAACCTTAAC
* *
31619355 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
31619381 CCTA-GGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
31619407 CCTA
1 CCTA
31619411 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:31625055 original size:17 final size:17
Alignment explanation
Indices: 31625035--31625076 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
31625025 TTTGTTTCAC
*
31625035 TCTCTTTTTTATTCTTT
1 TCTCTTTTTTATTATTT
31625052 TCTCTCTTTTTATTATTT
1 TCTCT-TTTTTATTATTT
31625070 T-TCTTTT
1 TCTCTTTT
31625077 CTTTTGCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTCTTTTTTATTATTT
Found at i:31625058 original size:21 final size:21
Alignment explanation
Indices: 31625029--31625068 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31625019 CTCAAATTTG
31625029 TTTCACTCTCTTTT-TTATTCT
1 TTTCACTCT-TTTTATTATTCT
*
31625050 TTTCTCTCTTTTTATTATT
1 TTTCACTCTTTTTATTATT
31625069 TTTCTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCACTCTTTTTATTATTCT
Found at i:31629323 original size:49 final size:49
Alignment explanation
Indices: 31629251--31629439 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
31629241 TGTGAGGTCA
*
31629251 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCG
* * * * *
31629300 CGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGATCG
* * *
31629351 CGTGTGTAGTACTAAGTGCATGCTACTAC-TGTACCAGATTATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCG
* * * *
31629399 CATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
31629440 GCTTGGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
48 30 0.25
49 48 0.40
50 9 0.08
51 32 0.27
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCG
Found at i:31629426 original size:99 final size:100
Alignment explanation
Indices: 31629248--31629434 Score: 313
Period size: 99 Copynumber: 1.9 Consensus size: 100
31629238 TATTGTGAGG
* *
31629248 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCGCGTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
*
31629313 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
* * *
31629348 TCACGTGTGTAGTACTAAGTGCATGCTACTAC-TGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
31629412 AAGTGCAAGCTACTATGCGTACC
66 AAGTGCAAGCTACTATGCGTACC
31629435 AGATAGCTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 50 0.62
100 31 0.38
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
Found at i:31634308 original size:40 final size:40
Alignment explanation
Indices: 31634263--31634429 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
31634253 CGGAATATAA
31634263 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31634303 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
31634343 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
31634383 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31634422 CCGGATAT
1 CCGGATAT
31634430 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31642328 original size:40 final size:40
Alignment explanation
Indices: 31642283--31642449 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
31642273 CGGAATATAA
31642283 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31642323 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
31642363 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
31642403 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31642442 CCGGATAT
1 CCGGATAT
31642450 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31646534 original size:49 final size:49
Alignment explanation
Indices: 31646455--31646635 Score: 236
Period size: 49 Copynumber: 3.7 Consensus size: 49
31646445 ACTATTGTGA
*
31646455 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** * * *
31646504 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAGAACT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
31646553 GTGTCACGTGTGTAGTACTAAGTGTAGGCTAGTACGTGTACTAGATTATT
1 G-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
31646603 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31646636 TGCATACCAG
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 71 0.66
50 37 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:31646627 original size:99 final size:99
Alignment explanation
Indices: 31646456--31646643 Score: 331
Period size: 99 Copynumber: 1.9 Consensus size: 99
31646446 CTATTGTGAG
*
31646456 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTAC
31646521 TAAGTGCAGGCTACTATGCATACCCGAGAACTGT
66 TAAGTGCAGGCTACTATGCATACCCGAGAACTGT
* * * *
31646555 GTCACGTGTGTAGTACTAAGTGTAGGCTAGTACGTGTACTAGATTATTGGTCACATGTGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTAC
31646620 TAAGTGCAGGCTACTATGCATACC
66 TAAGTGCAGGCTACTATGCATACC
31646644 AGATAGCTTG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (99 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGAGAACTGT
Found at i:31653096 original size:63 final size:62
Alignment explanation
Indices: 31652983--31653107 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 62
31652973 AACTCTTGTA
* * *
31652983 GGAACTAATTTATATAGTTTTACAACACACTCAGGGTACATGCCCATGTGGTTACCCGTGTG
1 GGAACTAACTTATATAGTTTTACAACACACTCAGGGCACACGCCCATGTGGTTACCCGTGTG
* * * * *
31653045 GGAACTACACTTATATAGTTTTACAACACACTTAGGGCACACGCTCGTGTGGTTGCTCGTGTG
1 GGAACTA-ACTTATATAGTTTTACAACACACTCAGGGCACACGCCCATGTGGTTACCCGTGTG
31653108 TGTCATATGG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
62 7 0.13
63 47 0.87
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (62 bp):
GGAACTAACTTATATAGTTTTACAACACACTCAGGGCACACGCCCATGTGGTTACCCGTGTG
Found at i:31654210 original size:13 final size:13
Alignment explanation
Indices: 31654150--31654211 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
31654140 CATTTATTTC
31654150 CATATAACCAATT
1 CATATAACCAATT
* * *
31654163 CTTATAATCATTT
1 CATATAACCAATT
*
31654176 CACATAACCAATT
1 CATATAACCAATT
** *
31654189 TGTACAACCAATT
1 CATATAACCAATT
*
31654202 GATATAACCA
1 CATATAACCA
31654212 TTCGTCATCC
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (13 bp):
CATATAACCAATT
Found at i:31654352 original size:45 final size:45
Alignment explanation
Indices: 31654301--31654510 Score: 203
Period size: 45 Copynumber: 4.7 Consensus size: 45
31654291 TTTTGGCATG
** * *
31654301 ATGCCATAGTGTCTTTCAACTATGGTCTTACACGTCTGAATCGCA
1 ATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCA
* * * ***
31654346 AAGCCATAACGCCTTTTAGCTATGGTCTTACTCGTCTGAATCATG
1 ATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCA
* *
31654391 ATGCCATAACATCTTTCAGCTATGGTTTTACTCGTCTGAATCGCA
1 ATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCA
* * *
31654436 ATGCCATAACATCGTTT-AGCTATGGTCTTACTCTTTTCTGGGAT-G--
1 ATGCCATAACGTC-TTTCAGCTATGGTCTTACTC--GTCT-GAATCGCA
* *
31654481 ATGCCATAATGTCTTTCAACTATGGTCTTA
1 ATGCCATAACGTCTTTCAGCTATGGTCTTA
31654511 TTCTTTTTCT
Statistics
Matches: 136, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
44 3 0.02
45 123 0.90
46 3 0.02
47 4 0.03
48 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (45 bp):
ATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCA
Found at i:31654414 original size:90 final size:90
Alignment explanation
Indices: 31654297--31654510 Score: 261
Period size: 90 Copynumber: 2.4 Consensus size: 90
31654287 TTATTTTTGG
*** * *
31654297 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACGTCTGAATCGCAAAGCCATAACGCCTTT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACACGTCTGAATCGCAAAGCCATAACACCGTT
31654362 TAGCTATGGTCTTACTCGTCTGAAT
66 TAGCTATGGTCTTACTCGTCTGAAT
* * * * *
31654387 CATGATGCCATAACATCTTTCAGCTATGGTTTTACTCGTCTGAATCGCAATGCCATAACATCGTT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACACGTCTGAATCGCAAAGCCATAACACCGTT
* *
31654452 TAGCTATGGTCTTACTCTTTTCTG--G
66 TAGCTATGGTCTTACTC--GTCTGAAT
* **
31654477 GATGATGCCATAATGTCTTTCAACTATGGTCTTA
1 CATGATGCCATAACATCTTTCAACTATGGTCTTA
31654511 TTCTTTTTCT
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
90 101 0.96
92 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (90 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACACGTCTGAATCGCAAAGCCATAACACCGTT
TAGCTATGGTCTTACTCGTCTGAAT
Found at i:31654540 original size:46 final size:46
Alignment explanation
Indices: 31654455--31654601 Score: 217
Period size: 45 Copynumber: 3.2 Consensus size: 46
31654445 CATCGTTTAG
* * *
31654455 CTATGGTCTTACTC-TTTTCTGGGATGATGCCATAATGTCTTTCAA
1 CTATGGTCTTATTCTTTTTCTGGTATAATGCCATAATGTCTTTCAA
*
31654500 CTATGGTCTTATTCTTTTTCTGGTATAATGCCATAGTGTCTTTCAA
1 CTATGGTCTTATTCTTTTTCTGGTATAATGCCATAATGTCTTTCAA
* * *
31654546 CTATGGTCTTATT-TATTTCCGGTATAGTGCCATAATGTCTTTCAA
1 CTATGGTCTTATTCTTTTTCTGGTATAATGCCATAATGTCTTTCAA
31654591 CTATGGTCTTA
1 CTATGGTCTTA
31654602 ATCATTTCCT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 52 0.56
46 41 0.44
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (46 bp):
CTATGGTCTTATTCTTTTTCTGGTATAATGCCATAATGTCTTTCAA
Found at i:31668317 original size:19 final size:19
Alignment explanation
Indices: 31668293--31668335 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
31668283 CATGTGGGTA
31668293 TAAGTGAACGCAAGTATTT
1 TAAGTGAACGCAAGTATTT
31668312 TAAGTGAACGCAAGTATTT
1 TAAGTGAACGCAAGTATTT
31668331 TAAGT
1 TAAGT
31668336 TTATGGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (19 bp):
TAAGTGAACGCAAGTATTT
Found at i:31685816 original size:47 final size:48
Alignment explanation
Indices: 31685762--31685892 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 48
31685752 AATAGATAAG
* * *
31685762 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCTTATC-CTAGAC
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCTCATCACTAAAA
* * * *
31685809 TACCTATACCAAGGGCCGTAGCCAAATCAAGGTAACTCCTCACTAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCTCATCACTAAAA
* * *
31685857 TACCTATAACATGGCCTGTAGCCAAATCAAGTTATC
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATC
31685893 ACTCACACCT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 36 0.51
48 34 0.49
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (48 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCTCATCACTAAAA
Found at i:31690620 original size:40 final size:40
Alignment explanation
Indices: 31690554--31690704 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
31690544 AAATTGAATG
* * *
31690554 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31690593 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
31690633 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
31690673 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31690705 ACATGTTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31694028 original size:40 final size:40
Alignment explanation
Indices: 31693962--31694127 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
31693952 AAATTGAATG
* * *
31693962 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31694001 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
31694041 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31694080 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31694120 ATATCCGG
1 ATATCCGG
31694128 TTATATTCCG
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31697373 original size:24 final size:21
Alignment explanation
Indices: 31697341--31697522 Score: 96
Period size: 24 Copynumber: 7.9 Consensus size: 21
31697331 ACCGAATGTG
31697341 GCACACATAGTGCTTATTATGATC
1 GCACACATAGTGC-TA-TA-GATC
*
31697365 GCACACATAGTGCCATAGAATC
1 GCACACATAGTGCTATAG-ATC
* *
31697387 GCACACACAGTGCCATAGTAAATC
1 GCACACATAGTG-C-TA-TAGATC
*
31697411 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-C-TA-TAGATC
* *
31697435 GCACACACAGTGCCATAGTAAATC
1 GCACACATAGTG-C-TA-TAGATC
* *
31697459 GCACACACAGTGCCATAGTAAATC
1 GCACACATAGTG-C-TA-TAGATC
* *
31697483 GCACACACAGTGCCATATAAATC
1 GCACACATAGTG-C-TATAGATC
*
31697506 GCACACA-AGTGCCATAG
1 GCACACATAGTGCTATAG
31697523 TAAACTTTCC
Statistics
Matches: 146, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
20 3 0.02
21 2 0.01
22 20 0.14
23 15 0.10
24 104 0.71
25 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.19
Consensus pattern (21 bp):
GCACACATAGTGCTATAGATC
Found at i:31697438 original size:48 final size:48
Alignment explanation
Indices: 31697362--31697526 Score: 293
Period size: 48 Copynumber: 3.5 Consensus size: 48
31697352 GCTTATTATG
31697362 ATCGCACACATAGTGCCATAG--AATCGCACACACAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAA
31697408 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAA
*
31697456 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATA-TAA
1 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAA
31697503 ATCGCACACA-AGTGCCATAGTAAA
1 ATCGCACACATAGTGCCATAGTAAA
31697527 CTTTCCCTTT
Statistics
Matches: 116, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
46 35 0.30
47 13 0.11
48 68 0.59
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (48 bp):
ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAA
Found at i:31697483 original size:72 final size:70
Alignment explanation
Indices: 31697362--31697526 Score: 280
Period size: 72 Copynumber: 2.3 Consensus size: 70
31697352 GCTTATTATG
*
31697362 ATCGCACACATAGTGCCATAG--AATCGCACACACAGTGCCATAGTAAATCGCACACATAGTGCC
1 ATCGCACACA-AGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
31697425 ATAGTAA
65 ATA-TAA
31697432 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
1 ATCGCACACA-AGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
31697497 ATATAA
65 ATATAA
31697503 ATCGCACACAAGTGCCATAGTAAA
1 ATCGCACACAAGTGCCATAGTAAA
31697527 CTTTCCCTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
70 34 0.37
71 13 0.14
72 44 0.48
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (70 bp):
ATCGCACACAAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCA
TATAA
Found at i:31705247 original size:24 final size:24
Alignment explanation
Indices: 31705220--31705294 Score: 141
Period size: 24 Copynumber: 3.1 Consensus size: 24
31705210 GCTTATTATG
*
31705220 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
31705244 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
31705268 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
31705292 ATC
1 ATC
31705295 TTCTACCCCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:31708043 original size:28 final size:28
Alignment explanation
Indices: 31708012--31708111 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
31708002 CTGACTGATT
31708012 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTGAAGAAC
* * * *
31708040 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTG-CTCGATTGA-AGAAC
* * *
31708069 TGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACATAGTGCTCGATTGAAGAAC
* *
31708097 TTGCACACACAGTGC
1 TCGCACACATAGTGC
31708112 CTCATAATTC
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 35 0.61
29 22 0.39
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTGAAGAAC
Found at i:31708066 original size:57 final size:57
Alignment explanation
Indices: 31707984--31708115 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 57
31707974 GAAACACACT
* * *
31707984 TCGCATACACAGTTCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
31708040 TCGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
31708097 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
31708116 TAATTCCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 13 0.20
57 49 0.75
58 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:31708194 original size:40 final size:40
Alignment explanation
Indices: 31708143--31708396 Score: 445
Period size: 40 Copynumber: 6.3 Consensus size: 40
31708133 CCTTCGAGGT
* *
31708143 TTAGCACGGATATATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
31708183 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
31708223 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
31708263 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
31708303 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
31708343 TTAGCCCGAATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
31708383 TTAGCCCGGATATA
1 TTAGCCCGGATATA
31708397 AATAACTCTC
Statistics
Matches: 206, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 206 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:31715646 original size:11 final size:10
Alignment explanation
Indices: 31715614--31715688 Score: 68
Period size: 11 Copynumber: 7.5 Consensus size: 10
31715604 CATGAGATTT
31715614 TGATAT-ACA
1 TGATATGACA
31715623 TGACT-TGACA
1 TGA-TATGACA
31715633 TGATATGCACA
1 TGATATG-ACA
*
31715644 TGATATG-TA
1 TGATATGACA
31715653 TGATATGTACA
1 TGATATG-ACA
*
31715664 TGATATG-TA
1 TGATATGACA
31715673 TGATATGAACA
1 TGATATG-ACA
31715684 TGATA
1 TGATA
31715689 AACTCATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
9 21 0.39
10 9 0.17
11 24 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:31715657 original size:9 final size:9
Alignment explanation
Indices: 31715643--31715679 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
31715633 TGATATGCAC
31715643 ATGATATGT
1 ATGATATGT
31715652 ATGATATGT
1 ATGATATGT
31715661 ACATGATATGT
1 --ATGATATGT
31715672 ATGATATG
1 ATGATATG
31715680 AACATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGATATGT
Found at i:31715657 original size:20 final size:20
Alignment explanation
Indices: 31715632--31715688 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
31715622 ATGACTTGAC
*
31715632 ATGATATGCACATGATATGT
1 ATGATATGAACATGATATGT
*
31715652 ATGATATGTACATGATATGT
1 ATGATATGAACATGATATGT
31715672 ATGATATGAACATGATA
1 ATGATATGAACATGATA
31715689 AACTCATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGATATGAACATGATATGT
Found at i:31715793 original size:24 final size:25
Alignment explanation
Indices: 31715736--31715807 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
31715726 GAGGAAGTGC
*
31715736 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
31715761 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
**
31715784 AAAAGAGGCTAGGCCTCCAGTTTA
1 AAAAG-GGCTTTGCC-CCAGTTTA
31715808 ATTATGAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 21 0.51
26 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:31715865 original size:11 final size:11
Alignment explanation
Indices: 31715849--31715907 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
31715839 ACATGACTTG
31715849 ACATGATATGC
1 ACATGATATGC
31715860 ACATGATATG-
1 ACATGATATGC
*
31715870 -TATGATATGC
1 ACATGATATGC
31715880 ACATGATATG-
1 ACATGATATGC
*
31715890 -TATGATATGC
1 ACATGATATGC
31715900 ACATGATA
1 ACATGATA
31715908 AACTCATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:31715876 original size:20 final size:20
Alignment explanation
Indices: 31715851--31715907 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
31715841 ATGACTTGAC
31715851 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
31715871 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
31715891 ATGATATGCACATGATA
1 ATGATATGCACATGATA
31715908 AACTCATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:31715963 original size:219 final size:219
Alignment explanation
Indices: 31715584--31716024 Score: 837
Period size: 219 Copynumber: 2.0 Consensus size: 219
31715574 TACCCCTAGG
31715584 GTTTAATTATGAATTTGATGCATGAGATTTTGATATACATGACTTGACATGATATGCACATGATA
1 GTTTAATTATGAATTTGATGCATGAGATTTTGATATACATGACTTGACATGATATGCACATGATA
*
31715649 TGTATGATATGTACATGATATGTATGATATGAACATGATAAACTCATATATGCATGGGTTGGGTT
66 TGTATGATATGCACATGATATGTATGATATGAACATGATAAACTCATATATGCATGGGTTGGGTT
*
31715714 TTGATATGGATGGAGGAAGTGCAAAAGGGCTTTGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAG
131 TTGATATGGATGGAGGAAGTGCAAAAGGGCTTTGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAG
31715779 TTATTAAAAGAGGCTAGGCCTCCA
196 TTATTAAAAGAGGCTAGGCCTCCA
31715803 GTTTAATTATGAATTTGATGCATGAGATTTTGATATACATGACTTGACATGATATGCACATGATA
1 GTTTAATTATGAATTTGATGCATGAGATTTTGATATACATGACTTGACATGATATGCACATGATA
*
31715868 TGTATGATATGCACATGATATGTATGATATGCACATGATAAACTCATATATGCATGGGTTGGGTT
66 TGTATGATATGCACATGATATGTATGATATGAACATGATAAACTCATATATGCATGGGTTGGGTT
* *
31715933 TTGATATGGATGGAGGAAGTGCAAAAGGGCTTTTCCCCAGTTTATTGAAAAGGGCTTTGCCCTAG
131 TTGATATGGATGGAGGAAGTGCAAAAGGGCTTTGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAG
31715998 TTATTAAAAGAGGCTAGGCCTCCA
196 TTATTAAAAGAGGCTAGGCCTCCA
31716022 GTT
1 GTT
31716025 ATGTGATAAG
Statistics
Matches: 217, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 217 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (219 bp):
GTTTAATTATGAATTTGATGCATGAGATTTTGATATACATGACTTGACATGATATGCACATGATA
TGTATGATATGCACATGATATGTATGATATGAACATGATAAACTCATATATGCATGGGTTGGGTT
TTGATATGGATGGAGGAAGTGCAAAAGGGCTTTGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAG
TTATTAAAAGAGGCTAGGCCTCCA
Found at i:31715989 original size:25 final size:23
Alignment explanation
Indices: 31715955--31716026 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
31715945 GAGGAAGTGC
*
31715955 AAAAGGGCTTTTCCCCAGTTTATT
1 AAAAGGGCTTTGCCCCAG-TTATT
*
31715979 GAAAAGGGCTTTGCCCTAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATT
**
31716003 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
31716027 GTGATAAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 12 0.30
25 23 0.57
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:31716012 original size:24 final size:25
Alignment explanation
Indices: 31715955--31716012 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
31715945 GAGGAAGTGC
*
31715955 AAAAGGGCTTTTCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
31715980 AAAAGGGCTTTGCCCTAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
31716003 AAAAGAGGCT
1 AAAAG-GGCT
31716013 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 5 0.17
24 9 0.30
25 16 0.53
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:31718288 original size:13 final size:14
Alignment explanation
Indices: 31718270--31718298 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31718260 TTATAGATAT
31718270 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
31718283 TTATAATGGTTTAA
1 TTATAATGGTTTAA
31718297 TT
1 TT
31718299 CTTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:31718735 original size:21 final size:21
Alignment explanation
Indices: 31718710--31718783 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
31718700 TTAGAGCGGA
* *
31718710 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGCGAGAGAGGCAGC
31718731 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGCGAGAGAGGCAGC
* *
31718752 GGTAGCAGCGAGAGAGGCAGA
1 GGCAGCAGCGAGAGAGGCAGC
31718773 GGCAGCAGCGA
1 GGCAGCAGCGA
31718784 TGGCAGTTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.30, C:0.20, G:0.49, T:0.01
Consensus pattern (21 bp):
GGCAGCAGCGAGAGAGGCAGC
Found at i:31719083 original size:31 final size:31
Alignment explanation
Indices: 31719035--31719100 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
31719025 TGTATTTTTT
* *
31719035 ATGCTACATTTACTGTTTTTGGTTGGGTTTC
1 ATGCTACATTTACTGTTTTTGGTTGGATTTA
*
31719066 ATGCTATATTT-CTTGTTTTTGGTTGGATTTA
1 ATGCTACATTTAC-TGTTTTTGGTTGGATTTA
31719097 ATGC
1 ATGC
31719101 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.15, C:0.11, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTACTGTTTTTGGTTGGATTTA
Found at i:31722931 original size:40 final size:40
Alignment explanation
Indices: 31722873--31723058 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
31722863 TCGAATGATG
* * * *
31722873 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
31722913 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31722953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31722993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31723034 -CCGGGCCATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31723059 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31723065 original size:40 final size:40
Alignment explanation
Indices: 31722873--31723081 Score: 196
Period size: 40 Copynumber: 5.2 Consensus size: 40
31722863 TCGAATGATG
* * * * * *
31722873 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAA
**
31722913 TCCGGACTAAGAT-CCGAAGGCATTT-ATGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGA-GCGAGTTACTAAA
*
31722953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
*
31722993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-AA
** * * *
31723034 -CCGGGCCATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAA
31723073 TCC-GGTTAA
1 TCCGGGTTAA
31723082 ACTCCGAAGG
Statistics
Matches: 143, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
39 7 0.05
40 128 0.90
41 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:31726929 original size:28 final size:28
Alignment explanation
Indices: 31726874--31726929 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
31726864 ACAAAAGTAG
**
31726874 CAGGAGCTCTGAAATTCAAATGCGATCT
1 CAGGAGCTCTGAAATTCAAATGAAATCT
31726902 CAGGAGCTCTGAAATTCAAATGAAATCT
1 CAGGAGCTCTGAAATTCAAATGAAATCT
31726930 AGCTCGATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (28 bp):
CAGGAGCTCTGAAATTCAAATGAAATCT
Found at i:31728902 original size:46 final size:46
Alignment explanation
Indices: 31728852--31729027 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31728842 TGGTTGAGCA
31728852 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31728898 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31728943 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31728991 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31729028 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31729008 original size:93 final size:93
Alignment explanation
Indices: 31728849--31729020 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31728839 GGATGGTTGA
* *
31728849 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31728914 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31728942 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31729007 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31729021 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 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):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31734284 original size:15 final size:15
Alignment explanation
Indices: 31734264--31734292 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31734254 GTGAGAAATG
31734264 TCACATTTATTGCGA
1 TCACATTTATTGCGA
31734279 TCACATTTATTGCG
1 TCACATTTATTGCG
31734293 TTGAAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (15 bp):
TCACATTTATTGCGA
Found at i:31738595 original size:46 final size:44
Alignment explanation
Indices: 31738527--31738703 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
31738517 ATATTTGGGT
*
31738527 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** *
31738571 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GA
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* *
31738620 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
31738664 ACACTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31738704 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 2 0.02
46 65 0.59
47 31 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:31738686 original size:93 final size:93
Alignment explanation
Indices: 31738527--31738695 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
31738517 ATATTTGGGT
* * ** *
31738527 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAAACTCCGAACTCATTGAGTTG
31738592 AGTCCGAGTTCGAGAGATGTAACTAGGA
66 AGTCCGAGTTCGAGAGATGTAACTAGGA
* *
31738620 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACACT-CGAGCTCATTGAGTT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAA-ACTCCGAACTCATTGAGTT
31738684 GAGTCCGAGTTC
65 GAGTCCGAGTTC
31738696 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
93 67 0.99
94 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAAACTCCGAACTCATTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGA
Found at i:31739343 original size:21 final size:21
Alignment explanation
Indices: 31739317--31739370 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
31739307 ATCCATGGAA
31739317 ACCATGAAATAGGTAAAATTT
1 ACCATGAAATAGGTAAAATTT
31739338 ACCATGAAATAGGTAAAATTT
1 ACCATGAAATAGGTAAAATTT
31739359 ACCATGAAATAG
1 ACCATGAAATAG
31739371 ATTCAGAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (21 bp):
ACCATGAAATAGGTAAAATTT
Found at i:31741660 original size:37 final size:37
Alignment explanation
Indices: 31741605--31741677 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
31741595 TAAGAAGTCT
*
31741605 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCAGGACATAATCTCCACACGTAGTCATCGGGTCG
31741642 TACCAGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCAGGACATAATCTCCACACGTAGTCATCGGGTC
31741678 TCACCCGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.22
Consensus pattern (37 bp):
TACCAGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:31741827 original size:49 final size:49
Alignment explanation
Indices: 31741760--31742059 Score: 537
Period size: 49 Copynumber: 6.1 Consensus size: 49
31741750 TTTACCACAT
* * *
31741760 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
31741809 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
31741858 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATTAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
31741907 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
31741956 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
31742005 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
31742054 ATATAT
1 ATATAT
31742060 TATTATGTAC
Statistics
Matches: 241, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 241 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:31751389 original size:47 final size:47
Alignment explanation
Indices: 31751335--31751833 Score: 890
Period size: 47 Copynumber: 10.6 Consensus size: 47
31751325 TATTTGAATA
*
31751335 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751382 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751429 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751476 AATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
31751523 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751570 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751619 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751666 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
31751713 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
31751760 AATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
31751807 AATGTGAAAGTGTATATATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31751834 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 391 0.89
49 46 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:31751474 original size:22 final size:22
Alignment explanation
Indices: 31751446--31751521 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
31751436 AAGTGTATAT
31751446 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* ***
31751468 ATGTGATGAATG-CGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
*
31751492 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
31751515 ATGTGAT
1 ATGTGAT
31751522 GAATGTGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 16 0.40
23 8 0.20
24 8 0.20
25 8 0.20
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:31751762 original size:237 final size:235
Alignment explanation
Indices: 31751335--31751833 Score: 908
Period size: 237 Copynumber: 2.1 Consensus size: 235
31751325 TATTTGAATA
* *
31751335 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATATA
31751400 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
31751465 CCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
131 CCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
31751530 AAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
196 AAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
31751570 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATA
*
31751635 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* *
31751700 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
129 GGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* * *
31751765 GAAAGTGTATATATGTGATAGGGCCTAATGGCCAATGTGATG
194 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
31751807 AATGTGAAAGTGTATATATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31751834 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
235 27 0.11
237 227 0.89
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (235 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:31753675 original size:20 final size:20
Alignment explanation
Indices: 31753650--31753701 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
31753640 GTGTAATCCC
31753650 ACACGCCCGTGTGACTTGGG
1 ACACGCCCGTGTGACTTGGG
* *
31753670 ACACGCCTGTGTGGCTTGGG
1 ACACGCCCGTGTGACTTGGG
*
31753690 ACACTCCCGTGT
1 ACACGCCCGTGT
31753702 CCCTAACTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGACTTGGG
Found at i:31755039 original size:48 final size:48
Alignment explanation
Indices: 31754968--31755188 Score: 164
Period size: 48 Copynumber: 4.8 Consensus size: 48
31754958 AGGTGCCAAG
* * *
31754968 GCCATATCCCAGATATGGTCTTACATGGGACCACATAACGATGCAAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGCAAAT
* *
31755016 GCCATGTCCCAGACATGGTCTTACATGGGATCACA-CA-TAT-CGAAA-
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGC-AAAT
* * * * *
31755061 -CCAATAG-CCCAG-CTATGGTCTTACACGGTG-TCTCATTATGATGCCAAT
1 GCC-AT-GTCCCAGAC-ATGGTCTTACATGG-GATCACATAACGATGCAAAT
* * * *
31755109 GCCATGTCCCAAACATGGTCTTACAGGGGGTCACATAAAGATGCCAAA-
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATG-CAAAT
31755157 GCCATGT-----ACATGGTCTTACATGGGATCACATA
1 GCCATGTCCCAGACATGGTCTTACATGGGATCACATA
31755189 TCACTGCCGA
Statistics
Matches: 141, Mismatches: 18, Indels: 33
0.73 0.09 0.17
Matches are distributed among these distances:
43 23 0.16
44 3 0.02
45 25 0.18
46 8 0.06
47 7 0.05
48 69 0.49
49 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGCAAAT
Found at i:31764171 original size:40 final size:40
Alignment explanation
Indices: 31764101--31764192 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
31764091 GAATGGGAAG
* * *
31764101 TACTGGTAGCTTGTCTGCAATTCTGATGGCTTATCCTCAT
1 TACTGGTAGCTTATCTGCAATTCTGATGGCTTATCCACAA
* *
31764141 TACTGGCAGCTTATCTGC-ATTACT-AGTGGCTTCTCCACAA
1 TACTGGTAGCTTATCTGCAATT-CTGA-TGGCTTATCCACAA
31764181 TACTGGTAGCTT
1 TACTGGTAGCTT
31764193 GTTTTCAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 4 0.09
40 40 0.91
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (40 bp):
TACTGGTAGCTTATCTGCAATTCTGATGGCTTATCCACAA
Found at i:31764744 original size:19 final size:21
Alignment explanation
Indices: 31764720--31764774 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
31764710 GTTTCTAATA
31764720 AAATAA-AA-CTTAGTTTTTG
1 AAATAATAATCTTAGTTTTTG
31764739 AAATAATTAATCTTAGTTTTTG
1 AAATAA-TAATCTTAGTTTTTG
31764761 AAATAATTAATCTT
1 AAATAA-TAATCTT
31764775 TATAAATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.18
21 2 0.06
22 25 0.76
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATAATAATCTTAGTTTTTG
Found at i:31764753 original size:22 final size:22
Alignment explanation
Indices: 31764728--31764774 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
31764718 TAAAATAAAA
31764728 CTTAGTTTTTGAAATAATTAAT
1 CTTAGTTTTTGAAATAATTAAT
31764750 CTTAGTTTTTGAAATAATTAAT
1 CTTAGTTTTTGAAATAATTAAT
31764772 CTT
1 CTT
31764775 TATAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (22 bp):
CTTAGTTTTTGAAATAATTAAT
Found at i:31764784 original size:22 final size:22
Alignment explanation
Indices: 31764737--31764786 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
31764727 ACTTAGTTTT
***
31764737 TGAAATAATTAATCTTAGTTTT
1 TGAAATAATTAATCTTAGTAAA
31764759 TGAAATAATTAATCTTTA-TAAA
1 TGAAATAATTAATC-TTAGTAAA
31764781 TGAAAT
1 TGAAAT
31764787 TCTAAAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (22 bp):
TGAAATAATTAATCTTAGTAAA
Found at i:31772977 original size:66 final size:65
Alignment explanation
Indices: 31772850--31772977 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 65
31772840 TACTATGTGT
* * * *
31772850 ACACCATGTAGACAAAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAG
31772915 G
65 G
* *
31772916 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAA-AGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
31772978 TTCACCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 38 0.70
67 14 0.26
68 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:31772999 original size:63 final size:63
Alignment explanation
Indices: 31772821--31772999 Score: 193
Period size: 63 Copynumber: 2.8 Consensus size: 63
31772811 ATTATGATGT
* * * *
31772821 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAA-AGAGCTACGGGATATATG
1 AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATG
* * * *
31772883 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
1 -AGCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGATAAA
31772948 CTG
62 -TG
* *
31772951 -GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
31773000 CGAACTATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 41 0.43
66 38 0.40
67 14 0.15
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (63 bp):
AGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATG
Found at i:31774090 original size:2 final size:2
Alignment explanation
Indices: 31774083--31774113 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31774073 TCATGACATG
31774083 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31774114 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31777793 original size:24 final size:21
Alignment explanation
Indices: 31777765--31777808 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
31777755 TTTATTAAGA
31777765 TAAATATTAGATTAAATATAATAT
1 TAAATATT--ATTAAA-ATAATAT
*
31777789 TAAATCTTATTAAAATAATA
1 TAAATATTATTAAAATAATA
31777809 GAATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTATTAAAATAATAT
Done.