Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 149 of 322
Found at i:48933973 original size:29 final size:29
Alignment explanation
Indices: 48933896--48933974 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
48933886 AATTCTGGGT
* *
48933896 AAAACTATAAAAATCTAAAAAATAGGGGCA
1 AAAACTGTAAAAA-CAAAAAAATAGGGGCA
* * *
48933926 AAAACTGTAAAACCTAAAAAATATGGGC-
1 AAAACTGTAAAAACAAAAAAATAGGGGCA
*
48933954 AAAATTGTAAAATACAAAAAA
1 AAAACTGTAAAA-ACAAAAAA
48933975 TAAGGGACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.26
29 20 0.48
30 11 0.26
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (29 bp):
AAAACTGTAAAAACAAAAAAATAGGGGCA
Found at i:48937649 original size:16 final size:16
Alignment explanation
Indices: 48937628--48937658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48937618 AATCTATTTT
*
48937628 ATTATTTATTTTTAAA
1 ATTATTAATTTTTAAA
48937644 ATTATTAATTTTTAA
1 ATTATTAATTTTTAA
48937659 TGTCAGTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTAATTTTTAAA
Found at i:48939278 original size:21 final size:20
Alignment explanation
Indices: 48939252--48939291 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48939242 AAATGTATTC
*
48939252 ATGTTTATATTGTGTTGATTT
1 ATGTTTAAATTGTG-TGATTT
48939273 ATGTTTAAATTGTGTGATT
1 ATGTTTAAATTGTGTGATT
48939292 AATAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (20 bp):
ATGTTTAAATTGTGTGATTT
Found at i:48941254 original size:21 final size:20
Alignment explanation
Indices: 48941225--48941264 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48941215 TATGAGATTT
48941225 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
48941246 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
48941265 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:48941272 original size:20 final size:21
Alignment explanation
Indices: 48941230--48941272 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48941220 GATTTAATGA
*
48941230 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
48941251 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
48941271 TT
1 TT
48941273 TGTTAGGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:48942857 original size:21 final size:20
Alignment explanation
Indices: 48942814--48942857 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
48942804 CTAAACCAAT
*
48942814 AACTTGAGAAATTTTTACGA
1 AACTTGAGAAATTTTTACAA
48942834 AACTT-AGAAAATTTTTCACAA
1 AACTTGAG-AAATTTTT-ACAA
48942855 AAC
1 AAC
48942858 AGGGGACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (20 bp):
AACTTGAGAAATTTTTACAA
Found at i:48946304 original size:72 final size:72
Alignment explanation
Indices: 48946213--48946353 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
48946203 TCCAGTGATG
48946213 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
1 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
48946278 CAATCAA
66 CAATCAA
* *
48946285 TAGAGTTTAGCCAATTTCTGTAAAGAGATGTCTGTCCTAACCGAGATGAAGTGAGCAGACTTGGT
1 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
48946350 CAAT
66 CAAT
48946354 GAATCCACGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (72 bp):
TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
CAATCAA
Found at i:48955120 original size:25 final size:25
Alignment explanation
Indices: 48955086--48955136 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48955076 ATAATAATAA
48955086 TAATAATGCAATGTCATACTTAAAT
1 TAATAATGCAATGTCATACTTAAAT
48955111 TAATAATGCAATGTCATACTTAAAT
1 TAATAATGCAATGTCATACTTAAAT
48955136 T
1 T
48955137 GTAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (25 bp):
TAATAATGCAATGTCATACTTAAAT
Found at i:48955673 original size:48 final size:48
Alignment explanation
Indices: 48955548--48955818 Score: 310
Period size: 48 Copynumber: 5.6 Consensus size: 48
48955538 TGAGATCCCA
* ** * * *
48955548 TGTAAGACCATGTCTGGGACATGGGATCGGCATCCGAGATGAG-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGT-TGATATGTGTA-CCAG
* * * *
48955597 CGTAAAACCAAGTCTGGGACATGGCATCGGTGTTGATATGTGTTCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* *
48955645 TGTAAGACCATGTCTGGGACATGACATCGGTGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* ** *
48955693 TGTAAGACCATGTTTGGGACATGGCATTAGTGTTGATATGTGTACCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* * *** * *
48955741 TGTAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
48955789 TGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
48955819 CACCGATATG
Statistics
Matches: 189, Mismatches: 32, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
48 162 0.86
49 27 0.14
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
Found at i:48955843 original size:48 final size:48
Alignment explanation
Indices: 48955743--48955847 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
48955733 TGTACCGGTG
* * * *
48955743 TAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAGTG
1 TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAACTAGTA
* * *
48955791 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-ACTTCGTA
1 TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAAC-TAGTA
48955839 TAAGACCAT
1 TAAGACCAT
48955848 ATATGGGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 2 0.04
48 47 0.96
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAACTAGTA
Found at i:48955855 original size:48 final size:48
Alignment explanation
Indices: 48955743--48955860 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
48955733 TGTACCGGTG
* * * * *
48955743 TAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAGTG
1 TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAACTAGTA
* * *
48955791 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-ACTTCGTA
1 TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAAC-TAGTA
* *
48955839 TAAGACCATATATGGGATATGG
1 TAAGACCATGTATGGGACATGG
48955861 AGTTGACATG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.03
48 57 0.97
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAACTAGTA
Found at i:48956437 original size:30 final size:29
Alignment explanation
Indices: 48956402--48956469 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
48956392 CACCCTTAAA
* * *
48956402 ATATTTTCACTATTAGTCCTTCAAATTTTC
1 ATATTTACA-TATTAATCCCTCAAATTTTC
* *
48956432 ATATTTACATTTTAATCCCTCAAATTTTG
1 ATATTTACATATTAATCCCTCAAATTTTC
48956461 AGTATTTAC
1 A-TATTTAC
48956470 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACATATTAATCCCTCAAATTTTC
Found at i:48959734 original size:21 final size:21
Alignment explanation
Indices: 48959708--48959755 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
48959698 AAGGGGAATT
48959708 TTGTAAAAGTTCTAAAATAGG
1 TTGTAAAAGTTCTAAAATAGG
48959729 TTGTAAAAGTTCTAAAATAGG
1 TTGTAAAAGTTCTAAAATAGG
48959750 TTGTAA
1 TTGTAA
48959756 TTGTGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (21 bp):
TTGTAAAAGTTCTAAAATAGG
Found at i:48960499 original size:46 final size:46
Alignment explanation
Indices: 48960431--48960598 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
48960421 TTATTTGTGT
48960431 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTAA
* * *
48960477 GCCAGTGTCAGACATGTTTGGGACATGCATTGGCTACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAA
* * * *
48960521 GACAGTGTAAGACCATGTCAGGGACATGGAATCGGC-ACAGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGT-A-A
* *
48960571 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
48960599 GTACCGGCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 50 0.50
49 1 0.01
50 23 0.23
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAA
Found at i:48962630 original size:42 final size:44
Alignment explanation
Indices: 48962583--48962676 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
48962573 CGGCCTGAGG
48962583 ACACGGGCATG-CCAAAAGGC-ACACGAGCGTGTCCCTATGTCT
1 ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
* ** * * * *
48962625 ACACGGGCGTGTCCCTATGTCTACATGGGCGTGTCCCTATGTCT
1 ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
48962669 ACACGGGC
1 ACACGGGC
48962677 GTGTGACCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 10 0.23
43 5 0.12
44 28 0.65
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (44 bp):
ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
Found at i:48962634 original size:22 final size:22
Alignment explanation
Indices: 48962603--48962680 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
48962593 GCCAAAAGGC
*
48962603 ACACGAGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
48962625 ACACGGGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
*
48962647 ACATGGGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
48962669 ACACGGGCGTGT
1 ACACGGGCGTGT
48962681 GACCCTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.15, C:0.29, G:0.28, T:0.27
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTATGTCT
Found at i:48966901 original size:33 final size:33
Alignment explanation
Indices: 48966859--48966925 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
48966849 GACTGTATTT
48966859 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
1 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
48966892 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
1 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
48966925 T
1 T
48966926 AAGCGGCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCATTTCAGCTACACCATTTTGTTATGGTGTG
Found at i:48969894 original size:19 final size:20
Alignment explanation
Indices: 48969870--48969907 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
48969860 TGCTTAGTGA
48969870 AAAATTTTCT-AAGTTTTGT
1 AAAATTTTCTAAAGTTTTGT
48969889 AAAATTTTCTAAAGTTTTG
1 AAAATTTTCTAAAGTTTTG
48969908 AGTTTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
AAAATTTTCTAAAGTTTTGT
Found at i:48970472 original size:21 final size:21
Alignment explanation
Indices: 48970442--48970499 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
48970432 AAACAAGGGT
48970442 CACACGCCCGTGTGGGAATGG
1 CACACGCCCGTGTGGGAATGG
*
48970463 CACACACCCGTGTGGGAATGG
1 CACACGCCCGTGTGGGAATGG
48970484 CACACGCCCGTGTGGG
1 CACACGCCCGTGTGGG
48970500 CAAGCCGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.31, G:0.36, T:0.14
Consensus pattern (21 bp):
CACACGCCCGTGTGGGAATGG
Found at i:48970553 original size:26 final size:26
Alignment explanation
Indices: 48970516--48970569 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
48970506 GTGTGGTCAC
48970516 ACACGCCGGTGTCCCGAACCCGTGTA
1 ACACGCCGGTGTCCCGAACCCGTGTA
*
48970542 ACACGCTC-GTGTCCCGAACTCGTGTA
1 ACACGC-CGGTGTCCCGAACCCGTGTA
48970568 AC
1 AC
48970570 TCTCTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.19
Consensus pattern (26 bp):
ACACGCCGGTGTCCCGAACCCGTGTA
Found at i:48984573 original size:32 final size:32
Alignment explanation
Indices: 48984537--48984648 Score: 117
Period size: 32 Copynumber: 3.6 Consensus size: 32
48984527 TTATTGTTAT
48984537 TCAATAACAATCAGTTATTTAGTATCAAACAA
1 TCAATAACAATCAGTTATTTAGTATCAAACAA
* * *
48984569 TCAATAACAATCTGTTATTCAG--TC-CACTAA
1 TCAATAACAATCAGTTATTTAGTATCAAAC-AA
* *
48984599 TACAGT--CATTCAGTTATTTAGTATCAAACAA
1 T-CAATAACAATCAGTTATTTAGTATCAAACAA
*
48984630 TCAATAACAATCAATTATT
1 TCAATAACAATCAGTTATT
48984649 CAGTCCAGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 14 0.23
30 8 0.13
31 8 0.13
32 32 0.52
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
TCAATAACAATCAGTTATTTAGTATCAAACAA
Found at i:48984615 original size:61 final size:61
Alignment explanation
Indices: 48984547--48984798 Score: 380
Period size: 61 Copynumber: 4.1 Consensus size: 61
48984537 TCAATAACAA
** *
48984547 TCAGTTATTTAGTATCAAACAATCAATAACAATCTGTTATTCAGTCCACTAATACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
*
48984608 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAGTACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
* * * *
48984669 TCAATTATTTAGTATCAAGCAATCAATAACAATAAATTATTCAGTCCGGTAATACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
* * * *
48984730 TCAGTTATTCAGTATCAAACAATCAATAACAATCAATTATTC-GTCTAGTAATACAATTAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
*
48984790 TTAGTTATT
1 TCAGTTATT
48984799 CAGTGCAATG
Statistics
Matches: 173, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 22 0.13
61 151 0.87
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (61 bp):
TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
Found at i:48988605 original size:40 final size:39
Alignment explanation
Indices: 48988568--48988659 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
48988558 GCTACTCGTT
*
48988568 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
48988608 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
48988647 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48988660 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:48988639 original size:39 final size:40
Alignment explanation
Indices: 48988549--48988712 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
48988539 CGGAATTTAA
** *
48988549 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
48988589 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48988628 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48988668 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48988708 CCGGA
1 CCGGA
48988713 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48995476 original size:79 final size:82
Alignment explanation
Indices: 48995375--48995559 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
48995365 GCTACTCGTT
* ** *
48995375 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48995438 GAATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* **
48995455 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* * *
48995518 GATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
48995535 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48995560 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.06
79 51 0.58
80 30 0.34
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:48995559 original size:40 final size:40
Alignment explanation
Indices: 48995356--48995559 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
48995346 CGGAATTTAA
** *
48995356 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48995396 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48995436 CCGAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48995475 CC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48995515 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48995555 CCGGA
1 CCGGA
48995560 CATCATTCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.22
40 88 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49001559 original size:17 final size:18
Alignment explanation
Indices: 49001506--49001631 Score: 157
Period size: 19 Copynumber: 6.9 Consensus size: 18
49001496 AATCATATCT
*
49001506 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
49001525 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
49001543 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
49001560 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
49001578 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
49001595 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
*
49001614 TCTAAGGTTGCATATCAT
1 TCTAAGATTGC-TATCAT
49001632 TGAAGATTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 32 0.34
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:49001564 original size:35 final size:35
Alignment explanation
Indices: 49001506--49001619 Score: 183
Period size: 35 Copynumber: 3.2 Consensus size: 35
49001496 AATCATATCT
49001506 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
49001543 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
49001578 TTTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
49001614 TCTAAG
1 TCTAAG
49001620 GTTGCATATC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 53 0.73
36 10 0.14
37 10 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:49002475 original size:207 final size:207
Alignment explanation
Indices: 49002024--49002816 Score: 1284
Period size: 207 Copynumber: 3.8 Consensus size: 207
49002014 AAATTTGCTT
* * * * *
49002024 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCTTCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
49002089 GCGAAAGCCAAATCAGCTATGTCTTTGATTT-TCTCCTTGTAAGCAGAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAACCATCT
* * ** * *
49002153 TGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
49002217 TAGAGACGCCAAA
195 TGGAGACGCCAAA
* *
49002230 CTTTGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
49002295 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGGAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
49002360 GGATCTTGTTTCAGTATAAACATCTAAAGGTCAGATCTGCTATGTGTCCGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
49002425 GGAGACGTCAAA
196 GGAGACGCCAAA
*
49002437 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
49002502 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
49002567 GGATCTTGCTTCAGTAGAAACATCTGAAGGCCAGATCTGCTATGTGTTTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
49002632 GGAGATGCCAAA
196 GGAGACGCCAAA
* *
49002644 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGACTTGCTTCAACTTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
49002709 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
49002774 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTAT
49002817 ACTTTAACCT
Statistics
Matches: 546, Mismatches: 39, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
206 121 0.22
207 425 0.78
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:49002963 original size:82 final size:79
Alignment explanation
Indices: 49002822--49003019 Score: 197
Period size: 82 Copynumber: 2.4 Consensus size: 79
49002812 TCTATACTTT
* *
49002822 AACCTGTTACCCTACTGCTTAGGTGG-TTAAGGCGAGTCATCATTGATCTGCTCCGCTACTGCTT
1 AACCTGTTACCCTACTGCTTAGG-GGATTAAGGCGAGTCAT-ATCGATCTGCT-C-C-ACTACTT
*
49002886 AGGGAGATAAAATCTG-TG
61 AAGGAGATAAAATCTGATG
*
49002904 AACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTC-T-TCGATCTGCTCCACTACTACTTAA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATATCGATCTGCT-C-C-ACTACTTAA
* *
49002967 GGAGATAAGATCTGCAAATTT
63 GGAGATAAAATCTG---A-TG
*
49002988 AACCTGTTACCCTACTGCTTAGGCGATTAAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGG
49003020 AGCTGAATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
79 33 0.33
81 3 0.03
82 34 0.34
84 31 0.31
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (79 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATATCGATCTGCTCCACTACTTAAGGA
GATAAAATCTGATG
Found at i:49003982 original size:8 final size:8
Alignment explanation
Indices: 49003969--49004002 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
49003959 GGTCTCTCTA
49003969 TTTTTCTT
1 TTTTTCTT
49003977 TTTTTCTT
1 TTTTTCTT
49003985 TTTTTCTCT
1 TTTTTCT-T
49003994 TTTTTCTT
1 TTTTTCTT
49004002 T
1 T
49004003 ATCTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:49004031 original size:23 final size:21
Alignment explanation
Indices: 49003975--49004032 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 21
49003965 TCTATTTTTC
49003975 TTTTTTTCTTTTTTTCTCTTT
1 TTTTTTTCTTTTTTTCTCTTT
49003996 TTTCTTTATCTTTTTATTCTCTTT
1 TTT-TTT-TCTTTTT-TTCTCTTT
49004020 TTTTTTTGCTTTT
1 TTTTTTT-CTTTT
49004033 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.09
22 4 0.12
23 15 0.45
24 11 0.33
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTCTCTTT
Found at i:49005535 original size:11 final size:10
Alignment explanation
Indices: 49005509--49005534 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49005499 ATATATAATC
49005509 TTTTTTCTTT
1 TTTTTTCTTT
49005519 TTTTTTCTTT
1 TTTTTTCTTT
49005529 TTTTTT
1 TTTTTT
49005535 TGAGATGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:49009094 original size:40 final size:40
Alignment explanation
Indices: 49008148--49009092 Score: 1800
Period size: 40 Copynumber: 23.6 Consensus size: 40
49008138 ACAAACACAT
* * *
49008148 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
* *
49008188 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
** * *
49008228 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008268 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008308 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008348 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008388 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008428 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008468 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008508 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008548 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008588 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008628 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008668 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008708 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008748 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008788 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008828 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008868 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008908 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008948 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49008988 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
*
49009028 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
49009068 TTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATA
49009093 TAATCCAATG
Statistics
Matches: 893, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 893 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
Found at i:49017376 original size:40 final size:40
Alignment explanation
Indices: 49017324--49017550 Score: 382
Period size: 40 Copynumber: 5.7 Consensus size: 40
49017314 ACAAACACAT
* *
49017324 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
49017364 TTGCCTTTGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
49017404 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49017444 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49017484 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49017524 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
49017551 ATCCAATGCT
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:49022143 original size:122 final size:122
Alignment explanation
Indices: 49021926--49022164 Score: 451
Period size: 122 Copynumber: 2.0 Consensus size: 122
49021916 CCTAATGTCA
* *
49021926 AAAATTTGAAAAGATTTTAAAACTTGAATAATTTAAAGTTGAAACTTGAGGTTCCTTTGTTCCGA
1 AAAATTTAAAAAGATTTTAAAACTTGAATAATTTAAAGTTGAAACTTGAGATTCCTTTGTTCCGA
*
49021991 AAGTATACAAACATCACATCCAGCATGTTAGGACATGATGTTTTAAATCCTCGGTCG
66 AAGTATACAAACATCACATCCAGCATGTTAGGACACGATGTTTTAAATCCTCGGTCG
49022048 AAAATTTAAAAAGATTTTAAAACTTGAATAATTTAAAGTTGAAACTTGAGATTCCTTTGTTCCGA
1 AAAATTTAAAAAGATTTTAAAACTTGAATAATTTAAAGTTGAAACTTGAGATTCCTTTGTTCCGA
49022113 AAGTATACAAACATCACATCCAGCATGTTAGGACACGATGTTTTAAATCCTC
66 AAGTATACAAACATCACATCCAGCATGTTAGGACACGATGTTTTAAATCCTC
49022165 ATAACTAAAA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (122 bp):
AAAATTTAAAAAGATTTTAAAACTTGAATAATTTAAAGTTGAAACTTGAGATTCCTTTGTTCCGA
AAGTATACAAACATCACATCCAGCATGTTAGGACACGATGTTTTAAATCCTCGGTCG
Found at i:49022898 original size:289 final size:288
Alignment explanation
Indices: 49022380--49022955 Score: 1044
Period size: 289 Copynumber: 2.0 Consensus size: 288
49022370 AAATAATTTG
*
49022380 ATATAATATTAAAATTATTAAAAAAACAAAATATAAAAGAGAATTAAAAAAATCAAGGAGATAGG
1 ATATAATATTAAAATTATTAAAAAAACAAAATATAAAAGAGAATTAAAAAAATCAAGGAGAGAGG
* * * *
49022445 GATTAAATAAAAAATGTTGAAAATGAAGATGAACAAAGAATAAATAAGAACAAACCGTAGAAAAT
66 GATTAAATAAAAAAGGTTGAAAACGAAGATCAACAAAGAATAAATAAGAACAAACCATAGAAAAT
*
49022510 AAGAACGCAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAGAATTCTTATTGCTTCCCAAAACT
131 AAAAACGCAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAGAATTCTTATTGCTTCCCAAAACT
*
49022575 CAAGTGTAGTCATGTTGTTTTACAATGAGGGGAGAGGCCTCTATTTATAGTTGAGCCTTCCCAAA
196 CAAGTGTAGTCAAGTTGTTTTACAATGAGGGGAGAGGCCTCTATTTATAGTTGAGCCTTCCCAAA
49022640 TCCAACGGTACAGATCAATTACTTCAAC
261 TCCAACGGTACAGATCAATTACTTCAAC
*
49022668 ATATAATATTAAAATTATTAAAAAAATAAAATATAAAAGAGAATTAAAAAAATCAAGGAGAGAGG
1 ATATAATATTAAAATTATTAAAAAAACAAAATATAAAAGAGAATTAAAAAAATCAAGGAGAGAGG
49022733 GATTAAATAAAAAAAGGTTGAAAACGAAGATCAACAAAGAATAAATAAGAACAAACCATAGAAAA
66 GATTAAAT-AAAAAAGGTTGAAAACGAAGATCAACAAAGAATAAATAAGAACAAACCATAGAAAA
* *
49022798 TAAAAACGTAAGAGGGAGAGAAATTTGAGTGAATGCTCTCAAGAATTCTTATTGCTTCCCAAAAC
130 TAAAAACGCAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAGAATTCTTATTGCTTCCCAAAAC
49022863 TCAAGTGTAGTCAAGTTGTTTTACAATGAGGGGAGAGGCCTCTATTTATAGTTGAGCCTTCCCAA
195 TCAAGTGTAGTCAAGTTGTTTTACAATGAGGGGAGAGGCCTCTATTTATAGTTGAGCCTTCCCAA
*
49022928 ATCCAACGGTACTGATCAATTACTTCAA
260 ATCCAACGGTACAGATCAATTACTTCAA
49022956 TGGTTAAGAT
Statistics
Matches: 276, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
288 71 0.26
289 205 0.74
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (288 bp):
ATATAATATTAAAATTATTAAAAAAACAAAATATAAAAGAGAATTAAAAAAATCAAGGAGAGAGG
GATTAAATAAAAAAGGTTGAAAACGAAGATCAACAAAGAATAAATAAGAACAAACCATAGAAAAT
AAAAACGCAAGAGGGAGAGAAATTTGAGTGAAAGCTCTCAAGAATTCTTATTGCTTCCCAAAACT
CAAGTGTAGTCAAGTTGTTTTACAATGAGGGGAGAGGCCTCTATTTATAGTTGAGCCTTCCCAAA
TCCAACGGTACAGATCAATTACTTCAAC
Found at i:49023049 original size:18 final size:18
Alignment explanation
Indices: 49023013--49023191 Score: 238
Period size: 18 Copynumber: 9.9 Consensus size: 18
49023003 AATCATATCT
*
49023013 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
49023032 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
49023050 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
49023067 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
49023085 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
49023102 TCTAAGATTGCTATCATA
1 TCTAAGATTGCAATCATA
*
49023120 TCTAAGATTGCCATCATA
1 TCTAAGATTGCAATCATA
*
49023138 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
* *
49023155 TCAAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
49023174 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
49023192 TGAAGATTAT
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 47 0.32
18 66 0.46
19 32 0.22
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:49023071 original size:35 final size:36
Alignment explanation
Indices: 49023013--49023191 Score: 256
Period size: 35 Copynumber: 5.0 Consensus size: 36
49023003 AATCATATCT
49023013 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
49023050 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
49023085 TCTAAGATTG-TATCATATCTAAGATTGCTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
** *
49023120 TCTAAGATTGCCATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
49023155 TCAAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
49023192 TGAAGATTAT
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
35 85 0.65
36 31 0.24
37 10 0.08
38 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:49023199 original size:53 final size:54
Alignment explanation
Indices: 49023013--49023191 Score: 274
Period size: 53 Copynumber: 3.3 Consensus size: 54
49023003 AATCATATCT
* *
49023013 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-TATCATATCTAAGATTGCTATCATA
49023067 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATATCTAAGATTGCTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCTATCATA
* * *
49023120 TCTAAGATTGC-CATCATATCTAAGATTGTATCATATCAAAGATTGCATATCACA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGC-TATCATA
49023174 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
49023192 TGAAGATTAT
Statistics
Matches: 116, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
52 16 0.14
53 67 0.58
54 28 0.24
55 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCTATCATA
Found at i:49023647 original size:17 final size:18
Alignment explanation
Indices: 49023613--49023719 Score: 137
Period size: 17 Copynumber: 5.9 Consensus size: 18
49023603 ATTATTTAAT
*
49023613 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
49023631 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
49023648 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
49023666 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
49023683 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
*
49023702 TCTAAGGTTGCATATCAT
1 TCTAAGATTGC-TATCAT
49023720 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
17 31 0.40
18 25 0.32
19 22 0.28
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:49023659 original size:35 final size:35
Alignment explanation
Indices: 49023613--49023707 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
49023603 ATTATTTAAT
49023613 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
49023648 TCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
49023683 TCTAAGATTGCATATCACATCTAAG
1 TCTAAGATTGCA-ATCATATCTAAG
49023708 GTTGCATATC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 46 0.82
36 10 0.18
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:49024445 original size:22 final size:21
Alignment explanation
Indices: 49024395--49024447 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
49024385 AAAGTAATTA
49024395 ATTATTTATTTTACAATTGTAT
1 ATTA-TTATTTTACAATTGTAT
*
49024417 ATATATTATTATTACATTTGTAT
1 AT-TATTATT-TTACAATTGTAT
49024440 ATTATTAT
1 ATTATTAT
49024448 CAGCTTACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTATTATTTTACAATTGTAT
Found at i:49027888 original size:79 final size:79
Alignment explanation
Indices: 49027757--49027914 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
49027747 ACACAAGCTA
49027757 GCCTATACATGCCATAGATTCAAAGTTAAAATTTAAAAAGAAAATACTAAAATAGTGATCGATAG
1 GCCTATACATGCCATAGATTCAAAGTTAAAATTTAAAAAGAAAATACTAAAATAGTGATCGATAG
49027822 TGTGACGGATTTCT
66 TGTGACGGATTTCT
49027836 GCCTATACATGCCATAGATTCAAAGTTAAAATTTAAAAAGAAAATACTAAAATAGTGATCGATAG
1 GCCTATACATGCCATAGATTCAAAGTTAAAATTTAAAAAGAAAATACTAAAATAGTGATCGATAG
49027901 TGTGACGGATTTCT
66 TGTGACGGATTTCT
49027915 CTGATGATCC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (79 bp):
GCCTATACATGCCATAGATTCAAAGTTAAAATTTAAAAAGAAAATACTAAAATAGTGATCGATAG
TGTGACGGATTTCT
Found at i:49028420 original size:44 final size:43
Alignment explanation
Indices: 49028353--49028435 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
49028343 AATCGAATAC
* *
49028353 GATGACAATGTCCCAGACATGGTCTTACACGTAAATCACAAATT
1 GATGACAACGTCCCAGACATGGTCTTACACG-AAAACACAAATT
* **
49028397 GATGCCAACGTCCCAGATGTGGTCTTACACGAAAACACA
1 GATGACAACGTCCCAGACATGGTCTTACACGAAAACACA
49028436 TATTAGAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 7 0.21
44 27 0.79
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (43 bp):
GATGACAACGTCCCAGACATGGTCTTACACGAAAACACAAATT
Found at i:49040888 original size:29 final size:28
Alignment explanation
Indices: 49040822--49040911 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
49040812 AAGTCTACAT
* *
49040822 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATAGCCCATTAGGCCCAATC
* *
49040850 TCTTTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCC-AATC
* **
49040879 ACATTCATATCGCCCATTTTGCCCAATC
1 ACATTCATATAGCCCATTAGGCCCAATC
49040907 ACATT
1 ACATT
49040912 TATAGTCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 29 0.56
29 23 0.44
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (28 bp):
ACATTCATATAGCCCATTAGGCCCAATC
Found at i:49041160 original size:16 final size:16
Alignment explanation
Indices: 49041135--49041165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49041125 AAACTTCCGG
49041135 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
49041151 CTTTTTGGCATTTCG
1 CTTTTCGGCATTTCG
49041166 CGATTTGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:49045316 original size:4 final size:4
Alignment explanation
Indices: 49045307--49045331 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49045297 CACGATCGTG
49045307 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
49045332 GTTTTATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:49045470 original size:29 final size:28
Alignment explanation
Indices: 49045404--49045497 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
49045394 AAGTCGTTAT
* *
49045404 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
49045432 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* **
49045461 ACATTCATATGACCCATTAGGTGCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
49045489 ACATTCATA
1 ACATTCATA
49045498 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 33 0.59
29 23 0.41
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:49045735 original size:16 final size:16
Alignment explanation
Indices: 49045714--49045746 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49045704 CCAAACTTCT
49045714 GGCTTTTAGGCATTTC
1 GGCTTTTAGGCATTTC
*
49045730 GGCTTTTTGGCATTTC
1 GGCTTTTAGGCATTTC
49045746 G
1 G
49045747 TGATTTTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (16 bp):
GGCTTTTAGGCATTTC
Found at i:49074643 original size:20 final size:19
Alignment explanation
Indices: 49074610--49074654 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
49074600 CTATTTTGTT
*
49074610 ATGGGCCAATTGTATTGAA
1 ATGGGCCAACTGTATTGAA
*
49074629 ATGGGTCCAACTGTATTGAT
1 ATGGG-CCAACTGTATTGAA
49074649 ATGGGC
1 ATGGGC
49074655 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (19 bp):
ATGGGCCAACTGTATTGAA
Found at i:49074720 original size:60 final size:59
Alignment explanation
Indices: 49074645--49074783 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
49074635 CCAACTGTAT
* *
49074645 TGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TGATATGGGCTAGGCCCAATATACTCT-GTAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * *
49074705 TGATATGGGCTAGGCCCAGTATACTCTGTTACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATATACTCTG-TACTGTAAAGGGCTACGGCCCAGATTAATAC
49074765 TGATATGGGCTAAGGCCCA
1 TGATATGGGCT-AGGCCCA
49074784 GTTAACACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 52 0.75
61 15 0.22
62 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
TGATATGGGCTAGGCCCAATATACTCTGTACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:49079176 original size:20 final size:19
Alignment explanation
Indices: 49079143--49079187 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
49079133 CTATTTTGTT
*
49079143 ATGGGCCAATTGTATTGAA
1 ATGGGCCAACTGTATTGAA
*
49079162 ATGGGTCCAACTGTATTGAT
1 ATGGG-CCAACTGTATTGAA
49079182 ATGGGC
1 ATGGGC
49079188 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (19 bp):
ATGGGCCAACTGTATTGAA
Found at i:49081751 original size:47 final size:47
Alignment explanation
Indices: 49081694--49081899 Score: 281
Period size: 47 Copynumber: 4.4 Consensus size: 47
49081684 CAGCCAAGAC
*
49081694 AGTGTATATATGTGATTAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
49081741 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
49081788 AGAT-TATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AG-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
49081835 AGTGTATATATGTG-CAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
49081881 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
49081900 TCCCGAAGGG
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
46 38 0.27
47 101 0.72
48 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:49082074 original size:37 final size:37
Alignment explanation
Indices: 49082018--49082096 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49082008 CCGAGCTCTA
* *
49082018 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
49082055 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49082092 AAGAC
1 AAGAC
49082097 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49086901 original size:40 final size:40
Alignment explanation
Indices: 49086846--49087067 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
49086836 TGTTCGAATG
*
49086846 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
49086886 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
49086926 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49086966 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49087006 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
49087046 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49087068 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49094676 original size:87 final size:87
Alignment explanation
Indices: 49094530--49094691 Score: 324
Period size: 87 Copynumber: 1.9 Consensus size: 87
49094520 TAACTCCGGT
49094530 TATAAAAACTTTAGTGACTGTTGCTCAGGAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAA
1 TATAAAAACTTTAGTGACTGTTGCTCAGGAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAA
49094595 ACATTAATGACGTAGCTCCAGG
66 ACATTAATGACGTAGCTCCAGG
49094617 TATAAAAACTTTAGTGACTGTTGCTCAGGAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAA
1 TATAAAAACTTTAGTGACTGTTGCTCAGGAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAA
49094682 ACATTAATGA
66 ACATTAATGA
49094692 AAATTTGCTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (87 bp):
TATAAAAACTTTAGTGACTGTTGCTCAGGAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAA
ACATTAATGACGTAGCTCCAGG
Found at i:49095282 original size:40 final size:40
Alignment explanation
Indices: 49095227--49095448 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
49095217 TATTCAAATG
*
49095227 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49095267 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
49095307 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
49095347 ATATCCGGGATAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49095387 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
49095427 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49095449 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.09
40 148 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49102270 original size:10 final size:9
Alignment explanation
Indices: 49102246--49102281 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
49102236 GTCATAAAAC
49102246 TAATAATT-
1 TAATAATTA
49102254 TAATAATTA
1 TAATAATTA
49102263 TAAATAATTA
1 T-AATAATTA
49102273 TAATAATTA
1 TAATAATTA
49102282 ACTAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:49103493 original size:15 final size:14
Alignment explanation
Indices: 49103469--49103498 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
49103459 GTAACACCCT
49103469 AAATTTGGGCCTTG
1 AAATTTGGGCCTTG
49103483 AAATATTGGGCCTTG
1 AAAT-TTGGGCCTTG
49103498 A
1 A
49103499 GTAGGGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (14 bp):
AAATTTGGGCCTTG
Found at i:49104488 original size:27 final size:27
Alignment explanation
Indices: 49104458--49104655 Score: 272
Period size: 27 Copynumber: 7.3 Consensus size: 27
49104448 TACTGAAATG
*
49104458 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49104485 CCCTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
49104512 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49104539 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
49104566 CCCTTGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
49104593 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
49104620 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
49104647 CCCTCGATT
1 CCCTCGATT
49104656 GTGAAATTAC
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 152 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:49104698 original size:27 final size:27
Alignment explanation
Indices: 49104659--49104810 Score: 119
Period size: 27 Copynumber: 5.6 Consensus size: 27
49104649 CTCGATTGTG
**
49104659 AAATTACTGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* * **
49104686 GAATTACCAAAATACTCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
49104713 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * ** *
49104740 AAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* **
49104767 AAATTACCAAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
49104794 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
49104811 TTGATTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 97 0.92
28 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:49104727 original size:54 final size:54
Alignment explanation
Indices: 49104654--49104809 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
49104644 TTACCCTCGA
** *
49104654 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACTC-CTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATAC-CACTAGT
* ** * *
49104708 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
49104762 TTGTGAAATTACCAAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
49104810 CTTGATTTAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.06
54 80 0.91
55 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:49104774 original size:81 final size:81
Alignment explanation
Indices: 49104687--49104836 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
49104677 TGTAGGATAG
* ** *
49104687 AATTACCAAAATACTCCT-AGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCGA
1 AATTACCAAAATAC-CCTCAATTTGTAAAATTACCAAAATA-CCCTAGATTTACAAAATTACAGA
49104750 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
*
49104768 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACAAAATTACAGAAA
49104833 TACC
66 TACC
49104837 CTTAACTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 8 0.13
81 54 0.87
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:49104811 original size:27 final size:26
Alignment explanation
Indices: 49104687--49104838 Score: 180
Period size: 27 Copynumber: 5.7 Consensus size: 26
49104677 TGTAGGATAG
49104687 AATTACCAAAATACTCCTAGTTTGTAA
1 AATTACCAAAATAC-CCTAGTTTGTAA
49104714 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
* * *
49104741 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
*
49104768 AATTACCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
* **
49104795 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTAG-TTTGTAA
49104822 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
49104839 TAACTTTTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.06
27 102 0.94
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:49104885 original size:27 final size:27
Alignment explanation
Indices: 49104847--49104903 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
49104837 CTTAACTTTT
*
49104847 TTTAAAAAATTA-TAGGAATACCATTGG
1 TTTAAAAAATTACTA-AAATACCATTGG
*
49104874 TTTAAAAAATTACTAAAATACCCTTGG
1 TTTAAAAAATTACTAAAATACCATTGG
49104901 TTT
1 TTT
49104904 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTACTAAAATACCATTGG
Found at i:49105866 original size:25 final size:25
Alignment explanation
Indices: 49105828--49105897 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
49105818 AGGAAGTGCT
* *
49105828 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
49105853 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49105878 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49105898 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49105910 original size:24 final size:24
Alignment explanation
Indices: 49105827--49105922 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
49105817 GAGGAAGTGC
*
49105827 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
49105852 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
49105876 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
49105900 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
49105923 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:49106163 original size:31 final size:30
Alignment explanation
Indices: 49106117--49106230 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 30
49106107 CGCTTAAAGT
49106117 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGG-TTCGGCCCAGTGATATGATTTATGA
*
49106147 AAAGGTATCGGTCCAGTGATATGATTTATGA
1 AAAGGT-TCGGCCCAGTGATATGATTTATGA
*
49106178 AAACGCTTCGGCCCAGTGATATGATTTATGA
1 AAA-GGTTCGGCCCAGTGATATGATTTATGA
49106209 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGG-TTCGGCCCAGTGATATG
49106231 TCGGGACTGA
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.01
30 15 0.19
31 59 0.77
32 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGTTCGGCCCAGTGATATGATTTATGA
Found at i:49108157 original size:27 final size:27
Alignment explanation
Indices: 49108127--49108323 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
49108117 TACTGAAATG
*
49108127 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49108154 CCCTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
49108181 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49108208 CCCTCGATTTTGTAGAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
* * * * *
49108236 CCATTGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49108263 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
49108290 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
49108317 CCCTCGA
1 CCCTCGA
49108324 CTGTGAAATT
Statistics
Matches: 142, Mismatches: 25, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.84
28 22 0.15
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:49108199 original size:54 final size:54
Alignment explanation
Indices: 49108127--49108323 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
49108117 TACTGAAATG
** * * *
49108127 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA
*
49108181 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTTATAGAATTACCATTTTA
* * * * *
49108236 CCATTGATTTACAGAATTATCGTTTTACCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA
*
49108290 CCCTC-AGTTTACAAAATTATCGTTTTACCCTCGA
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCTCGA
49108324 CTGTGAAATT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 77 0.62
55 47 0.38
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA
Found at i:49108245 original size:82 final size:81
Alignment explanation
Indices: 49108127--49108294 Score: 237
Period size: 82 Copynumber: 2.1 Consensus size: 81
49108117 TACTGAAATG
* *
49108127 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTA
1 CCCTCGATTTGTAGAATTACCATTTTACCATCGATTTACAGAATTACCATTTCACCCTCGATTTA
*
49108192 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* * * * *
49108208 CCCTCGATTTTGTAGAATTACCATTTTACCATTGATTTACAGAATTATCGTTTTACCCTTGATTT
1 CCCTCGA-TTTGTAGAATTACCATTTTACCATCGATTTACAGAATTACCATTTCACCCTCGATTT
* *
49108273 ATAGAATTACCATTTTA
65 ACAAAATTACCATTTTA
49108290 CCCTC
1 CCCTC
49108295 AGTTTACAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 7 0.09
82 69 0.91
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTGTAGAATTACCATTTTACCATCGATTTACAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:49108387 original size:27 final size:27
Alignment explanation
Indices: 49108357--49108507 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
49108347 TGTAGGATAG
49108357 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
49108384 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** ** * *
49108411 AATTACTGAAATACTGCTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
49108438 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
49108465 AATTACCTAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
49108492 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
49108508 TTAACTTTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.03
27 95 0.93
28 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:49108398 original size:54 final size:54
Alignment explanation
Indices: 49108329--49108507 Score: 141
Period size: 54 Copynumber: 3.3 Consensus size: 54
49108319 CTCGACTGTG
** *
49108329 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCCCTAGTTTGTA
** ** ** * *
49108383 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACTGCTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCCCTAGTTTGTA
* ** * **
49108437 AAATTACCAAAATA-CCCTCAATTTGTAAAATTACCTAAATACCCCT-GATTTACA
1 AAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACCCCTAG-TTTGTA
49108491 AAATTA-CAGAAATACCC
1 AAATTACCA-AAATACCC
49108508 TTAACTTTTT
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 7 0.07
54 89 0.88
55 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:49108444 original size:81 final size:81
Alignment explanation
Indices: 49108357--49108505 Score: 221
Period size: 81 Copynumber: 1.8 Consensus size: 81
49108347 TGTAGGATAG
* ** *
49108357 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACTGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
49108420 AATACTGCTGGTTTGTGA
64 AATACTGCTGGTTTGTGA
*
49108438 AATTACCAAAATACCCTCAATTTGTAAAATTACCTAAATACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
49108503 TAC
66 TAC
49108506 CCTTAACTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACTGCTGGTTTGTGA
Found at i:49108555 original size:27 final size:27
Alignment explanation
Indices: 49108517--49108573 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
49108507 CTTAACTTTT
*
49108517 TTTAAAAAATTA-TAGGAATACCATTGG
1 TTTAAAAAATTACTA-AAATACCATTGG
* *
49108544 TTTACAAAATTACTAAAATACCCTTGG
1 TTTAAAAAATTACTAAAATACCATTGG
49108571 TTT
1 TTT
49108574 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTACTAAAATACCATTGG
Found at i:49109537 original size:25 final size:25
Alignment explanation
Indices: 49109499--49109568 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
49109489 AGAAAGTGCT
* *
49109499 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
49109524 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49109549 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49109569 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49109581 original size:24 final size:24
Alignment explanation
Indices: 49109498--49109593 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
49109488 GAGAAAGTGC
*
49109498 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
49109523 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
49109547 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
49109571 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
49109594 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:49109835 original size:31 final size:31
Alignment explanation
Indices: 49109789--49109902 Score: 189
Period size: 31 Copynumber: 3.7 Consensus size: 31
49109779 CGCTTACAGT
49109789 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
49109819 AAAGG-TATCGGTCCAGTGATATGATTTATGA
1 AAAGGCT-TCGGCCCAGTGATATGATTTATGA
49109850 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49109881 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
49109903 TCGGGACTGA
Statistics
Matches: 80, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
29 1 0.01
30 14 0.17
31 64 0.80
32 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49116640 original size:18 final size:18
Alignment explanation
Indices: 49116614--49116656 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49116604 GACTAGAAAA
* * *
49116614 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
49116632 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
49116650 AGGATAC
1 AGGATAC
49116657 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:49116752 original size:30 final size:30
Alignment explanation
Indices: 49116718--49116777 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49116708 GTTCGGCCCA
* * *
49116718 GTGATTGTATGGGTGCTGTTGCTGGGCCTG
1 GTGATTGTATGGGCGCTGTTGATGGACCTG
49116748 GTGATTGTATGGGCGCTGTTGATGGACCTG
1 GTGATTGTATGGGCGCTGTTGATGGACCTG
49116778 CATCGTCGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.13, G:0.42, T:0.35
Consensus pattern (30 bp):
GTGATTGTATGGGCGCTGTTGATGGACCTG
Found at i:49124489 original size:27 final size:27
Alignment explanation
Indices: 49124459--49124636 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
49124449 ATATTGAGCC
* *
49124459 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
49124486 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49124513 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49124541 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49124568 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
49124595 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
49124622 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49124637 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49124571 original size:55 final size:54
Alignment explanation
Indices: 49124459--49124636 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
49124449 ATATTGAGCC
* * * * *
49124459 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
49124513 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
49124568 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
49124622 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49124637 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:49133913 original size:24 final size:24
Alignment explanation
Indices: 49133876--49133949 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
49133866 AAGTATGCCA
*
49133876 GGAGGGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
49133900 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
49133924 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
49133948 GG
1 GG
49133950 GAGAAAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.31, C:0.01, G:0.43, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:49134946 original size:8 final size:8
Alignment explanation
Indices: 49134933--49134962 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
49134923 CTAGATCGGC
49134933 AAAAGCCG
1 AAAAGCCG
49134941 AAAAGCCG
1 AAAAGCCG
*
49134949 AAATGCCG
1 AAAAGCCG
49134957 AAAAGC
1 AAAAGC
49134963 TAGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:49135385 original size:27 final size:27
Alignment explanation
Indices: 49135343--49135453 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
49135333 AGGAAGCGTC
* *
49135343 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
49135370 CTGGTGGCTCTACCACATATACCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
49135397 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
49135424 CTGGTGACTCTGTCACA-TTATCTTTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
49135450 CTGG
1 CTGG
49135454 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.17
27 60 0.83
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:49141155 original size:31 final size:31
Alignment explanation
Indices: 49141107--49141252 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
49141097 TTAGTCTTGA
*
49141107 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49141137 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49141168 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
49141199 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49141230 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49141253 ACTGTAAACG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.05
31 104 0.95
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:49141323 original size:42 final size:42
Alignment explanation
Indices: 49141276--49141409 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
49141266 TGGCCCTTAG
*
49141276 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49141318 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49141360 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49141402 GCCCATTT
1 GCCCATTT
49141410 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:49142734 original size:27 final size:27
Alignment explanation
Indices: 49142506--49142741 Score: 183
Period size: 27 Copynumber: 8.7 Consensus size: 27
49142496 TTCATCCTAC
* *
49142506 AAGGGTGTTTTGGTAAATTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
49142533 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
49142560 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
**
49142588 CAAGGGTATTTCT-GTAATTTTGTAAA-T
1 -AAGGGTATTT-TGGTAATTTTACAAACT
* *
49142615 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
49142643 GAA-GGTATTTCGGTAATTTCACAAACT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* ** *
49142670 AATGGTATTTCAGTAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
49142697 ACGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
49142724 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
49142742 CTATCCTACA
Statistics
Matches: 170, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 137 0.81
28 16 0.09
29 14 0.08
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:49142813 original size:27 final size:27
Alignment explanation
Indices: 49142774--49142971 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
49142764 ATAATTTCAC
* ** *
49142774 AATCGATGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
49142801 AATTGAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
49142828 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
49142855 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
49142882 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
49142909 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
49142936 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
49142963 AATCGAGGG
1 AATCGAGGG
49142972 CATTTCAATA
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:49150445 original size:26 final size:23
Alignment explanation
Indices: 49150408--49150454 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
49150398 TAAGAAATTT
49150408 TGATAAATGAATTGATAGTTGGTTA
1 TGATAAATGAATT-AT-GTTGGTTA
*
49150433 TGATTAATCGAATTATGTTGGT
1 TGATAAAT-GAATTATGTTGGT
49150455 GTGAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 9 0.45
26 5 0.25
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (23 bp):
TGATAAATGAATTATGTTGGTTA
Found at i:49150689 original size:22 final size:22
Alignment explanation
Indices: 49150663--49150705 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49150653 TTAACTATTC
* *
49150663 TGCACTTCAGTGCCTATTGTTT
1 TGCACTACAGTGCCTACTGTTT
*
49150685 TGCACTACGGTGCCTACTGTT
1 TGCACTACAGTGCCTACTGTT
49150706 AAAGCACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.40
Consensus pattern (22 bp):
TGCACTACAGTGCCTACTGTTT
Found at i:49155994 original size:28 final size:28
Alignment explanation
Indices: 49155962--49156016 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
49155952 TAAAAGTCAT
49155962 GACCTTTAGC-GACGCTTCTCCCACAAAC
1 GACCTTTAGCAG-CGCTTCTCCCACAAAC
49155990 GACCTTTAGCAGCGCTTCTCCCACAAA
1 GACCTTTAGCAGCGCTTCTCCCACAAA
49156017 TGCCACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.22
Consensus pattern (28 bp):
GACCTTTAGCAGCGCTTCTCCCACAAAC
Found at i:49157235 original size:22 final size:22
Alignment explanation
Indices: 49157210--49157253 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49157200 TATTTATTGT
*
49157210 TATTTAAAAAAATTATATATAA
1 TATTTAAAAAAATTAAATATAA
* *
49157232 TATTTATAAATATTAAATATAA
1 TATTTAAAAAAATTAAATATAA
49157254 AATATTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTTAAAAAAATTAAATATAA
Found at i:49172317 original size:21 final size:21
Alignment explanation
Indices: 49172291--49172345 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
49172281 AACAGCGGTG
*
49172291 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
49172312 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
49172333 GCAGTGAGATTAG
1 GCGGTGAGATTAG
49172346 AAACAGCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:49178448 original size:7 final size:7
Alignment explanation
Indices: 49178436--49178564 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
49178426 ACTAATTAAT
49178436 CTAAACC
1 CTAAACC
49178443 CTAAACC
1 CTAAACC
*
49178450 TCTTAACCC
1 -C-TAAACC
*
49178459 CT-ATCC
1 CTAAACC
*
49178465 CATAAACA
1 C-TAAACC
*
49178473 CTAAACA
1 CTAAACC
*
49178480 CTTAACC
1 CTAAACC
*
49178487 TTAAACC
1 CTAAACC
*
49178494 CTTAACC
1 CTAAACC
*
49178501 CTTAACC
1 CTAAACC
*
49178508 CCAAACC
1 CTAAACC
*
49178515 CTTACACC
1 C-TAAACC
*
49178523 TTAAACTC
1 CTAAAC-C
49178531 C--AACC
1 CTAAACC
49178536 CTAAACC
1 CTAAACC
49178543 CTAAACC
1 CTAAACC
* * *
49178550 ATAATCT
1 CTAAACC
49178557 CTAAACC
1 CTAAACC
49178564 C
1 C
49178565 ATAATTCATC
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 67 0.74
8 10 0.11
9 5 0.05
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:49178513 original size:21 final size:21
Alignment explanation
Indices: 49178439--49178526 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
49178429 AATTAATCTA
*
49178439 AACCCTAAACCTCTTAACCCCT
1 AACCCTAAACC-CTTAACCCTT
* * * *
49178461 ATCCCATAAACACTAAACACTT
1 AACCC-TAAACCCTTAACCCTT
*
49178483 AACCTTAAACCCTTAACCCTT
1 AACCCTAAACCCTTAACCCTT
*
49178504 AACCCCAAACCCTT-ACACCTT
1 AACCCTAAACCCTTAAC-CCTT
49178525 AA
1 AA
49178527 ACTCCAACCC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 2 0.04
21 31 0.60
22 14 0.27
23 5 0.10
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAAACCCTTAACCCTT
Found at i:49178619 original size:14 final size:14
Alignment explanation
Indices: 49178609--49178653 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
49178599 TCCTAAACAT
49178609 TAAACCTTAAACCA
1 TAAACCTTAAACCA
* *
49178623 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
49178637 TAAACCTTAAACTA
1 TAAACCTTAAACCA
49178651 TAA
1 TAA
49178654 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:49178920 original size:41 final size:41
Alignment explanation
Indices: 49178820--49178920 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
49178810 GTTATATGAC
* *
49178820 TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCTGGT
* * *
49178861 TTTTAGTGGCGTTTTACCGAAAGCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCTGGT
49178902 TTTTAGCGGCGTTTTACCG
1 TTTTAGCGGCGTTTTACCG
49178921 CAAACGCTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCTGGT
Found at i:49178947 original size:41 final size:41
Alignment explanation
Indices: 49178820--49178940 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
49178810 GTTATATGAC
**
49178820 TTTTAGCGGCGTTTTA--GCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGC-AAA-CGCTGCTAATGCTCTGGT
*
49178861 TTTTAGTGGCGTTTTACCG-AAA-GCGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGCAAACGC-T-GCTAATGCTCTGGT
*
49178902 TTTTAGCGGCGTTTTACCGCAAACGCTGCTATTGCTCTG
1 TTTTAGCGGCGTTTTACCGCAAACGCTGCTAATGCTCTG
49178941 TATTTTACAA
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
39 2 0.03
41 60 0.87
42 4 0.06
43 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGCAAACGCTGCTAATGCTCTGGT
Found at i:49181077 original size:3 final size:3
Alignment explanation
Indices: 49181069--49181120 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
49181059 ACAAATTAAA
* * * * *
49181069 AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT AGT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49181116 AAT AA
1 AAT AA
49181121 AGATCTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:49181087 original size:15 final size:15
Alignment explanation
Indices: 49181063--49181120 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
49181053 TGTAAAACAA
*
49181063 ATTAAAAATAATAAT
1 ATTAATAATAATAAT
*
49181078 ATTAATAATAATGAT
1 ATTAATAATAATAAT
*
49181093 GATGATAGTAATAATAAT
1 -AT--TAATAATAATAAT
49181111 A-TAATAATAA
1 ATTAATAATAA
49181121 AGATCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.23
15 13 0.37
16 2 0.06
17 1 0.03
18 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
ATTAATAATAATAAT
Found at i:49184376 original size:24 final size:24
Alignment explanation
Indices: 49184343--49184396 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
49184333 CATATTTGTA
*
49184343 TCTGTAATCTGAATCTAG-ATCTGAT
1 TCTG-AATCTGAAACT-GTATCTGAT
*
49184368 TCTGAATCTGAAACTGTATCTGCT
1 TCTGAATCTGAAACTGTATCTGAT
49184392 TCTGA
1 TCTGA
49184397 CTGTGTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (24 bp):
TCTGAATCTGAAACTGTATCTGAT
Found at i:49188079 original size:17 final size:17
Alignment explanation
Indices: 49188057--49188090 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49188047 TATATTTTTA
49188057 TATAATTATTCTTATTT
1 TATAATTATTCTTATTT
*
49188074 TATAATTATTTTTATTT
1 TATAATTATTCTTATTT
49188091 GTAGAACTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TATAATTATTCTTATTT
Found at i:49189478 original size:20 final size:20
Alignment explanation
Indices: 49189433--49189483 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
49189423 AATTATGAAA
*
49189433 AATAAAAAATAATAAATTTT
1 AATAAAAATTAATAAATTTT
* *
49189453 -AGAAAAATTATTAAATTTT
1 AATAAAAATTAATAAATTTT
49189472 AATAAAAATTAA
1 AATAAAAATTAA
49189484 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAAATTAATAAATTTT
Found at i:49189500 original size:17 final size:19
Alignment explanation
Indices: 49189480--49189545 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
49189470 TTAATAAAAA
*
49189480 TTAAAAAA-A-TAGTTTTT
1 TTAAAAAATAGTAATTTTT
49189497 TTAAAAAATTAGTAATTTTT
1 TTAAAAAA-TAGTAATTTTT
* *
49189517 TTAAAAATTAGAAATTTTT
1 TTAAAAAATAGTAATTTTT
*
49189536 ATATAAAAAT
1 TTA-AAAAAT
49189546 CATAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.20
19 13 0.32
20 19 0.47
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTAAAAAATAGTAATTTTT
Found at i:49189515 original size:19 final size:19
Alignment explanation
Indices: 49189480--49189545 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
49189470 TTAATAAAAA
*
49189480 TTAAAAAAATAGT--TTTT
1 TTAAAAAATTAGTAATTTT
49189497 TTAAAAAATTAGTAATTTT
1 TTAAAAAATTAGTAATTTT
* *
49189516 TTTAAAAATTAGAAATTTT
1 TTAAAAAATTAGTAATTTT
49189535 TATATAAAAAT
1 T-TA-AAAAAT
49189546 CATAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.29
19 22 0.54
20 1 0.02
21 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTAAAAAATTAGTAATTTT
Found at i:49189517 original size:20 final size:20
Alignment explanation
Indices: 49189492--49189545 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
49189482 AAAAAAATAG
*
49189492 TTTTTTTAAAAAATTAGTAA
1 TTTTTTTAAAAAATTAGAAA
49189512 TTTTTTT-AAAAATTAGAAA
1 TTTTTTTAAAAAATTAGAAA
*
49189531 TTTTTATATAAAAAT
1 TTTTTTTA-AAAAAT
49189546 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 17 0.57
20 7 0.23
21 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTTTTAAAAAATTAGAAA
Found at i:49189569 original size:9 final size:9
Alignment explanation
Indices: 49189537--49189589 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
49189527 GAAATTTTTA
49189537 TATAAAAAT
1 TATAAAAAT
* *
49189546 CATAAAAAA
1 TATAAAAAT
49189555 TA-AAAAAT
1 TATAAAAAT
* *
49189563 TGTAAAATTT
1 TATAAAA-AT
49189573 TATAAAAAT
1 TATAAAAAT
49189582 TATAAAAA
1 TATAAAAA
49189590 AAATTAATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
TATAAAAAT
Found at i:49189589 original size:20 final size:20
Alignment explanation
Indices: 49189441--49189589 Score: 60
Period size: 19 Copynumber: 7.3 Consensus size: 20
49189431 AAAATAAAAA
*
49189441 ATAATAAATTTTAGAAAAATT
1 ATAA-AAATTTTATAAAAATT
*
49189462 AT-TAAATTTTAATAAAAATT
1 ATAAAAATTTT-ATAAAAATT
* *
49189482 AAAAAAATAGTTTTTTTAAAAAATT
1 -ATAAAA-A--TTTTAT-AAAAATT
* *
49189507 AGT--AATTTTTTTAAAAATT
1 A-TAAAAATTTTATAAAAATT
* ** *
49189526 AGAAATTTTTATATAAAAATC
1 ATAAAAATTT-TATAAAAATT
*
49189547 ATAAAAA--ATA-AAAAATT
1 ATAAAAATTTTATAAAAATT
*
49189564 GT-AAAATTTTATAAAAATT
1 ATAAAAATTTTATAAAAATT
49189583 ATAAAAA
1 ATAAAAA
49189590 AAATTAATGA
Statistics
Matches: 94, Mismatches: 19, Indels: 31
0.65 0.13 0.22
Matches are distributed among these distances:
16 4 0.04
17 7 0.07
18 4 0.04
19 23 0.24
20 23 0.24
21 15 0.16
22 2 0.02
23 3 0.03
24 2 0.02
25 11 0.12
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (20 bp):
ATAAAAATTTTATAAAAATT
Found at i:49189819 original size:9 final size:9
Alignment explanation
Indices: 49189797--49189902 Score: 58
Period size: 9 Copynumber: 11.7 Consensus size: 9
49189787 TTTTTTAAGA
*
49189797 TTTTATAAAA
1 TTTTAT-AAT
49189807 TTTTATAAT
1 TTTTATAAT
49189816 TTTT-TACGAT
1 TTTTATA--AT
*
49189826 TTTTATAAAA
1 TTTTAT-AAT
* *
49189836 TTTTACAAA
1 TTTTATAAT
49189845 TTTT-TAAT
1 TTTTATAAT
*
49189853 TTTTATGAT
1 TTTTATAAT
*
49189862 TTTTATATTT
1 TTTTATA-AT
*
49189872 TTTTCTAA-
1 TTTTATAAT
49189880 TTTT-TAAT
1 TTTTATAAT
* *
49189888 GTTTAAAAT
1 TTTTATAAT
49189897 TTTTAT
1 TTTTAT
49189903 TAACATTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
7 3 0.04
8 15 0.20
9 29 0.39
10 25 0.34
11 1 0.01
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:49190091 original size:89 final size:89
Alignment explanation
Indices: 49189981--49190194 Score: 242
Period size: 90 Copynumber: 2.5 Consensus size: 89
49189971 ATAAAAGCAG
* *
49189981 GGGCTTAATTT-C--TTTTTTTTGAAAAAGTTTGAGGGCTTATTGATGCATTTTGAAGGTTCAAG
1 GGGCTTAATTTACTTTTTTTTTTGAAAAAGTTTGAGGGCTTATTGATGCATTTTGAAAGTTCAAA
* * *
49190043 TACCCAATTGAGTGCCAAAAAAGA
66 TACCCAAATGAGTGCAAAAAAAAA
* * * * *
49190067 GGGCTTAATTTACTTTTTTTTTTGAAAATGTTTGAGGACTTTTTTTATGTATTTTGAAAGTTCAA
1 GGGCTTAATTTACTTTTTTTTTTGAAAAAGTTTGAGGGC-TTATTGATGCATTTTGAAAGTTCAA
*
49190132 ATACTCAAATGAGTGCAAAAAAAAA
65 ATACCCAAATGAGTGCAAAAAAAAA
* * * *
49190157 GGG---GATTTAATTGTTTTTTTGAAAAAGTTTGATGGCTT
1 GGGCTTAATTTACTTTTTTTTTTGAAAAAGTTTGAGGGCTT
49190195 TTTGCATACT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
86 13 0.12
87 28 0.26
89 22 0.21
90 44 0.41
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (89 bp):
GGGCTTAATTTACTTTTTTTTTTGAAAAAGTTTGAGGGCTTATTGATGCATTTTGAAAGTTCAAA
TACCCAAATGAGTGCAAAAAAAAA
Found at i:49200146 original size:21 final size:21
Alignment explanation
Indices: 49200120--49200159 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49200110 ATTCAAAGTG
*
49200120 TAATTATACATTGATTTATCA
1 TAATTATACATTAATTTATCA
*
49200141 TAATTATATATTAATTTAT
1 TAATTATACATTAATTTAT
49200160 TAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TAATTATACATTAATTTATCA
Found at i:49200517 original size:59 final size:60
Alignment explanation
Indices: 49200390--49200562 Score: 206
Period size: 59 Copynumber: 2.9 Consensus size: 60
49200380 ACCTAATAAC
* * * * * *
49200390 AAATTTAGCCCTTCAATGTTTACACAATTTATCAATTT-GATCCTAAATCTAAAAATTTAAT
1 AAATTTAGCTC-TCAATGTTTAAAAAATTTATCAATTTAG-TTCTAATTCTAAAAATTCAAT
* *
49200451 AATTTTAGCTCTCAATGTTTAAAAAATTTGTC-ATTTAGTTCTAATTCTAAAAATTCAAT
1 AAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAAATTCAAT
** * *
49200510 AAATTTAGCTCTCAACATTTAAAAAATTTATCAATTTAATTCTAATTTTAAAA
1 AAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAA
49200563 GTTAAAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
59 50 0.52
60 37 0.39
61 9 0.09
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (60 bp):
AAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAAATTCAAT
Found at i:49205682 original size:28 final size:28
Alignment explanation
Indices: 49205642--49205711 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
49205632 ATAGTAAGTC
*
49205642 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTGT-ACAATCAAACT
* *
49205670 CGCACACTTAGTGATGTACAATTAAACT
1 CGCACACTTAGTGCTGTACAATCAAACT
49205698 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49205712 AATCTCATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTGTACAATCAAACT
Found at i:49222416 original size:101 final size:101
Alignment explanation
Indices: 49222241--49222442 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
49222231 CAAGGAAGCC
*
49222241 AATTGATTCATCTCAGAAGCCGAATTCATCATCAAGACTGAAGATTTTCCCTCAATTCCCCTTCA
1 AATTGATTCATCTCAGAAGCCGAACTCATCATCAAGACTGAAGATTTTCCCTCAATTCCCCTTCA
49222306 GGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTA
66 GGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTA
49222342 AATTGATTCATCTCAGAAGCCGAACTCATCATCAAGACTGAAGATTTTCCCTCAATTCCCCTTCA
1 AATTGATTCATCTCAGAAGCCGAACTCATCATCAAGACTGAAGATTTTCCCTCAATTCCCCTTCA
49222407 GGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTA
66 GGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTA
49222443 TTATTCTAAG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (101 bp):
AATTGATTCATCTCAGAAGCCGAACTCATCATCAAGACTGAAGATTTTCCCTCAATTCCCCTTCA
GGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTA
Found at i:49227848 original size:40 final size:39
Alignment explanation
Indices: 49227803--49227984 Score: 194
Period size: 40 Copynumber: 4.7 Consensus size: 39
49227793 AAGTGACCAT
*
49227803 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
49227843 TTCCGGGCTAAGCCCGAAGGCA----TACGAGTTACTAA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
49227878 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
** *
49227918 ATCCGGGTTTAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-A
* *
49227959 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGACTAAGT-CCGAAGGCATTTG
49227985 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
35 21 0.17
36 9 0.08
39 10 0.08
40 78 0.65
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:49228501 original size:60 final size:61
Alignment explanation
Indices: 49228413--49228537 Score: 225
Period size: 60 Copynumber: 2.1 Consensus size: 61
49228403 AGTCGCCCAC
*
49228413 ACTATCAAAGCCCCCCCCTTCTGGTACAATTTTGGTTGAACTTCGAAATGGCATGTATAGT
1 ACTATCAAAGCCCCCCCCTTCTGGTACAATTTTGGTTGAACTTCGAAATGGCATGTATAGG
*
49228474 ACTATCAAAG-CCCCCCCTTTTGGTACAATTTTGGTTGAACTTCGAAATGGCATGTATAGG
1 ACTATCAAAGCCCCCCCCTTCTGGTACAATTTTGGTTGAACTTCGAAATGGCATGTATAGG
49228534 ACTA
1 ACTA
49228538 CCCTTTTGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 52 0.84
61 10 0.16
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (61 bp):
ACTATCAAAGCCCCCCCCTTCTGGTACAATTTTGGTTGAACTTCGAAATGGCATGTATAGG
Found at i:49235569 original size:79 final size:81
Alignment explanation
Indices: 49235433--49235616 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
49235423 TTGAATGATG
*
49235433 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
49235497 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
49235512 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
49235574 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
49235592 ACCGGGCTATGTCCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
49235617 AAACGAGTAG
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:49235624 original size:40 final size:40
Alignment explanation
Indices: 49235433--49235616 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
49235423 TTGAATGATG
* * * *
49235433 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49235473 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
49235513 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49235552 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
49235593 -CCGGGCTATGTCCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
49235617 AAACGAGTAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.