Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 206 of 311
Found at i:70953379 original size:18 final size:18
Alignment explanation
Indices: 70953356--70953392 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70953346 AATGATTTAA
70953356 TATTTGACTTATTCGAAT
1 TATTTGACTTATTCGAAT
* *
70953374 TATTTGAGTTATTTGAAT
1 TATTTGACTTATTCGAAT
70953392 T
1 T
70953393 CAAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGACTTATTCGAAT
Found at i:70954816 original size:25 final size:24
Alignment explanation
Indices: 70954788--70954845 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
70954778 ATCAAATACA
70954788 CTAAAAATATT-AAAATAAATGTTTT
1 CTAAAAAT-TTAAAAATAAAT-TTTT
*
70954813 CTAACAATTTAAAAATAAATTTTT
1 CTAAAAATTTAAAAATAAATTTTT
**
70954837 AAAAAAATT
1 CTAAAAATT
70954846 ATACTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
CTAAAAATTTAAAAATAAATTTTT
Found at i:70954824 original size:24 final size:25
Alignment explanation
Indices: 70954788--70954836 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
70954778 ATCAAATACA
70954788 CTAAAAATATT-AAAATAAATGTTTT
1 CTAAAAATATTAAAAATAAAT-TTTT
*
70954813 CTAACAAT-TTAAAAATAAATTTTT
1 CTAAAAATATTAAAAATAAATTTTT
70954837 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
CTAAAAATATTAAAAATAAATTTTT
Found at i:70954987 original size:25 final size:25
Alignment explanation
Indices: 70954941--70954988 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
70954931 TAGAATATCC
*
70954941 AAATAATAACAACAATATAATAATA
1 AAATAATAACAACAATACAATAATA
*
70954966 AAATAATGACAA-AATGACAATAA
1 AAATAATAACAACAAT-ACAATAA
70954989 AACAATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (25 bp):
AAATAATAACAACAATACAATAATA
Found at i:70957743 original size:35 final size:35
Alignment explanation
Indices: 70957674--70957745 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
70957664 TTTTAATTTC
* *
70957674 TTACAATTATTAATATGATTATGTTTTATGATATA
1 TTACAATTATTAATACGATTATGTTTAATGATATA
*
70957709 TTACAATTATTAATCCGATTATGTTTAAAT-ATATA
1 TTACAATTATTAATACGATTATGTTT-AATGATATA
70957744 TT
1 TT
70957746 GCTTGTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.50
Consensus pattern (35 bp):
TTACAATTATTAATACGATTATGTTTAATGATATA
Found at i:70965002 original size:14 final size:14
Alignment explanation
Indices: 70964983--70965013 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
70964973 AGCATCATAG
70964983 AGACCAATGTATTA
1 AGACCAATGTATTA
70964997 AGACCAATGTATTA
1 AGACCAATGTATTA
70965011 AGA
1 AGA
70965014 GTGAGATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (14 bp):
AGACCAATGTATTA
Found at i:70970626 original size:22 final size:22
Alignment explanation
Indices: 70970599--70970645 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
70970589 TTTTAATGAC
* *
70970599 ATTTTTAATGCATTAAGTTTAA
1 ATTTTTAATGCAATAAGTATAA
*
70970621 ATTTTTCATGCAATAAGTATAA
1 ATTTTTAATGCAATAAGTATAA
70970643 ATT
1 ATT
70970646 AACATGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTTTAATGCAATAAGTATAA
Found at i:70972637 original size:15 final size:15
Alignment explanation
Indices: 70972617--70972645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70972607 CAGGGGACAT
70972617 ACGACCGTGTAACAC
1 ACGACCGTGTAACAC
70972632 ACGACCGTGTAACA
1 ACGACCGTGTAACA
70972646 TGATAGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.31, G:0.21, T:0.14
Consensus pattern (15 bp):
ACGACCGTGTAACAC
Found at i:70973600 original size:40 final size:40
Alignment explanation
Indices: 70973535--70973627 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
70973525 GATATCTCGT
* *
70973535 ACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
* * * * *
70973575 ACACTAAGTGCCATATATAGTCGAAGCTATGTCGATTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
70973615 ACACTAAGTGCCA
1 ACACTAAGTGCCA
70973628 CCAATAGCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
Found at i:70978049 original size:17 final size:17
Alignment explanation
Indices: 70978027--70978060 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
70978017 TGTATTAGAT
70978027 ATTAAATAGA-TATATTA
1 ATTAAATA-ATTATATTA
70978044 ATTAAATAATTATATTA
1 ATTAAATAATTATATTA
70978061 TAAGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTAAATAATTATATTA
Found at i:70978311 original size:20 final size:21
Alignment explanation
Indices: 70978277--70978317 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
70978267 GCAGGGGAAG
70978277 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
70978298 GAAAGAAA-AAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
70978318 TCAAAGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:70978323 original size:21 final size:21
Alignment explanation
Indices: 70978278--70978324 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
70978268 CAGGGGAAGG
*
70978278 AAAGAAAGAAAAAGAGAAAAG
1 AAAGAAAGAAAAAGAGAAAAC
*
70978299 AAAGAAA-AAAAAGGGAAAATC
1 AAAGAAAGAAAAAGAGAAAA-C
70978320 AAAGA
1 AAAGA
70978325 TGTGAAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAGAAAGAAAAAGAGAAAAC
Found at i:70980299 original size:46 final size:46
Alignment explanation
Indices: 70980247--70980462 Score: 317
Period size: 46 Copynumber: 4.7 Consensus size: 46
70980237 AGTGTGCTCT
70980247 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
70980293 CTGATATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
70980339 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
70980385 ATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
70980431 ATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAA
70980463 TACACTATGG
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 158 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:70985952 original size:11 final size:11
Alignment explanation
Indices: 70985936--70985960 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70985926 TTATATATAC
70985936 TAATAAAATAA
1 TAATAAAATAA
70985947 TAATAAAATAA
1 TAATAAAATAA
70985958 TAA
1 TAA
70985961 ATATCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:70986264 original size:31 final size:30
Alignment explanation
Indices: 70986229--70986287 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
70986219 CACCCTTAAA
*
70986229 ATATTTGCACTATT-AGCCCTTCAAATTTTTC
1 ATATTTACACT-TTAAGCCC-TCAAATTTTTC
*
70986260 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAAGCCCTCAAATTTT
70986288 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAAGCCCTCAAATTTTTC
Found at i:70986688 original size:28 final size:28
Alignment explanation
Indices: 70986641--70986751 Score: 123
Period size: 28 Copynumber: 4.0 Consensus size: 28
70986631 ATGCAGTTGA
* *
70986641 ATACTCAATGTCTCGCACACTAAGTGTC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * *
70986669 ATACTCAATATTTCGTACACTAAATGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * * *
70986697 ACAGTCGATATCTCGCATACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
**
70986725 ATACTTGATATCTCGCACACTAAGTGC
1 ATACTCAATATCTCGCACACTAAGTGC
70986752 TGTACATAGC
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:70986808 original size:40 final size:40
Alignment explanation
Indices: 70986740--70986833 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 40
70986730 TGATATCTCG
**
70986740 CACACTAAGTGCTGTACATAGCCAAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
* * * * ** * *
70986780 CACACTAAGTGCCATATATAGTCGAAGCTATGTTGATTCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
70986820 CACACTAAGTGCCA
1 CACACTAAGTGCCA
70986834 CCAATAGCTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
Found at i:70991697 original size:46 final size:46
Alignment explanation
Indices: 70991645--70992050 Score: 580
Period size: 46 Copynumber: 8.8 Consensus size: 46
70991635 AGTGTGCTCT
*
70991645 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
70991691 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
70991737 ATGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
70991783 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
70991829 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
70991875 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
70991921 CTGACATGAAATGAGTAAGACCGTGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
70991967 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
70992014 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
70992051 TATGACATCA
Statistics
Matches: 333, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 293 0.88
47 40 0.12
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:70992162 original size:13 final size:13
Alignment explanation
Indices: 70992144--70992173 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
70992134 TATAAGATGG
70992144 AATGGTTATATGA
1 AATGGTTATATGA
*
70992157 AATGGTTATGTGA
1 AATGGTTATATGA
70992170 AATG
1 AATG
70992174 TTTACAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:70999667 original size:41 final size:40
Alignment explanation
Indices: 70999619--70999718 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
70999609 TCGACCTTGA
* *
70999619 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
70999659 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* *
70999697 GCCGATGAGACATTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
70999719 ACTTTGCTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
37 9 0.20
38 18 0.40
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:70999966 original size:23 final size:23
Alignment explanation
Indices: 70999939--71000024 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
70999929 GCTTTGTCGA
* *
70999939 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
70999962 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
70999983 TCAGGCACCTCGTGTGT--TTTT
1 TCAGGCACCTCATGTGTCGTATT
*
71000004 TCAGGCA-CTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
71000025 ACTGATCAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 7 0.13
21 24 0.46
22 2 0.04
23 18 0.35
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:71001073 original size:25 final size:25
Alignment explanation
Indices: 71001045--71001093 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
71001035 GCGCGCTATC
* *
71001045 TGATTATTAGTACATTAGTGCTCTT
1 TGATTATTAGCACATTAATGCTCTT
71001070 TGATTATTAGCACATTAATGCTCT
1 TGATTATTAGCACATTAATGCTCT
71001094 CCGTTTAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (25 bp):
TGATTATTAGCACATTAATGCTCTT
Found at i:71002737 original size:21 final size:21
Alignment explanation
Indices: 71002683--71002741 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
71002673 TAATGTTGAT
* *
71002683 GATATTTTATAATTATTAATTA
1 GATATTTTATTATT-TTAATAA
**
71002705 GATA-AATATTATTTTAATAA
1 GATATTTTATTATTTTAATAA
71002725 GATATTTTATTATTTTA
1 GATATTTTATTATTTTA
71002742 TTGTTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 10 0.33
21 16 0.53
22 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
GATATTTTATTATTTTAATAA
Found at i:71019320 original size:40 final size:39
Alignment explanation
Indices: 71019260--71019370 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
71019250 CTCGGTATCG
*
71019260 CACACTTAGTGCCTCA--TATAGCCGAAGCTATACCATTTCA
1 CACACTTAGTG-CT-ATTTATAGCCGAAGCTATACCA-ATCA
* *** *
71019300 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTA-TACCAATCA
71019340 CACACTTAGTGCTATTTATAGCCGAAGCTAT
1 CACACTTAGTGCTATTTATAGCCGAAGCTAT
71019371 TTTGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 55 0.90
41 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (39 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATACCAATCA
Found at i:71019371 original size:40 final size:40
Alignment explanation
Indices: 71019300--71019391 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
71019290 TACCATTTCA
*
71019300 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
71019340 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
71019380 CACACTTAGTGC
1 CACACTTAGTGC
71019392 CAAATGCAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
Found at i:71021511 original size:42 final size:42
Alignment explanation
Indices: 71021417--71021573 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
71021407 GCCCGAAGGC
* * *
71021417 TAAACAGAAGCTCTTGAGAGCTAAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCGTAAAAGCTAAACAGAAACCCATAAGGGT
* * *
71021459 TGAACGGAAGCTCGTAAAAGCTGAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCGTAAAAGCTAAACAGAAACCCATAAGGGT
** * *
71021501 TAAATTGAAGCT--TAAAATAGCTAAACAGAAACTCATATA-AGT
1 TAAACAGAAGCTCGT-AAA-AGCTAAACAGAAACCCATA-AGGGT
* *
71021543 TAAACAGAAGCTCGTGAAAGCTAAACGGAAA
1 TAAACAGAAGCTCGTAAAAGCTAAACAGAAA
71021574 GTAAAGACGA
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 86 0.91
43 3 0.03
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (42 bp):
TAAACAGAAGCTCGTAAAAGCTAAACAGAAACCCATAAGGGT
Found at i:71021567 original size:21 final size:21
Alignment explanation
Indices: 71021519--71021573 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
71021509 AGCTTAAAAT
71021519 AGCTAAACAGAAACTCATATA
1 AGCTAAACAGAAACTCATATA
* * *
71021540 AGTTAAACAGAAGCTCGTGA-A
1 AGCTAAACAGAAACTCAT-ATA
*
71021561 AGCTAAACGGAAA
1 AGCTAAACAGAAA
71021574 GTAAAGACGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATATA
Found at i:71030204 original size:184 final size:183
Alignment explanation
Indices: 71029914--71030289 Score: 565
Period size: 184 Copynumber: 2.0 Consensus size: 183
71029904 ATTTTTATCG
* * *
71029914 TAAAAATTAAAATTAATTATATATTAAATAAAAATAGAATTCAATTCGTTTTCATGGAATCGCAG
1 TAAAAATTAAAATTAATTATATATCAAAAAAAAATAGAATTCAATTCGTTTACATGGAATCGCAG
* * *
71029979 TTTTTGAACTTACATTTCATATACCATCCAAATACTTCGATCGATCTTCGATTTGATTAAATTTG
66 TTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATTAAATTTG
71030044 AAAGTAAG-AAAGATTAAAACATTTTAAAAGAAAATAAATATTAACAGTTAGCC
131 AAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAA-AGTTAGCC
* *
71030097 TAAGAATTAAAATTAATTATATATCAAAGAAAAAATAGAATTCGATTCGTTTACATGGAATCGCA
1 TAAAAATTAAAATTAATTATATATCAAA-AAAAAATAGAATTCAATTCGTTTACATGGAATCGCA
* * ***
71030162 GTTTTTAAACTTAAATTTCATATATCATCCAAACACTTCGATCGATCTTCTATTTGATTGGTTTT
65 GTTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATTAAATTT
* * * * *
71030227 GAATGTAGGAAAAGATTAAAACATTTTGAAAGAAAATAAATATTAATGTTATCC
130 GAAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAAAGTTAGCC
71030281 TAAAAATTA
1 TAAAAATTA
71030290 GAAAATAAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
183 26 0.15
184 111 0.65
185 35 0.20
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (183 bp):
TAAAAATTAAAATTAATTATATATCAAAAAAAAATAGAATTCAATTCGTTTACATGGAATCGCAG
TTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATTAAATTTG
AAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAAAGTTAGCC
Found at i:71033035 original size:19 final size:19
Alignment explanation
Indices: 71033011--71033054 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
71033001 ATTAAAATAA
71033011 ATTTATTATT-TATTTATAT
1 ATTTATTATTATATTT-TAT
71033030 ATTTATTATTATATTTTAT
1 ATTTATTATTATATTTTAT
71033049 -TTTATT
1 ATTTATT
71033055 TAATAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATTATTATATTTTAT
Found at i:71033053 original size:12 final size:13
Alignment explanation
Indices: 71033012--71033053 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
71033002 TTAAAATAAA
71033012 TTTAT-TATTTA-
1 TTTATATATTTAT
71033023 TTTATATATTTAT
1 TTTATATATTTAT
71033036 TATTATAT-TTTAT
1 T-TTATATATTTAT
71033049 TTTAT
1 TTTAT
71033054 TTAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.18
12 10 0.36
13 7 0.25
14 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATATATTTAT
Found at i:71033686 original size:4 final size:4
Alignment explanation
Indices: 71033677--71033702 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
71033667 AAAACCAATG
71033677 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
71033703 AAGAAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:71040037 original size:13 final size:13
Alignment explanation
Indices: 71040021--71040069 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
71040011 ATGTTTAAGA
71040021 AAATTATTTAATC
1 AAATTATTTAATC
* * *
71040034 AAATTCTTTAGTT
1 AAATTATTTAATC
71040047 AAATTATTTAATC
1 AAATTATTTAATC
*
71040060 AAATTCTTTA
1 AAATTATTTA
71040070 GTTGAATAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (13 bp):
AAATTATTTAATC
Found at i:71040043 original size:26 final size:27
Alignment explanation
Indices: 71040014--71040069 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
71040004 AAATTAAATG
71040014 TTTAAG-AAAATTATTTAATCAAATTC
1 TTTAAGTAAAATTATTTAATCAAATTC
*
71040040 TTT-AGTTAAATTATTTAATCAAATTC
1 TTTAAGTAAAATTATTTAATCAAATTC
71040066 TTTA
1 TTTA
71040070 GTTGAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
TTTAAGTAAAATTATTTAATCAAATTC
Found at i:71040070 original size:26 final size:26
Alignment explanation
Indices: 71040021--71040072 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
71040011 ATGTTTAAGA
71040021 AAATTATTTAATCAAATTCTTTAGTT
1 AAATTATTTAATCAAATTCTTTAGTT
71040047 AAATTATTTAATCAAATTCTTTAGTT
1 AAATTATTTAATCAAATTCTTTAGTT
71040073 GAATAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (26 bp):
AAATTATTTAATCAAATTCTTTAGTT
Found at i:71041748 original size:40 final size:40
Alignment explanation
Indices: 71041660--71041797 Score: 107
Period size: 44 Copynumber: 3.4 Consensus size: 40
71041650 GTGTGCGTTT
* * * * *
71041660 CGAGATAGCTTCGGCTATATATAGCACTTAGTGTGTGA-AT
1 CGAGATAGCTTCGG-TTTATGTGGCACTAAGTGTGTGATAC
* * *
71041700 TGAAATAGCTTTGGTTTATGTGGCACTAAGTGTGTGATAC
1 CGAGATAGCTTCGGTTTATGTGGCACTAAGTGTGTGATAC
* * *
71041740 CGAGATAGCTTCGGTTCAATGTGATGGCACTAAGTGTGCGATAT
1 CGAGATAGCTTCGGTT---TATG-TGGCACTAAGTGTGTGATAC
**
71041784 CGTTATAGCTTCGG
1 CGAGATAGCTTCGG
71041798 CTAAACATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 19 0.25
40 25 0.32
43 3 0.04
44 30 0.39
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (40 bp):
CGAGATAGCTTCGGTTTATGTGGCACTAAGTGTGTGATAC
Found at i:71044437 original size:46 final size:46
Alignment explanation
Indices: 71044384--71044481 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 46
71044374 TTACCTTTCA
71044384 ATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTCTCG
1 ATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTCTCG
*
71044430 ATCTCAAATTTACCAAATTAGACAAGTTAATCTAGTTTATCTCTCG
1 ATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTCTCG
71044476 ATCTCA
1 ATCTCA
71044482 CAGGCTAACC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (46 bp):
ATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTCTCG
Found at i:71048982 original size:22 final size:23
Alignment explanation
Indices: 71048957--71049002 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
71048947 CTATTTAATG
* *
71048957 TTCAGTTTGGTACTT-GAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
*
71048979 TTCAATTTGATATTTCGAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
71049002 T
1 T
71049003 CTTTATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TTCAATTTGATACTTCGAGTTTT
Found at i:71049441 original size:90 final size:92
Alignment explanation
Indices: 71049267--71049450 Score: 266
Period size: 90 Copynumber: 2.0 Consensus size: 92
71049257 AAATCACTAT
* *** *
71049267 TTGGGGCCTAAACTTAGCAACTTTTCCCACATTGGGGCCTGGATTTTTTTTTTTGTTCAAGTTAG
1 TTGGGGCCTAAACTTAGCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTAG
*
71049332 GCCTTGAATTTGGCAATTGTTCCCACA
66 GCCTTGAACTTGGCAATTGTTCCCACA
*
71049359 TTGGGG-CTAAAC-TAGGCAACTGTTCCCACATTGGGG-CTTGAACCTTTTTTTTGTCCAAGTTA
1 TTGGGGCCTAAACTTA-GCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTA
*
71049421 GTCCTTGAACTTGGCAATTGTTCCCACA
65 GGCCTTGAACTTGGCAATTGTTCCCACA
71049449 TT
1 TT
71049451 TCAAGGACTA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
90 51 0.61
91 26 0.31
92 6 0.07
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (92 bp):
TTGGGGCCTAAACTTAGCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTAG
GCCTTGAACTTGGCAATTGTTCCCACA
Found at i:71052350 original size:3 final size:3
Alignment explanation
Indices: 71052342--71052389 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
71052332 CCTTCTCATT
71052342 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
71052390 AACAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:71052624 original size:30 final size:30
Alignment explanation
Indices: 71052590--71052649 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
71052580 ATCTGAACAG
71052590 TAAGCAAACTATTTATACAACAAGGATAAA
1 TAAGCAAACTATTTATACAACAAGGATAAA
71052620 TAAGCAAACTATTTATACAACAAGGATAAA
1 TAAGCAAACTATTTATACAACAAGGATAAA
71052650 CTAATTACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (30 bp):
TAAGCAAACTATTTATACAACAAGGATAAA
Found at i:71053296 original size:32 final size:30
Alignment explanation
Indices: 71053260--71053319 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 30
71053250 TTTAAAAAAA
71053260 TATTAAATTATTTTAAATTA-TTTTATTTAAAT
1 TATTAAATTA-TTTAAA--AGTTTTATTTAAAT
71053292 TATTAAATTATTTAAAAGTTTTATTTAA
1 TATTAAATTATTTAAAAGTTTTATTTAA
71053320 CTAGATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 10 0.37
31 6 0.22
32 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TATTAAATTATTTAAAAGTTTTATTTAAAT
Found at i:71057988 original size:12 final size:12
Alignment explanation
Indices: 71057971--71057995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71057961 CCATCCACTG
71057971 GAATAGTTTTTT
1 GAATAGTTTTTT
71057983 GAATAGTTTTTT
1 GAATAGTTTTTT
71057995 G
1 G
71057996 TAAAGCCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (12 bp):
GAATAGTTTTTT
Found at i:71069000 original size:19 final size:19
Alignment explanation
Indices: 71068972--71069019 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
71068962 ATATATATTT
*
71068972 TAAA-TTTATTTATGTAGA
1 TAAATTTTATTTAGGTAGA
71068990 TAAATTTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
71069009 TAAGTTTTATT
1 TAAATTTTATT
71069020 CATATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:71073616 original size:19 final size:19
Alignment explanation
Indices: 71073570--71073617 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
71073560 GTATATACTT
*
71073570 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
*
71073588 TAAATCTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
*
71073607 TAAGTTTTATT
1 TAAATTTTATT
71073618 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:71074846 original size:60 final size:60
Alignment explanation
Indices: 71074780--71074900 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
71074770 CTCAAAATCG
* * *
71074780 CTTGAGTTTTTTCGGTAAAAGAGAGCACTACACCCTTTAAATCTAGTGTGTGATTTAAAT
1 CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
*
71074840 CTTGAGTTTTTTCAGTCAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
1 CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
71074900 C
1 C
71074901 ATAATATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (60 bp):
CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
Found at i:71077470 original size:6 final size:6
Alignment explanation
Indices: 71077459--71077491 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
71077449 CTCTTATAGC
71077459 ATATAA ATATAA ATATAA ATATAA A-A-AA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
71077492 TACATCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.12
5 2 0.08
6 20 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
ATATAA
Found at i:71093324 original size:48 final size:48
Alignment explanation
Indices: 71093259--71093355 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
71093249 CATGTATGAG
71093259 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
1 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
* *
71093307 TTCAACAATTATTTCAATTCTATGTACATGTAACATCTATACCATGTA
1 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
71093355 T
1 T
71093356 ATGTATATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (48 bp):
TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
Found at i:71102512 original size:5 final size:5
Alignment explanation
Indices: 71102457--71102500 Score: 79
Period size: 5 Copynumber: 8.6 Consensus size: 5
71102447 CTTTAAGTAA
71102457 ATATAT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
71102501 ATAATAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:71102551 original size:20 final size:20
Alignment explanation
Indices: 71102527--71102574 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
71102517 AAAAAGAAAT
*
71102527 AGAAAAAGAGAAGGATA-GA
1 AGAAAAAGAGAAGGAAAGGA
* *
71102546 ACGAAACATAGAAGGAAAGGA
1 A-GAAAAAGAGAAGGAAAGGA
71102567 AGAAAAAG
1 AGAAAAAG
71102575 CAAAGAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.62, C:0.04, G:0.29, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAAGGAAAGGA
Found at i:71103792 original size:21 final size:22
Alignment explanation
Indices: 71103767--71103809 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71103757 AGCTATTTGT
*
71103767 ATAGCAAGT-ATGAGATTTGAA
1 ATAGCAAGTGATGAGAATTGAA
71103788 ATAGCAAGTGATGAGAATTGAA
1 ATAGCAAGTGATGAGAATTGAA
71103810 TATGTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (22 bp):
ATAGCAAGTGATGAGAATTGAA
Found at i:71110617 original size:21 final size:22
Alignment explanation
Indices: 71110581--71110622 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
71110571 TTTTATTTGA
*
71110581 TTTAATATATAAAAATAAATTT
1 TTTAATATAAAAAAATAAATTT
*
71110603 TTTAA-ATAAAAAAATTAATT
1 TTTAATATAAAAAAATAAATT
71110623 AGATTCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATATAAAAAAATAAATTT
Found at i:71112354 original size:23 final size:23
Alignment explanation
Indices: 71112323--71112368 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
71112313 AATTTAAATG
* *
71112323 TTCAGTTTGGTACTTAAATTTTT
1 TTCAATTTGATACTTAAATTTTT
*
71112346 TTCAATTTGATACTTACATTTTT
1 TTCAATTTGATACTTAAATTTTT
71112369 CTTTGTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.57
Consensus pattern (23 bp):
TTCAATTTGATACTTAAATTTTT
Found at i:71113604 original size:24 final size:24
Alignment explanation
Indices: 71113572--71113623 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
71113562 AACCTAATTG
*
71113572 TAATCAATGCCAAATATATTATGC
1 TAATCAATGCCAAATATATTATAC
**
71113596 TAATCAATGTTAAATATATTATAC
1 TAATCAATGCCAAATATATTATAC
71113620 TAAT
1 TAAT
71113624 AAATACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (24 bp):
TAATCAATGCCAAATATATTATAC
Found at i:71113633 original size:24 final size:24
Alignment explanation
Indices: 71113583--71113634 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
71113573 AATCAATGCC
* * **
71113583 AAATATATTATGCTAATCAATGTT
1 AAATATATTATACTAATAAATACT
71113607 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
71113631 AAAT
1 AAAT
71113635 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:71124332 original size:33 final size:32
Alignment explanation
Indices: 71124283--71124346 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
71124273 CTTGCTACAA
* *
71124283 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
71124316 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
71124347 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:71125265 original size:14 final size:14
Alignment explanation
Indices: 71125246--71125275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71125236 TTATATCGTG
71125246 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
71125260 ACCAATCCAATTCA
1 ACCAATCCAAATCA
71125274 AC
1 AC
71125276 ATAATTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:71133539 original size:27 final size:27
Alignment explanation
Indices: 71133372--71133549 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
71133362 TAAATTGTAC
*
71133372 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
71133399 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
71133425 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
71133453 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
71133481 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
71133508 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
71133535 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71133550 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:71133540 original size:82 final size:81
Alignment explanation
Indices: 71133369--71133549 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
71133359 GATTAAATTG
* * * *
71133369 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71133434 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
71133450 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71133514 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
71133532 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71133550 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:71141436 original size:27 final size:27
Alignment explanation
Indices: 71141406--71141475 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
71141396 TCTACTTTGT
*
71141406 TGCACTAAGTGTGCGAAATGA-ATATG
1 TGCACTAAGTGTGCGAAATGACATACG
* *
71141432 ATGCACTAAGAGTGCGAATTGACCATACG
1 -TGCACTAAGTGTGCGAAATGA-CATACG
71141461 -GCACTAAGTGTGCGA
1 TGCACTAAGTGTGCGA
71141476 GTCTAACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 33 0.89
29 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCACTAAGTGTGCGAAATGACATACG
Found at i:71141579 original size:29 final size:29
Alignment explanation
Indices: 71141537--71141595 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
71141527 TGTGCGGGCT
71141537 CAATATACATTCGTGAATCATTATGGACA
1 CAATATACATTCGTGAATCATTATGGACA
71141566 CAATATACATTCGTGAATCATTATGGACA
1 CAATATACATTCGTGAATCATTATGGACA
71141595 C
1 C
71141596 TATGTGTGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (29 bp):
CAATATACATTCGTGAATCATTATGGACA
Found at i:71146528 original size:46 final size:44
Alignment explanation
Indices: 71146469--71146583 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
71146459 ACAGGACAGA
* *
71146469 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
71146515 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
71146559 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
71146584 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:71146564 original size:44 final size:45
Alignment explanation
Indices: 71146469--71146602 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
71146459 ACAGGACAGA
* *
71146469 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
71146515 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
71146559 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
71146603 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:71153595 original size:26 final size:26
Alignment explanation
Indices: 71153558--71153641 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71153548 TAATACAAAT
* *
71153558 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71153584 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71153610 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71153636 TGATAA
1 TGATAA
71153642 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:71159384 original size:26 final size:26
Alignment explanation
Indices: 71159347--71159430 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71159337 TGATACAAAT
* *
71159347 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71159373 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71159399 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71159425 TGATAA
1 TGATAA
71159431 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:71160999 original size:22 final size:20
Alignment explanation
Indices: 71160971--71161014 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
71160961 CATGTTTGAC
*
71160971 TGTTGTTATTTTCTGCATGTCA
1 TGTTGTTATTATCTG-ATG-CA
71160993 TGTTGTTATTATCTGATGCA
1 TGTTGTTATTATCTGATGCA
71161013 TG
1 TG
71161015 GGATTGGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.52
Consensus pattern (20 bp):
TGTTGTTATTATCTGATGCA
Found at i:71162638 original size:25 final size:25
Alignment explanation
Indices: 71162593--71162652 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
71162583 AGCATCATTG
* *
71162593 ATTTTATTTGTTTTCTTTTTAACTTT
1 ATTTTA-TTGTTTTATGTTTAACTTT
**
71162619 ATTTTATTGTTTTATGTTTATGTTT
1 ATTTTATTGTTTTATGTTTAACTTT
71162644 ATTTCTATT
1 ATTT-TATT
71162653 TTTAGTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.72
Consensus pattern (25 bp):
ATTTTATTGTTTTATGTTTAACTTT
Found at i:71162703 original size:26 final size:25
Alignment explanation
Indices: 71162666--71162720 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
71162656 AGTTGTTTTG
* * *
71162666 TTTTATTTTTATTTTCTTGTACT-TA
1 TTTTATTATTATCTT-TTGAACTATA
71162691 TTTTAATTATTATCTTTTGAACTATA
1 TTTT-ATTATTATCTTTTGAACTATA
71162717 TTTT
1 TTTT
71162721 TATGGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTATTATTATCTTTTGAACTATA
Found at i:71165996 original size:23 final size:22
Alignment explanation
Indices: 71165970--71166026 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
71165960 CAACATGAGT
71165970 AAATTAGATTGAT-TTGTACACTA
1 AAATTA-A-TGATATTGTACACTA
71165993 AAATT-ATGATATTGTACACTA
1 AAATTAATGATATTGTACACTA
71166014 AAATT-ATGATATT
1 AAATTAATGATATT
71166027 CTTTCACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.12
21 24 0.73
23 5 0.15
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTAATGATATTGTACACTA
Found at i:71166009 original size:21 final size:21
Alignment explanation
Indices: 71165979--71166026 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
71165969 TAAATTAGAT
71165979 TGAT-TTGTACACTAAAATTA
1 TGATATTGTACACTAAAATTA
71165999 TGATATTGTACACTAAAATTA
1 TGATATTGTACACTAAAATTA
71166020 TGATATT
1 TGATATT
71166027 CTTTCACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (21 bp):
TGATATTGTACACTAAAATTA
Found at i:71169690 original size:15 final size:15
Alignment explanation
Indices: 71169670--71169699 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71169660 TTCACTATTA
*
71169670 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
71169685 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
71169700 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:71171346 original size:12 final size:12
Alignment explanation
Indices: 71171296--71171371 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 12
71171286 ATTCCATAAA
*
71171296 TAATA-TTATTT
1 TAATATTTATAT
71171307 TAATAGTTTAATAT
1 TAATA-TTT-ATAT
*
71171321 TAA-ATTTAAAT
1 TAATATTTATAT
*
71171332 TAATATTTATCT
1 TAATATTTATAT
*
71171344 TAATAATATTTTAT
1 TAAT-AT-TTATAT
*
71171358 TAAT-TTAATAT
1 TAATATTTATAT
71171369 TAA
1 TAA
71171372 AGTGATTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
11 18 0.35
12 14 0.27
13 5 0.10
14 14 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:71171419 original size:17 final size:16
Alignment explanation
Indices: 71171389--71171430 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
71171379 ATCTTAATGT
71171389 TAAAT-TTAATTAAAA
1 TAAATATTAATTAAAA
*
71171404 TAAATATTAGATTAAAT
1 TAAATATTA-ATTAAAA
*
71171421 TTAATATTAA
1 TAAATATTAA
71171431 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATATTAATTAAAA
Found at i:71171438 original size:21 final size:21
Alignment explanation
Indices: 71171359--71171446 Score: 62
Period size: 21 Copynumber: 4.4 Consensus size: 21
71171349 ATATTTTATT
*
71171359 AATTTAATATTAAAGTGATT-
1 AATTTAATATTAAAGTAATTA
* *
71171379 -ATCTTAATGTTAAATTTAATTA
1 AAT-TTAATATTAAA-GTAATTA
* *
71171401 AAATAAATATT--AG--ATTA
1 AATTTAATATTAAAGTAATTA
71171418 AATTTAATATTAAAGTAATTA
1 AATTTAATATTAAAGTAATTA
*
71171439 AATGTAAT
1 AATTTAAT
71171447 CATAGTTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 15
0.67 0.13 0.20
Matches are distributed among these distances:
17 13 0.26
19 4 0.08
20 11 0.22
21 15 0.30
22 6 0.12
23 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (21 bp):
AATTTAATATTAAAGTAATTA
Found at i:71173544 original size:17 final size:17
Alignment explanation
Indices: 71173522--71173558 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
71173512 TTATGTTAGG
71173522 GTGTAATTGTGTTTTAA
1 GTGTAATTGTGTTTTAA
71173539 GTGTAATTGTGTTTTAA
1 GTGTAATTGTGTTTTAA
71173556 GTG
1 GTG
71173559 GTGACAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (17 bp):
GTGTAATTGTGTTTTAA
Found at i:71174719 original size:46 final size:47
Alignment explanation
Indices: 71174663--71174751 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 47
71174653 CACATCACAC
* *
71174663 ACCGAAGCCATAGCCCTGCCATGGTCTTATACGG-ATCACATATCAT
1 ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATATCAT
* * *
71174709 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATA
1 ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATA
71174752 ATCACATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 29 0.78
47 8 0.22
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATATCAT
Found at i:71175950 original size:14 final size:15
Alignment explanation
Indices: 71175915--71175948 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
71175905 TTTTTTATGC
71175915 TTTTTT-ATTTTGAA
1 TTTTTTAATTTTGAA
71175929 TTTTTTAATTTTGAA
1 TTTTTTAATTTTGAA
71175944 TTTTT
1 TTTTT
71175949 AAAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTTAATTTTGAA
Found at i:71178945 original size:27 final size:25
Alignment explanation
Indices: 71178903--71178955 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
71178893 TTGAGTTTTA
* **
71178903 TTTTTTTTAATGTGATATTTATATT
1 TTTTTTTTAATCTGATACATATATT
71178928 TTTTTTATTCAATCTGATACATATATT
1 TTTTTT-TT-AATCTGATACATATATT
71178955 T
1 T
71178956 GACAAAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 15 0.65
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (25 bp):
TTTTTTTTAATCTGATACATATATT
Found at i:71187780 original size:8 final size:7
Alignment explanation
Indices: 71187745--71187779 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
71187735 TAGGGTACCT
71187745 TTTTTTCC
1 TTTTTT-C
71187753 TTTTTTC
1 TTTTTTC
71187760 TTTTTTC
1 TTTTTTC
71187767 TTTTTTC
1 TTTTTTC
71187774 TTTTTT
1 TTTTTT
71187780 TTCTCGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:71187781 original size:16 final size:16
Alignment explanation
Indices: 71187743--71187783 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
71187733 AGTAGGGTAC
*
71187743 CTTTTTTTCCTTTTTT
1 CTTTTTTTTCTTTTTT
71187759 C--TTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
71187773 CTTTTTTTTCT
1 CTTTTTTTTCT
71187784 CGATGACGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:71191726 original size:22 final size:21
Alignment explanation
Indices: 71191701--71191748 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
71191691 CATAATTAAT
71191701 AATTTAAT-AATTTATATATAAA
1 AATTTAATCAATTT-TATA-AAA
* *
71191723 AATTAAATCAATTTTTTAAAA
1 AATTTAATCAATTTTATAAAA
71191744 AATTT
1 AATTT
71191749 GTAAAATGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTAATCAATTTTATAAAA
Found at i:71191998 original size:24 final size:25
Alignment explanation
Indices: 71191946--71192001 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
71191936 TGACATAATT
*
71191946 TAAAATGAAACTTTTAAATAAAAAG
1 TAAAATGAAACTTTTAAATAAAAAC
71191971 TAAAATGAAACTTTTAAAT-AAAAC
1 TAAAATGAAACTTTTAAATAAAAAC
71191995 TAAAATG
1 TAAAATG
71192002 TTGCTGCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (25 bp):
TAAAATGAAACTTTTAAATAAAAAC
Found at i:71195015 original size:2 final size:2
Alignment explanation
Indices: 71195008--71195068 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
71194998 TTTTATGCTT
71195008 TA TA TA TA T- TA T- TA TA TA TA TA TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
71195045 TA TA TA TG TA T- TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
71195069 AGTAAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 7 0.14
2 43 0.86
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:71195027 original size:16 final size:15
Alignment explanation
Indices: 71195008--71195068 Score: 78
Period size: 14 Copynumber: 4.4 Consensus size: 15
71194998 TTTTATGCTT
71195008 TATATATAT-TATTA
1 TATATATATATATTA
71195022 TATATATATATATTA
1 TATATATATATATTA
71195037 TAT-TATAT-TA-TA
1 TATATATATATATTA
*
71195049 TATGTAT-TATATTA
1 TATATATATATATTA
71195063 TATATA
1 TATATA
71195069 AGTAAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 6 0.14
13 7 0.17
14 21 0.50
15 8 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:71195031 original size:18 final size:18
Alignment explanation
Indices: 71195008--71195068 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
71194998 TTTTATGCTT
71195008 TATATATATTATTATATA
1 TATATATATTATTATATA
71195026 TATATATATTA-TAT-TA
1 TATATATATTATTATATA
71195042 TATTATATATGTATTATAT-
1 TA-TATATAT-TATTATATA
71195061 TATATATA
1 TATATATA
71195069 AGTAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.10
17 10 0.26
18 19 0.49
19 5 0.13
20 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATATATATTATTATATA
Found at i:71195050 original size:21 final size:21
Alignment explanation
Indices: 71195008--71195065 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
71194998 TTTTATGCTT
71195008 TATATATA-T-TATTATA-TA
1 TATATATATTATATTATATTA
71195026 TATATATATTATATTATATTA
1 TATATATATTATATTATATTA
*
71195047 TATATGTATTATATTATAT
1 TATATATATTATATTATAT
71195066 ATAAGTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 8 0.22
19 1 0.03
20 7 0.19
21 20 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTATATTATATTA
Found at i:71202485 original size:17 final size:18
Alignment explanation
Indices: 71202463--71202543 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 18
71202453 TTTTTATGCT
71202463 TTATATATATTAT-TTTA
1 TTATATATATTATATTTA
*
71202480 TTATATATTATATATATATA
1 TTATATA-TAT-TATATTTA
71202500 TTATATTATATTATA-TTA
1 TTATA-TATATTATATTTA
71202518 TGTAT-TATATTATATTATA
1 T-TATATATATTATATT-TA
71202537 TTATATA
1 TTATATA
71202544 AGTAAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
17 16 0.30
18 10 0.19
19 15 0.28
20 11 0.20
21 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TTATATATATTATATTTA
Found at i:71202491 original size:5 final size:5
Alignment explanation
Indices: 71202463--71202542 Score: 96
Period size: 5 Copynumber: 16.2 Consensus size: 5
71202453 TTTTTATGCT
*
71202463 TTATA -TATA TTATT TTAT- TATATA TTATA -TATA -TATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
71202510 TTATA TTATGTA TTATA TTATA TTATA TTATA T
1 TTATA TTA--TA TTATA TTATA TTATA TTATA T
71202543 AAGTAAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
4 13 0.19
5 49 0.72
6 1 0.01
7 5 0.07
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:71202533 original size:22 final size:21
Alignment explanation
Indices: 71202463--71202540 Score: 103
Period size: 22 Copynumber: 3.9 Consensus size: 21
71202453 TTTTTATGCT
*
71202463 TTATA-TATATTATTTTATTA
1 TTATATTATATTATATTATTA
71202483 -TATATTATA-TATA-TA-TA
1 TTATATTATATTATATTATTA
71202500 TTATATTATATTATATTATGTA
1 TTATATTATATTATATTAT-TA
71202522 TTATATTATATTATATTAT
1 TTATATTATATTATATTAT
71202541 ATAAGTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.04
18 11 0.22
19 11 0.22
20 6 0.12
22 21 0.41
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTATATTATATTATATTATTA
Found at i:71208117 original size:20 final size:21
Alignment explanation
Indices: 71208082--71208120 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71208072 GGACTTAACC
*
71208082 GAAAGTTCAGAAATTTTTTGT
1 GAAACTTCAGAAATTTTTTGT
71208103 GAAACTTCA-AAATTTTTT
1 GAAACTTCAGAAATTTTTT
71208121 CTAAGTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (21 bp):
GAAACTTCAGAAATTTTTTGT
Found at i:71210269 original size:21 final size:20
Alignment explanation
Indices: 71210235--71210292 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
71210225 GTTTTGTTTC
71210235 TTTATTTATTTATTTCATGT
1 TTTATTTATTTATTTCATGT
* *
71210255 TTTATTTCTTTTATTTTATGT
1 TTTATTT-ATTTATTTCATGT
71210276 TATTATATTATTATATT
1 T-TTAT-TTATT-TATT
71210293 ATTATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 6 0.19
23 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTATTTCATGT
Found at i:71210286 original size:8 final size:8
Alignment explanation
Indices: 71210266--71210318 Score: 90
Period size: 8 Copynumber: 6.8 Consensus size: 8
71210256 TTATTTCTTT
71210266 TATT-TTA
1 TATTATTA
*
71210273 TGTTATTA
1 TATTATTA
71210281 TATTATTA
1 TATTATTA
71210289 TATTATTA
1 TATTATTA
71210297 TATTATTA
1 TATTATTA
71210305 TATTATTA
1 TATTATTA
71210313 TATTAT
1 TATTAT
71210319 ATTATAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
7 3 0.07
8 40 0.93
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TATTATTA
Found at i:71210287 original size:3 final size:3
Alignment explanation
Indices: 71210275--71210334 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
71210265 TTATTTTATG
71210275 TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
71210318 -TA TTA TAA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA
71210335 CTTAAATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 12 0.24
3 37 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:71212728 original size:4 final size:4
Alignment explanation
Indices: 71212719--71212760 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
71212709 AAATCAAAAT
*
71212719 AAGA AAGAA AAGA AAGA AAGA AA-A AGAGA AAGA AGGA AAGA A
1 AAGA AAG-A AAGA AAGA AAGA AAGA A-AGA AAGA AAGA AAGA A
71212761 GCAGACGCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 25 0.76
5 6 0.18
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:71212750 original size:16 final size:17
Alignment explanation
Indices: 71212719--71212760 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
71212709 AAATCAAAAT
71212719 AAGAAAGAAAAGAAAGA
1 AAGAAAGAAAAGAAAGA
*
71212736 AAGAAA-AAGAGAAAGA
1 AAGAAAGAAAAGAAAGA
*
71212752 AGGAAAGAA
1 AAGAAAGAA
71212761 GCAGACGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAGAAAGA
Found at i:71212752 original size:20 final size:19
Alignment explanation
Indices: 71212722--71212760 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
71212712 TCAAAATAAG
71212722 AAAGAAAAGAAAGAAAGAA
1 AAAGAAAAGAAAGAAAGAA
*
71212741 AAAGAGAAAGAAGGAAAGAA
1 AAAGA-AAAGAAAGAAAGAA
71212761 GCAGACGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGAAAGAA
Found at i:71219358 original size:21 final size:20
Alignment explanation
Indices: 71219270--71219360 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
71219260 AAGTTTGAGT
*
71219270 TTAGAATTTAAGATTTAAAA
1 TTAGAGTTTAAGATTTAAAA
* * * *
71219290 TTCTGGGTTTAAGA-ATAAGA
1 TT-AGAGTTTAAGATTTAAAA
* * * *
71219310 TTTGAAGTTCAAAATTTAAAG
1 TTAG-AGTTTAAGATTTAAAA
71219331 TTCAGAGTTTAAGATTTAAGAA
1 TT-AGAGTTTAAGATTTAA-AA
71219353 TTAGAGTT
1 TTAGAGTT
71219361 CAAGGCAAAA
Statistics
Matches: 51, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.04
20 14 0.27
21 31 0.61
22 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (20 bp):
TTAGAGTTTAAGATTTAAAA
Found at i:71222491 original size:18 final size:18
Alignment explanation
Indices: 71222468--71222507 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
71222458 TTTGATCTGC
71222468 ATTTCTATTAAAAAATCT
1 ATTTCTATTAAAAAATCT
71222486 ATTTCTATTAAAAAATCT
1 ATTTCTATTAAAAAATCT
71222504 ATTT
1 ATTT
71222508 AACTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTCTATTAAAAAATCT
Found at i:71227470 original size:29 final size:28
Alignment explanation
Indices: 71227394--71227470 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 28
71227384 AAATATATAC
*
71227394 ATAAAAAAATATATCAAACAAATTAGTTAA
1 ATAAAAAAATATAT--AACAAATGAGTTAA
*
71227424 A-AATAAAATATATTTAACATAATGA-TTAA
1 ATAA-AAAA-ATATATAACA-AATGAGTTAA
71227453 TATAAAAAAATATATAAC
1 -ATAAAAAAATATATAAC
71227471 TACATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
29 18 0.46
30 14 0.36
31 7 0.18
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAAAAAAATATATAACAAATGAGTTAA
Found at i:71228438 original size:29 final size:29
Alignment explanation
Indices: 71228396--71228451 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
71228386 TCAGCATAAC
*
71228396 AATTACTTTGATTTTATAAGCTGTTAGGT
1 AATTACTTTGATTTTACAAGCTGTTAGGT
71228425 AATTACTTTGATTTTACAAGCTGTTAG
1 AATTACTTTGATTTTACAAGCTGTTAG
71228452 TGTACAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (29 bp):
AATTACTTTGATTTTACAAGCTGTTAGGT
Found at i:71229745 original size:3 final size:3
Alignment explanation
Indices: 71229676--71229736 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
71229666 GTACTTTTGC
*
71229676 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
71229721 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
71229737 GGTATTATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:71230195 original size:18 final size:18
Alignment explanation
Indices: 71230174--71230210 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71230164 TACACCTATA
*
71230174 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
71230192 TATATATATGCATATTTT
1 TATATATATACATATTTT
71230210 T
1 T
71230211 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:71230197 original size:20 final size:18
Alignment explanation
Indices: 71230172--71230210 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
71230162 TATACACCTA
71230172 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
71230192 TATATATATGCATATTTT
1 TATATATATGCATATTTT
71230210 T
1 T
71230211 TCTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:71242738 original size:50 final size:50
Alignment explanation
Indices: 71242598--71243062 Score: 421
Period size: 50 Copynumber: 9.3 Consensus size: 50
71242588 TCCTGTACTG
* *
71242598 ACAGCGGATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAACTACA
1 ACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
* * * * ** *
71242648 ACAGCGGATCTTACTTTCCAGGCAATGCAGA-GGAATAGATTGAAGCTACA
1 ACAGCGGATCTTACTTCCCTGACATTGCA-ATTAAAAAGATTGAAGCTACA
* *
71242698 ACAACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
* * * * * * * *
71242748 ATAGCGGATTTTACTT-TCTTAGCGTTGCAGTGAAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTCCCTGA-CATTGCAATTAAAAAGATTGAAGCT-ACA
* *
71242798 AC-GACGAATCTTACTTCCCTGACATTGAAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
* * * * ** *
71242848 ATAGCGGATCTTACTT-TCTTAGCATTGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTCCCTGA-CATTGCAATTAAAAAGATTGAAGCT-ACA
*
71242898 AC-GACGAATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
* * * * * ** *
71242947 ATAGCGGATCTTACTT-TCTTAGCGTTGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTCCCTGA-CATTGCAATTAAAAAGATTGAAGCT-ACA
*
71242997 AC-GACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
71243047 ACAGCGGATCTTACTT
1 ACAGCGGATCTTACTT
71243063 TCTTAGCGTT
Statistics
Matches: 322, Mismatches: 72, Indels: 42
0.74 0.17 0.10
Matches are distributed among these distances:
48 3 0.01
49 46 0.14
50 259 0.80
51 14 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (50 bp):
ACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
Found at i:71242788 original size:100 final size:100
Alignment explanation
Indices: 71242605--71243320 Score: 943
Period size: 100 Copynumber: 7.2 Consensus size: 100
71242595 CTGACAGCGG
* * *
71242605 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAACTACAACAGCGGATCTTACTTTC-CAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-
** * * *
71242669 GCAATGCAGAGGAATAGATTGAAG-CTACAACAACGA
65 GCGTTGCAGTGGAACAGATTGAAGTC-ACAACGACGA
* *
71242705 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAATAGCGGATTTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
*
71242770 CGTTGCAGTGAAACAGATTGAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
* *
71242805 ATCTTACTTCCCTGACATTGAAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
*
71242870 CATTGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
*
71242905 ATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
71242969 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
71243004 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
* **
71243069 CGTTGCAGTGGAACAGGTCAAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
* * * * * **
71243104 ATCTCACTTCTCC-GGCATTGCAATGT--AAA-ATTGAAGCCACAACGGCGAATCTTA-TTTCCC
1 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTT
* *
71243164 AGGCGTTGCAGTGGAACAGA-TCAATTCACAACGACGA
64 A-GCGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
* * * * * **
71243201 ATCTTGCTTCCCCGACATTGCAATGT-AAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCA
1 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA
**
71243264 G-GTGATGCAGCAGAACAGATTGAAGTCACAACGACGA
65 GCGT--TGCAGTGGAACAGATTGAAGTCACAACGACGA
*
71243301 ATCTTGCTTCCCTGACATTG
1 ATCTTACTTCCCTGACATTG
71243321 TTAAAGATGG
Statistics
Matches: 564, Mismatches: 40, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
96 2 0.00
97 41 0.07
98 43 0.08
99 145 0.26
100 328 0.58
101 5 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
Found at i:71243017 original size:199 final size:199
Alignment explanation
Indices: 71242605--71243320 Score: 957
Period size: 199 Copynumber: 3.6 Consensus size: 199
71242595 CTGACAGCGG
* *
71242605 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAACTACAACAGCGGATCTTACTTTC-CAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTCA-
* * * *
71242669 GCAATGCAGAGGAATAGATTGAAG-CTACAACAACGAATCTTACTTCCCTGACATTGCAATTAAA
65 GCATTGCAGTGGAACAGATTGAAGTC-ACAACGACGAATCTTACTTCCCTGACATTGCAATT-AA
* *
71242733 AAGATTGAAGCTACAATAGCGGATTTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACA
128 AAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACA
71242798 ACGACGA
193 ACGACGA
* * *
71242805 ATCTTACTTCCCTGACATTGAAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTCAG
71242870 CATTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAAG
66 CATTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAAG
71242935 ATTGAAGCTACAATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACG
131 ATTGAAGCTACAATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACG
71243000 ACGA
196 ACGA
*
71243004 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTCAG
* * ** * *
71243069 CGTTGCAGTGGAACAGGTCAAAGTCACAACGACGAATCTCACTTCTCC-GGCATTGCAATGT-AA
66 CATTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTC-CCTGACATTGCAAT-TAAA
* ** * ** * *
71243132 A-ATTGAAGCCACAACGGCGAATCTTA-TTTCCCAGGCGTTGCAGTGGAACAGA-TCAATTCACA
129 AGATTGAAGCTACAATAGCGGATCTTACTTTCTTA-GCGTTGCAGTGGAACAGATTGAAGTCACA
71243194 ACGACGA
193 ACGACGA
* * * * * *
71243201 ATCTTGCTTCCCCGACATTGCAATGT-AAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCA
1 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTCA
* ** *
71243264 G-GTGATGCAGCAGAACAGATTGAAGTCACAACGACGAATCTTGCTTCCCTGACATTG
65 GCAT--TGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTG
71243321 TTAAAGATGG
Statistics
Matches: 465, Mismatches: 42, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
195 2 0.00
196 8 0.02
197 110 0.24
198 40 0.09
199 188 0.40
200 115 0.25
201 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (199 bp):
ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTCAG
CATTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAAG
ATTGAAGCTACAATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACG
ACGA
Found at i:71243254 original size:50 final size:50
Alignment explanation
Indices: 71242605--71243320 Score: 416
Period size: 50 Copynumber: 14.4 Consensus size: 50
71242595 CTGACAGCGG
* * * *
71242605 ATCTTACTTCCCTAACATTGCAAT-TAAAAAGATTGAAACTACAAC-AGCGG
1 ATCTTACTTCCCTGACATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * * * * *
71242655 ATCTTACTTTCCAGGCAATGCAGA-GGAATAGATTGAAGCTACAACAACGA
1 ATCTTACTTCCCTGACATTGCA-ATGTAAAAGATTGAAGCCACAACGACGA
* * *
71242705 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAA-TAGCGG
1 ATCTTACTTCCCTGACATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * * *
71242755 ATTTTACTT-TCTTAGCGTTGCAGTG-AAACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCCCTGA-CATTGCAATGTAAA-AGATTGAAGCCACAACGACGA
* * * *
71242805 ATCTTACTTCCCTGACATTGAAAT-TAAAAAGATTGAAGCTACAA-TAGCGG
1 ATCTTACTTCCCTGACATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * * *
71242855 ATCTTACTT-TCTTAGCATTGCAGTGGAACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCCCTGA-CATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * *
71242905 ATCTTACTTCCCTGACATTGCAAT-TAAAAGATTGAAGCTACAA-TAGCGG
1 ATCTTACTTCCCTGACATTGCAATGTAAAAGATTGAAGCCACAACGA-CGA
* * * * * * *
71242954 ATCTTACTT-TCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCCCTGA-CATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* *
71243004 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAAC-AGCGG
1 ATCTTACTTCCCTGACATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * * * * ** *
71243054 ATCTTACTT-TCTTAGCGTTGCAGTGGAACAGGTCAAAGTCACAACGACGA
1 ATCTTACTTCCCTGA-CATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * *
71243104 ATCTCACTTCTCC-GGCATTGCAATGT-AAA-ATTGAAGCCACAACGGCGA
1 ATCTTACTTC-CCTGACATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * * * * * * * **
71243152 ATCTTATTTCCCAGGCGTTGCAGTGGAACAGA-TCAATTCACAACGACGA
1 ATCTTACTTCCCTGACATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * *
71243201 ATCTTGCTTCCCCGACATTGCAATGTAAAAGATTGAAGCCACAACGGCGA
1 ATCTTACTTCCCTGACATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * ** * *
71243251 ATCTTATTTCCCAGGTGA-TGCAGCA-G-AACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCCC-TGACATTGCA--ATGTAAAAGATTGAAGCCACAACGACGA
*
71243301 ATCTTGCTTCCCTGACATTG
1 ATCTTACTTCCCTGACATTG
71243321 TTAAAGATGG
Statistics
Matches: 494, Mismatches: 134, Indels: 76
0.70 0.19 0.11
Matches are distributed among these distances:
47 2 0.00
48 36 0.07
49 92 0.19
50 341 0.69
51 21 0.04
52 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTTACTTCCCTGACATTGCAATGTAAAAGATTGAAGCCACAACGACGA
Found at i:71244953 original size:3 final size:3
Alignment explanation
Indices: 71244889--71244944 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
71244879 CTTTTGCTAT
* *
71244889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
71244934 TTA TTA GTA TT
1 TTA TTA TTA TT
71244945 GGTATTATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:71262287 original size:29 final size:30
Alignment explanation
Indices: 71262228--71262285 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
71262218 TCCGAGCCTT
*
71262228 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
71262258 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
71262286 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:71262515 original size:13 final size:13
Alignment explanation
Indices: 71262497--71262528 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
71262487 TTTCCAGCAA
71262497 TTATGAATTTATT
1 TTATGAATTTATT
71262510 TTATGAATTTATT
1 TTATGAATTTATT
*
71262523 TGATGA
1 TTATGA
71262529 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:71262736 original size:50 final size:50
Alignment explanation
Indices: 71262623--71262864 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
71262613 ATTTGGGTAA
* * *
71262623 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
71262679 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
71262729 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
71262779 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
71262829 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
71262865 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:71262812 original size:100 final size:103
Alignment explanation
Indices: 71262623--71262872 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
71262613 ATTTGGGTAA
71262623 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
71262688 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
71262729 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
71262791 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
71262829 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
71262873 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:71269875 original size:29 final size:30
Alignment explanation
Indices: 71269816--71269873 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
71269806 TCCGAGCCTT
*
71269816 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
71269846 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
71269874 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:71270103 original size:13 final size:13
Alignment explanation
Indices: 71270085--71270116 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
71270075 TTTCCAGCAA
71270085 TTATGAATTTATT
1 TTATGAATTTATT
71270098 TTATGAATTTATT
1 TTATGAATTTATT
*
71270111 TGATGA
1 TTATGA
71270117 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:71270324 original size:50 final size:50
Alignment explanation
Indices: 71270211--71270452 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
71270201 ATTTGGGTAA
* * *
71270211 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
71270267 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
71270317 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
71270367 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
71270417 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
71270453 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:71270400 original size:100 final size:103
Alignment explanation
Indices: 71270211--71270460 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
71270201 ATTTGGGTAA
71270211 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
71270276 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
71270317 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
71270379 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
71270417 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
71270461 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:71271976 original size:75 final size:75
Alignment explanation
Indices: 71271879--71272056 Score: 200
Period size: 75 Copynumber: 2.4 Consensus size: 75
71271869 ACACAACCGC
* * *
71271879 CGGTTTATCTGACTAGCACTGGGTGCAATCACCCTTGGTTTATCCAACTAGAGCTGGGCTTAC-T
1 CGGTTAATCTGACTAGCACTGGGTGCAAT-ACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
71271943 ATAATTA-TCTT
65 -TAATTAGTCTT
* * ***
71271954 CGGTTAATCAGACTAGCACTGGGTGTAAATATTGTTGGTCTATCCAACTAGAGCTGGGCTCACAT
1 CGGTTAATCTGACTAGCACTGGGTG-CAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
** *
71272019 TTTTTAGTGTT
65 TAATTAGTCTT
*
71272030 -GGTTAATCTGACTAGCACTGGGCGCAA
1 CGGTTAATCTGACTAGCACTGGGTGCAA
71272057 CCTTTTCTGT
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
74 2 0.02
75 77 0.90
76 7 0.08
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (75 bp):
CGGTTAATCTGACTAGCACTGGGTGCAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACATT
AATTAGTCTT
Found at i:71284281 original size:3 final size:3
Alignment explanation
Indices: 71284273--71284323 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
71284263 TTTTACTGTA
*
71284273 AAT AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
71284316 -AT AAT AAT
1 AAT AAT AAT
71284324 TAAAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.20
3 31 0.76
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:71284393 original size:21 final size:21
Alignment explanation
Indices: 71284364--71284405 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71284354 AAGGGAAGAG
* *
71284364 GGAATGAAAACGAAAAAGAAA
1 GGAAAGAAAAAGAAAAAGAAA
*
71284385 GGAAAGAAAAAGAAAAGGAAA
1 GGAAAGAAAAAGAAAAAGAAA
71284406 AATTAGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (21 bp):
GGAAAGAAAAAGAAAAAGAAA
Found at i:71284401 original size:16 final size:15
Alignment explanation
Indices: 71284375--71284405 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
71284365 GAATGAAAAC
71284375 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
71284390 GAAAAAGAAAAGGAAA
1 GAAAAAG-AAAGGAAA
71284406 AATTAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:71286552 original size:164 final size:164
Alignment explanation
Indices: 71286281--71286603 Score: 601
Period size: 164 Copynumber: 2.0 Consensus size: 164
71286271 TGTACCCCTT
*
71286281 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCTACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
*
71286346 TTCAAGAAAAAATTTTCGAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
* *
71286411 GTAATGGGCCCCGTAGGTCCATATTAGGGGCATG
131 GTAATAGGCCCCGTAGGCCCATATTAGGGGCATG
71286445 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
*
71286510 TTCAAGAAAAATTTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
71286575 GTAATAGGCCCCGTAGGCCCATATTAGGG
131 GTAATAGGCCCCGTAGGCCCATATTAGGG
71286604 ACTTTATGGT
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 154 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (164 bp):
TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
GTAATAGGCCCCGTAGGCCCATATTAGGGGCATG
Done.