Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 92 of 167
Found at i:30554758 original size:28 final size:29
Alignment explanation
Indices: 30554726--30554781 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
30554716 TTCGGGTTTT
* *
30554726 GGACATGGGCGTGT-CTAGGCCATGTGAG
1 GGACACGGACGTGTGCTAGGCCATGTGAG
* *
30554754 GGACACGGACGTGTGCTTGGCCCTGTGA
1 GGACACGGACGTGTGCTAGGCCATGTGA
30554782 TAACCCCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.16, C:0.21, G:0.41, T:0.21
Consensus pattern (29 bp):
GGACACGGACGTGTGCTAGGCCATGTGAG
Found at i:30559509 original size:47 final size:47
Alignment explanation
Indices: 30559445--30559882 Score: 700
Period size: 47 Copynumber: 9.3 Consensus size: 47
30559435 TGAGAGTGTA
* *
30559445 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
30559492 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
30559539 TATATATATGTGATAAGGCCTAA--GCCAATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
30559586 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
30559633 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
30559680 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
30559727 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
30559774 TATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
30559821 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
30559868 TATAAATGTGATAAG
1 TATATATGTGATAAG
30559883 TCCCGAAGGG
Statistics
Matches: 367, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
45 20 0.05
47 327 0.89
49 20 0.05
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:30560854 original size:286 final size:285
Alignment explanation
Indices: 30560338--30560912 Score: 1132
Period size: 286 Copynumber: 2.0 Consensus size: 285
30560328 ATGAATGACC
*
30560338 AATGATAGTGATTGAGAACACTTTGTTTTGCTTAAAACTTACTAAGCATTAAATGCTTACTCCGT
1 AATGATAGTGATTGAGAACACTTTGTCTTGCTTAAAACTTACTAAGCATTAAATGCTTACTCCGT
30560403 TCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTATTGAAGTCGA
66 TCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTATTGAAGTCGA
30560468 AGTCGCCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAATGGCATGTATA
131 AGTCGCCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAATGGCATGTATA
30560533 GGACTACCCTTTTTGTAGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGCGA
196 GGACTACCCTTTTTGTAGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGCGA
30560598 AAATGGCTTATATATGTTTGAGCAT
261 AAATGGCTTATATATGTTTGAGCAT
30560623 AATGAATAGTGATTGAGAACACTTTGTCTTGCTTAAAACTTACTAAGCATTAAATGCTTACTCCG
1 AATG-ATAGTGATTGAGAACACTTTGTCTTGCTTAAAACTTACTAAGCATTAAATGCTTACTCCG
30560688 TTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTATTGAAGTCG
65 TTCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTATTGAAGTCG
30560753 AAGTCGCCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAATGGCATGTAT
130 AAGTCGCCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAATGGCATGTAT
30560818 AGGACTACCCTTTTTGTAGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGCG
195 AGGACTACCCTTTTTGTAGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGCG
30560883 AAAATGGCTTATATATGTTTGAGCAT
260 AAAATGGCTTATATATGTTTGAGCAT
30560909 AATG
1 AATG
30560913 TTATAATCAT
Statistics
Matches: 288, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
285 4 0.01
286 284 0.99
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (285 bp):
AATGATAGTGATTGAGAACACTTTGTCTTGCTTAAAACTTACTAAGCATTAAATGCTTACTCCGT
TCTTTGAATCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTATTGAAGTCGA
AGTCGCCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAATGGCATGTATA
GGACTACCCTTTTTGTAGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGCGA
AAATGGCTTATATATGTTTGAGCAT
Found at i:30561903 original size:42 final size:44
Alignment explanation
Indices: 30561802--30561961 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 44
30561792 AGCTCGTACA
* * *
30561802 ATGCCAACGTCCCAGA-CGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATAGTGGTCTTACACGAAATCAAATATCG
*
30561845 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGAAATGAAATAT-G
1 ATGCCAAC-GTCCCAGATAGTGGTCTTACACGAAATCAAATATCG
* * * * * *
30561887 ATGCCAACGTTCCAGAT-GTGGCCCTACACATAAATCATAA-GTCA
1 ATGCCAACGTCCCAGATAGTGGTCTTACAC-GAAATCA-AATATCG
30561931 ATGCCAACGTCCCA-A-ACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGATA-GTGGTCTTACACGA
30561962 TAACACATAT
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 42 0.45
44 26 0.28
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGATAGTGGTCTTACACGAAATCAAATATCG
Found at i:30563646 original size:37 final size:37
Alignment explanation
Indices: 30563596--30563674 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30563586 TTATTACGAA
* * *
30563596 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
30563633 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30563670 GTCTT
1 GTCTT
30563675 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30563833 original size:20 final size:20
Alignment explanation
Indices: 30563808--30563845 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30563798 CACATTTATA
30563808 CACTTTCACATCCATCACGT
1 CACTTTCACATCCATCACGT
*
30563828 CACTTTCACATTCATCAC
1 CACTTTCACATCCATCAC
30563846 ATCGGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.39, G:0.03, T:0.32
Consensus pattern (20 bp):
CACTTTCACATCCATCACGT
Found at i:30563881 original size:47 final size:47
Alignment explanation
Indices: 30563828--30563988 Score: 252
Period size: 47 Copynumber: 3.4 Consensus size: 47
30563818 TCCATCACGT
30563828 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
30563875 CACTTTCACATTCATCACATCGACTATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* * *
30563922 CACTGTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATG
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
30563969 CA-TGTTCACATCCATCACAT
1 CACT-TTCACATTCATCACAT
30563989 AGAATCCTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 103 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:30572476 original size:27 final size:27
Alignment explanation
Indices: 30572445--30572622 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30572435 TAAATTGTAC
30572445 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30572472 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30572498 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30572526 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30572554 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30572581 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30572608 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30572623 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30572559 original size:82 final size:81
Alignment explanation
Indices: 30572446--30572601 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30572436 AAATTGTACA
* *
30572446 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30572510 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30572527 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30572592 TGCGAGTTGA
65 TGCGAATTGA
30572602 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30572613 original size:82 final size:81
Alignment explanation
Indices: 30572442--30572622 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30572432 GATTAAATTG
* *
30572442 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30572507 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30572523 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30572587 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30572605 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30572623 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30576609 original size:44 final size:42
Alignment explanation
Indices: 30576467--30576625 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 42
30576457 AGCTCGTACA
* *
30576467 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATC-AA-ATCG
30576510 ATGCC-ACTGTCCCAGATAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACGTAAATCAAAT-CG
*
30576552 ATGCCAACGTCCCAGATGTGGTCTTATACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCA-AA-TCG
30576596 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG
30576626 ATAACACATA
Statistics
Matches: 103, Mismatches: 4, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
41 3 0.03
42 30 0.29
43 35 0.34
44 34 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAAATCG
Found at i:30576619 original size:86 final size:85
Alignment explanation
Indices: 30576467--30576626 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
30576457 AGCTCGTACA
*
30576467 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
30576532 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * *
30576552 ATGCCAACGTCCCAGATGTGGTCTTATACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAT-G
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGATAG
30576614 TGGTCTTACACGA
63 -GGTCTTACACGA
30576627 TAACACATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 29 0.43
86 34 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
CTTACACGAAATCAAATACG
Found at i:30583344 original size:17 final size:18
Alignment explanation
Indices: 30583320--30583364 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
30583310 GTGGGGAGGG
30583320 ATAA-TTTATAA-ATTAA
1 ATAATTTTATAATATTAA
*
30583336 ATAATTTTA-AATTTTAA
1 ATAATTTTATAATATTAA
30583353 ATAATCTTTATA
1 ATAAT-TTTATA
30583365 CCCTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 4 0.17
19 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTTATAATATTAA
Found at i:30584717 original size:18 final size:19
Alignment explanation
Indices: 30584696--30584731 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30584686 TTACCATTTC
30584696 ATGAAAATTTTAT-TTTTG
1 ATGAAAATTTTATATTTTG
*
30584714 ATGAATATTTTATATTTT
1 ATGAAAATTTTATATTTT
30584732 ATATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
ATGAAAATTTTATATTTTG
Found at i:30584753 original size:17 final size:17
Alignment explanation
Indices: 30584722--30584755 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30584712 TGATGAATAT
30584722 TTTATATTTTATATTTA
1 TTTATATTTTATATTTA
30584739 TTTA-ATTTTATTATTTA
1 TTTATATTTTA-TATTTA
30584756 ATATTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTTATATTTA
Found at i:30584939 original size:11 final size:12
Alignment explanation
Indices: 30584923--30584951 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
30584913 TGGGATTGAT
30584923 AAGAAAAAAA-A
1 AAGAAAAAAAGA
30584934 AAGAAAAAAAGA
1 AAGAAAAAAAGA
30584946 AAGAAA
1 AAGAAA
30584952 GATCGTCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:30587919 original size:13 final size:13
Alignment explanation
Indices: 30587901--30587929 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30587891 GGATGAAAAA
30587901 TATTTCTATATTT
1 TATTTCTATATTT
30587914 TATTTCTATATTT
1 TATTTCTATATTT
30587927 TAT
1 TAT
30587930 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTCTATATTT
Found at i:30588481 original size:10 final size:10
Alignment explanation
Indices: 30588466--30588539 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
30588456 AAGAAGAAGA
30588466 AGTGAACAGT
1 AGTGAACAGT
*
30588476 AGTGAACAATGA
1 AGTGAAC-A-GT
* *
30588488 ACTAAACAGT
1 AGTGAACAGT
30588498 AGTGAACA--
1 AGTGAACAGT
30588506 A-TGAACAGT
1 AGTGAACAGT
*
30588515 GGTGAACA--
1 AGTGAACAGT
30588523 A-TGAACAGT
1 AGTGAACAGT
30588532 AGTGAACA
1 AGTGAACA
30588540 ATGAACTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
7 12 0.25
8 1 0.02
9 1 0.02
10 26 0.54
11 2 0.04
12 6 0.12
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (10 bp):
AGTGAACAGT
Found at i:30588514 original size:17 final size:17
Alignment explanation
Indices: 30588468--30588545 Score: 102
Period size: 17 Copynumber: 4.3 Consensus size: 17
30588458 GAAGAAGAAG
30588468 TGAACAGTAGTGAACAA
1 TGAACAGTAGTGAACAA
30588485 TGAACTAAACAGTAGTGAACAA
1 TG-----AACAGTAGTGAACAA
*
30588507 TGAACAGTGGTGAACAA
1 TGAACAGTAGTGAACAA
30588524 TGAACAGTAGTGAACAA
1 TGAACAGTAGTGAACAA
30588541 TGAAC
1 TGAAC
30588546 TAAACAGTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 37 0.69
22 17 0.31
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (17 bp):
TGAACAGTAGTGAACAA
Found at i:30589450 original size:3 final size:3
Alignment explanation
Indices: 30589444--30589484 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
30589434 TTAATCCTCC
30589444 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30589485 CTTTTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30594222 original size:27 final size:27
Alignment explanation
Indices: 30594191--30594368 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30594181 TAAATTGTAC
30594191 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30594218 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30594244 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30594272 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30594300 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30594327 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30594354 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30594369 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30594305 original size:82 final size:81
Alignment explanation
Indices: 30594192--30594347 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30594182 AAATTGTACA
* *
30594192 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30594256 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30594273 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30594338 TGCGAGTTGA
65 TGCGAATTGA
30594348 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30594359 original size:82 final size:81
Alignment explanation
Indices: 30594188--30594368 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30594178 GATTAAATTG
* *
30594188 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30594253 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30594269 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30594333 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30594351 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30594369 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30614252 original size:44 final size:44
Alignment explanation
Indices: 30614203--30614341 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
30614193 GCGGAGTAGA
*
30614203 TCGAAGCTACAAATTTCTTCTCCTTGAAATAGCACTAGAGCGGC
1 TCGAAGCTACAAATTTCTTCTCCTTGAAATAGCACTAGAGCAGC
* ** * * * *
30614247 TCGAAGCTAC-AA-TTCGTATCTCCTTGAAGTTTCAGTGGAGTAGA
1 TCGAAGCTACAAATTTC-T-TCTCCTTGAAATAGCACTAGAGCAGC
* * *
30614291 TCGAAGCTACAAATCTT-TTCTCCCTGAAATGGCACTAGAGCTGC
1 TCGAAGCTACAAAT-TTCTTCTCCTTGAAATAGCACTAGAGCAGC
*
30614335 TTGAAGC
1 TCGAAGC
30614342 CACAGTTCCT
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
42 3 0.04
43 3 0.04
44 61 0.85
45 3 0.04
47 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TCGAAGCTACAAATTTCTTCTCCTTGAAATAGCACTAGAGCAGC
Found at i:30614326 original size:88 final size:88
Alignment explanation
Indices: 30614175--30615905 Score: 2616
Period size: 88 Copynumber: 19.7 Consensus size: 88
30614165 NNNNNNNNNN
* * * * * * * * *
30614175 TATCTTCTTAAAGTTTCAGCGGAGTAGATCGAAGCTACAAATTTCTTCTCCTTGAAATAGCACTA
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
30614240 GAGCGGCTCGAAGCTACAATTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * * * * *
30614263 TATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTGAAATGGCACTA
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* * *
30614328 GAGCTGCTTGAAGCCACAGTTCC
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30614351 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGTATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614416 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * **
30614439 TATTTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGATATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614504 GAGCGGCTCAAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30614527 TATCTCCTTGAAGATCCAACGGAGTAGATTGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614592 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30614615 TATCTCCTTGAAGTTCCAGCAGAGTAGATCGAGGCCACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614680 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30614703 TATCTCCTTGAAGTTCCAGCAGAGTAGATCGAGGCCACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614768 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30614791 TATCTCCTTGAAGTTCCAGCAGAGTAGATCGAGGCCACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30614856 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30614879 TATCTCCTTGAAGTTCCAGCAGAGTAGATCGAGGCCACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
** * * *
30614944 GAGTAGTTCGAAGCCACAATTCA
66 GAGCGGCTCGAAGCCACAGTTCG
* * * * *
30614967 TATCTCCTTAAAGTTCCAACGGAGAAGATCGAGGCTAAAAATCTCTTCTCCCTAAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
30615032 GAGCGGCTTGAAGCCATAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615055 TATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGTTACAAATCTCTTCTCCCGGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
30615120 GAGTGGCTCGAAGCCACATTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615143 TATCTCCTTGAAGTTCCAGCTTGAGTAGATCTAGGCTACAAATCTCTTTTCCCTGAAATGGCATT
1 TATCTCCTTGAAGTTCCAGC-GGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT
30615208 GGAGCGGCTCGAAGCCACAGTTCG
65 GGAGCGGCTCGAAGCCACAGTTCG
* * *
30615232 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGTTACAAATCTCTTCTCCCTGAAATGACATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615297 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615320 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGTTACAAATCTCTTCTCCCTGAAATGACATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615385 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615408 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGTTACAAATCTCTTCTCCCTGAAATGACATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615473 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615496 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGTTACAAATCTCTTCTCCCTGAAATGACATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615561 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615584 TATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615649 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615672 TATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615737 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
30615760 TATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
30615825 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
30615848 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAAT
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAAT
30615906 TACAATGGAA
Statistics
Matches: 1543, Mismatches: 99, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
88 1462 0.95
89 81 0.05
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (88 bp):
TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
GAGCGGCTCGAAGCCACAGTTCG
Found at i:30616337 original size:88 final size:87
Alignment explanation
Indices: 30616084--30616407 Score: 479
Period size: 88 Copynumber: 3.7 Consensus size: 87
30616074 TATCTCCTTC
* * *
30616084 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGTTACAAATCTCTTCTCCCGGAAATGGCATT
1 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT
*
30616149 GGAGTGGCTCGAAGCCACATTT
66 GGAGCGGCTCGAAGCCACATTT
* * *
30616171 CGTATCTCCTTGAAGTTCCAGCTTGAGTAGATCTAGGCTACAAATCTCTTTTCCCTGAAATGGCA
1 -GTATCTCCTTGAAGTTCCAGC-GGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCA
30616236 TTGGAGCGGCTCGAAGCCACAGTTT
64 TTGGAGCGGCTCGAAGCCACA-TTT
*
30616261 GTATCTCCTTGAAGTTCCAACGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT
1 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT
* * *
30616326 GGAAG-GACTCGAAGCCTCAATTC
66 GG-AGCGGCTCGAAGCCAC-ATTT
* *
30616349 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAAT
1 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAAT
30616408 TACAATGGAA
Statistics
Matches: 216, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
88 133 0.62
89 80 0.37
90 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
GTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT
GGAGCGGCTCGAAGCCACATTT
Found at i:30616521 original size:502 final size:501
Alignment explanation
Indices: 30615580--30616582 Score: 1778
Period size: 502 Copynumber: 2.0 Consensus size: 501
30615570 GAAGCCACAG
** *
30615580 TTCGTATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTACAAATCTCTTCTCCCTGAAATAGC
1 TTCGTATCTCCTTGAAGTTCCAGCGGAGAAGATCAAGGCTACAAATCTCTTCTCCCGGAAATAGC
30615645 ATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTAC
66 ATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTAC
30615710 AAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTT
131 AAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTT
* * *
30615775 CCAGCGGAGAAGATTGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCC
196 CCAACGGAGAAGATCGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTGGAGCGACTCGAAGCC
* *
30615840 ACAGTTTGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAA
261 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAA
30615905 TTACAATGGAACAAATTGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCATTAGAGCA
326 TTACAATGGAACAAATTGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCATTAGAGCA
30615970 GATCATAGCAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTC
391 GATCATAGCAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTC
30616035 CCTGAAGTTGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCC
456 CCTGAAGTTGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCC
* * *
30616081 TTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGTTACAAATCTCTTCTCCCGGAAATGGC
1 TTCGTATCTCCTTGAAGTTCCAGCGGAGAAGATCAAGGCTACAAATCTCTTCTCCCGGAAATAGC
* * *
30616146 ATTGGAGTGGCTCGAAGCCACA-TTTCGTATCTCCTTGAAGTTCCAGCTTGAGTAGATCT-AGGC
66 ATTGGAGCGGCTCGAAGCCACAGTTT-GTATCTCCTTGAAGTTCCAGC-GGAGAAGAT-TGAGGC
* *
30616209 TACAAATCTCTTTTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAA
128 TACAAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAA
* *
30616274 GTTCCAACGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAAG-GACTCGA
193 GTTCCAACGGAGAAGATCGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTGG-AGCGACTCGA
*
30616338 AGCCTCAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCT
257 AGCCACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCT
30616403 GAAATTACAATGGAACAAATTGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCATTAG
322 GAAATTACAATGGAACAAATTGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCATTAG
30616468 AGCAGATCATAGCAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTA
387 AGCAGATCATAGCAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTA
30616533 TCTCCCTGAAGTTGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCC
452 TCTCCCTGAAGTTGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCC
30616583 CTGAAGTTGC
Statistics
Matches: 479, Mismatches: 19, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
500 3 0.01
501 101 0.21
502 372 0.78
503 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (501 bp):
TTCGTATCTCCTTGAAGTTCCAGCGGAGAAGATCAAGGCTACAAATCTCTTCTCCCGGAAATAGC
ATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTAC
AAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCCACAGTTTGTATCTCCTTGAAGTT
CCAACGGAGAAGATCGAGGCTACAAATCTCTTCTCCCTGAAATAGCATTGGAGCGACTCGAAGCC
ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAA
TTACAATGGAACAAATTGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCATTAGAGCA
GATCATAGCAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTC
CCTGAAGTTGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCC
Found at i:30616654 original size:51 final size:45
Alignment explanation
Indices: 30616480--30617022 Score: 361
Period size: 44 Copynumber: 11.8 Consensus size: 45
30616470 CAGATCATAG
* * * **
30616480 CAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGT-TA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* *** *
30616524 CAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAAACTGAAGGTA-G
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAA-GTATA
* *
30616569 CGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGGTTGAAGCTACAAATCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAG-T----AT-A
* * *
30616620 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGT-TA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* * **
30616664 CAAGTCTTATCTCCCTGAAGTTGCAATGGGGCAGACTGAAG-ATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* **
30616708 GCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAAATTGAAGCTACAAATCA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAG-T----AT-A
* * * * *
30616760 CAAACCTTATCTCCCTGAAGTTGCAGTCGAGCAGGATAAAGT-TA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* * * * * * **
30616804 CAAGTCTTATCTTCTTAAAGTTACAGTGGAGCAAATTGAAG-ATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* * *
30616848 GCAAAT-TTGATCTCCCTGAAGTTGCAATGGGGCAGATCGAAGCTACAAATCA
1 -CAAATCTT-ATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAG-T----AT-A
*
30616900 CAAA-CTTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGT-TA
1 CAAATC-TTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* * **
30616944 -AAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG-ATA
1 CAAA-TCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
* * * *
30616988 GCAGATCTTATCTCCTTGAAGTTGCAATGGAGCAG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAG
30617023 ATCAAGCTAC
Statistics
Matches: 389, Mismatches: 75, Indels: 69
0.73 0.14 0.13
Matches are distributed among these distances:
43 3 0.01
44 137 0.35
45 133 0.34
46 2 0.01
49 1 0.00
50 3 0.01
51 106 0.27
52 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTATA
Found at i:30616739 original size:140 final size:140
Alignment explanation
Indices: 30616480--30617034 Score: 774
Period size: 140 Copynumber: 4.0 Consensus size: 140
30616470 CAGATCATAG
* * *
30616480 CAAACCTTATCTCCCCGAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * *
30616545 TGCAGTGGGGCAAACTGAAGGTAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGGTTGAAG
66 TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
30616610 CTACAAATCA
131 CTACAAATCA
* * *
30616620 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * * *
30616685 TGCAATGGGGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAAATTGAAG
66 TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
30616750 CTACAAATCA
131 CTACAAATCA
* * * * * *
30616760 CAAACCTTATCTCCCTGAAGTTGCAGTCGAGCAGGATAAAGTTACAAGTCTTATCTTCTTAAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * *
30616825 TACAGTGGAGCAAATTGAAGATAGCAAAT-TTGATCTCCCTGAAGTTGCAATGGGGCAGATCGAA
66 TGCAGTGGAGCAAACTGAAGATAGCGAATCTT-ATCTCCCTGAAGTTGCAATGGGGCAGATTGAA
30616889 GCTACAAATCA
130 GCTACAAATCA
* * * *
30616900 CAAACTTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTAAAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * * *
30616965 TGTAGTGGAGCAGACTGAAGATAGC-AGATCTTATCTCCTTGAAGTTGCAATGGAGCAGA-TCAA
66 TGCAGTGGAGCAAACTGAAGATAGCGA-ATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAA
30617028 GCTACAA
130 GCTACAA
30617035 TTGCAGAAGA
Statistics
Matches: 364, Mismatches: 48, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
139 12 0.03
140 350 0.96
141 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (140 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
CTACAAATCA
Found at i:30618711 original size:11 final size:10
Alignment explanation
Indices: 30618693--30618726 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
30618683 TTAATTCTTC
30618693 TTTTTTATTT
1 TTTTTTATTT
30618703 TTATTTTATTT
1 TT-TTTTATTT
30618714 TCTTTTTATTT
1 T-TTTTTATTT
30618725 TT
1 TT
30618727 GCTGTTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 18 0.82
12 1 0.05
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:30629778 original size:56 final size:56
Alignment explanation
Indices: 30629692--30629803 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
30629682 ACTCATAAAG
* *
30629692 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAGCTAGTCCAGCTTTGGTATATA
1 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
*
30629748 ATTGGAAGACGGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
1 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
30629804 GGCACTCTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (56 bp):
ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
Found at i:30634226 original size:53 final size:53
Alignment explanation
Indices: 30634042--30634248 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
30634032 ATTAGGGTTT
* * * * * * *
30634042 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTAGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
30634096 AAGTAAATCATGTAAGACCATGTCAAGACATGCCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * * *
30634151 AAAGATCCCATGCAAGAACATGTCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
30634204 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
30634249 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 35, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
53 44 0.38
54 35 0.30
55 37 0.32
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:30643769 original size:16 final size:15
Alignment explanation
Indices: 30643745--30643812 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
30643735 AACATCTAAA
*
30643745 GTTTGGAATAACTCTT
1 GTTTAGAATAA-TCTT
30643761 GTTTAGAATAAT-TGT
1 GTTTAGAATAATCT-T
*
30643776 GTTTCAAGAATAATTTT
1 GTTT--AGAATAATCTT
*
30643793 GTTTAGAACAACTCTT
1 GTTTAGAATAA-TCTT
30643809 GTTT
1 GTTT
30643813 GTAATAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.02
15 12 0.27
16 17 0.39
17 13 0.30
18 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (15 bp):
GTTTAGAATAATCTT
Found at i:30646093 original size:26 final size:26
Alignment explanation
Indices: 30646053--30646108 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
30646043 ATATAATAAT
30646053 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
30646079 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
30646105 AATA
1 AATA
30646109 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:30648077 original size:220 final size:219
Alignment explanation
Indices: 30647802--30648566 Score: 1143
Period size: 220 Copynumber: 3.5 Consensus size: 219
30647792 TGACAATACA
** * ** * * *
30647802 GAGATGCCAAATCTGCAATCTTCGATCTACTCTCTGACAATATAGAGACGCCAAATTATCTTAGA
1 GAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGA
* * * * * * * * * *
30647867 TTTGCTTCAACACAAACGCGTGAAAGCCAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACAC
65 TCTGCTTCAGCATAAACAC-TGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACAC
* *
30647932 GAGGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGT
129 AAAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGT
*
30647997 CTTCGATCTGCTCTCCGTCGAATATG
194 CTTCGATCTGCTCTCCATCGAATATG
* *
30648023 GAGATGCCAAATATGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
30648088 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
66 CTGCTTCAGCATAAACA-CTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
*
30648153 AAGATTCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
130 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
30648218 TTCGATCTGCTCTCCATCGAATATG
195 TTCGATCTGCTCTCCATCGAATATG
* *
30648243 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATATAGAGATGTCAAATCATCTTAGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
** * * *
30648308 CTGCTTCAGTGTAAACATTTGAAGGTCAGATCTGCTATGCCTTCAATTTGTTCCTTCTAAACACA
66 CTGCTTCAGCATAAACA-CTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
30648373 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
130 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
30648438 TTCGATCTGCTCTCCATCGAATATG
195 TTCGATCTGCTCTCCATCGAATATG
* * *
30648463 GAGATGCCAAATCTGTTTCTTCGATTTGTCCTCTGACAATACAGAGATGCCAACTCATCTTGGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
* ** *
30648528 TTGCTTCAGTGTAAACATCTGAAGGCCAGATCTGCTATG
66 CTGCTTCAGCATAAACA-CTGAAGGTCAGATCTGCTATG
30648567 TTTTAGCCTA
Statistics
Matches: 501, Mismatches: 42, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
220 486 0.97
221 15 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (219 bp):
GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGCATAAACACTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACAA
AGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTCT
TCGATCTGCTCTCCATCGAATATG
Found at i:30656637 original size:14 final size:16
Alignment explanation
Indices: 30656608--30656639 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
30656598 GATGCGATGT
30656608 AATGCTATGAGATGCA
1 AATGCTATGAGATGCA
30656624 AATGC-ATG-GATGCA
1 AATGCTATGAGATGCA
30656638 AA
1 AA
30656640 AAGAACATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (16 bp):
AATGCTATGAGATGCA
Found at i:30661178 original size:281 final size:281
Alignment explanation
Indices: 30660664--30661226 Score: 1092
Period size: 281 Copynumber: 2.0 Consensus size: 281
30660654 GAGAAAAAAA
30660664 AAGAAAAAAATATGAGATTTAAATCACCTTCTAAAATGAACCCTGCTTCTTATTTCTTCTGTGAG
1 AAGAAAAAAATATGAGATTTAAATCACCTTCTAAAATGAACCCTGCTTCTTATTTCTTCTGTGAG
30660729 TAATATATGTGTATATCTTTTTGTATATCTGTAAAAAAAATTCGGTCCCTCTACAGATTTGTGAA
66 TAATATATGTGTATATCTTTTTGTATATCTGTAAAAAAAATTCGGTCCCTCTACAGATTTGTGAA
30660794 AAGGCTTTTATAGCCTTCTATGAACTGTTTACATTTAGAAAGAAATCTTTGATTTCTTTTTCCTA
131 AAGGCTTTTATAGCCTTCTATGAACTGTTTACATTTAGAAAGAAATCTTTGATTTCTTTTTCCTA
*
30660859 TCTGTTTTCCTTTTCTGTTGAGTTTTCTTTATCTTTTTGCAGGCAATCGAGGAAAGTGGACCACC
196 TCTGTTTTCCTTTTCTATTGAGTTTTCTTTATCTTTTTGCAGGCAATCGAGGAAAGTGGA-CACC
30660924 GGCGTTGATTCGGCCGTCAATC
260 GGCGTTGATTCGGCCGTCAATC
30660946 AAGAAAAAAA-ATGAGATTTAAATCACCTTCTAAAATGAACCCTGCTTCTTATTTCTTCTGTGAG
1 AAGAAAAAAATATGAGATTTAAATCACCTTCTAAAATGAACCCTGCTTCTTATTTCTTCTGTGAG
30661010 TAATATATGTGTATATCTTTTTGTATATCTGTAAAAAAAATTCGGTCCCTCTACAGATTTGTGAA
66 TAATATATGTGTATATCTTTTTGTATATCTGTAAAAAAAATTCGGTCCCTCTACAGATTTGTGAA
30661075 AAGGCTTTTATAGCCTTCTATGAACTGTTTACATTTAGAAAGAAATCTTTGATTTCTTTTTCCTA
131 AAGGCTTTTATAGCCTTCTATGAACTGTTTACATTTAGAAAGAAATCTTTGATTTCTTTTTCCTA
*
30661140 TCTGTTTTCCTTTTCTATTGAGTTTTCTTTCTCTTTTTGCAGGCAATCGAGGAAAGTGGACACCG
196 TCTGTTTTCCTTTTCTATTGAGTTTTCTTTATCTTTTTGCAGGCAATCGAGGAAAGTGGACACCG
30661205 GCGTTGATTCGGCCGTCAATC
261 GCGTTGATTCGGCCGTCAATC
30661226 A
1 A
30661227 TGGCGTGATA
Statistics
Matches: 279, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
280 27 0.10
281 242 0.87
282 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (281 bp):
AAGAAAAAAATATGAGATTTAAATCACCTTCTAAAATGAACCCTGCTTCTTATTTCTTCTGTGAG
TAATATATGTGTATATCTTTTTGTATATCTGTAAAAAAAATTCGGTCCCTCTACAGATTTGTGAA
AAGGCTTTTATAGCCTTCTATGAACTGTTTACATTTAGAAAGAAATCTTTGATTTCTTTTTCCTA
TCTGTTTTCCTTTTCTATTGAGTTTTCTTTATCTTTTTGCAGGCAATCGAGGAAAGTGGACACCG
GCGTTGATTCGGCCGTCAATC
Found at i:30672096 original size:48 final size:47
Alignment explanation
Indices: 30672038--30672207 Score: 196
Period size: 48 Copynumber: 3.5 Consensus size: 47
30672028 CATGTCTCAA
* * * * *
30672038 ACATGGTCTTACACGAAATCACATATCGATGCCAATGTCATATCCCAG
1 ACATGGTCTTACA-GAGATCTCATATCGATGCCAATGCCATGTCCTAG
* * * *
30672086 ATATGGTCTTACATGGGATCTCATATCAATGCCAATGCCATGTCCTGG
1 ACATGGTCTTACA-GAGATCTCATATCGATGCCAATGCCATGTCCTAG
* *
30672134 ACATGATCTTACATAGGATCTCATATCGATGCCAATGCCATGTCCTAG
1 ACATGGTCTTACAGA-GATCTCATATCGATGCCAATGCCATGTCCTAG
*
30672182 ACATGGTCTTACATGGGATCTCATAT
1 ACATGGTCTTACA-GAGATCTCATAT
30672208 AACCCTAATG
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (47 bp):
ACATGGTCTTACAGAGATCTCATATCGATGCCAATGCCATGTCCTAG
Found at i:30673982 original size:30 final size:30
Alignment explanation
Indices: 30673946--30674005 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30673936 ACAATACACG
30673946 GTGAGTTTTAATTTTGTGCATGAAAATTTA
1 GTGAGTTTTAATTTTGTGCATGAAAATTTA
30673976 GTGAGTTTTAATTTTGTGCATGAAAATTTA
1 GTGAGTTTTAATTTTGTGCATGAAAATTTA
30674006 CTTCTTCCAA
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:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (30 bp):
GTGAGTTTTAATTTTGTGCATGAAAATTTA
Found at i:30675552 original size:122 final size:122
Alignment explanation
Indices: 30675395--30675880 Score: 893
Period size: 122 Copynumber: 4.0 Consensus size: 122
30675385 GAAATGCATA
* *** *
30675395 GAAAAAAGGAAAA-TTGTAGCCAGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
1 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
30675459 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
66 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
30675516 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
1 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
30675581 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
66 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
30675638 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
1 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
30675703 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
66 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
30675760 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
1 GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
** *
30675825 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGATGTATCAACTACTGTAGGGCA
66 TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCA
30675881 AGAGGAGTTC
Statistics
Matches: 356, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
121 13 0.04
122 343 0.96
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (122 bp):
GAAAAAAGGAAAATTTGTGGTTGGGATTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
TTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
Found at i:30677619 original size:31 final size:32
Alignment explanation
Indices: 30677538--30677609 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
30677528 AAAAGTTACA
* **
30677538 ATTT-AGTTACTAAATTATTCGAAAGTTTTTT
1 ATTTAAGTTACCAAATTATTTAAAAGTTTTTT
30677569 ATTTAAGTTACCAAATTATTTAAAAG-TTTTT
1 ATTTAAGTTACCAAATTATTTAAAAGTTTTTT
30677600 ATTTAAGTTA
1 ATTTAAGTTA
30677610 TTGAGTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 19 0.51
32 18 0.49
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (32 bp):
ATTTAAGTTACCAAATTATTTAAAAGTTTTTT
Found at i:30678329 original size:9 final size:9
Alignment explanation
Indices: 30678315--30678347 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
30678305 GTTAAACGAA
30678315 TCGAGTTAT
1 TCGAGTTAT
*
30678324 TCGAGTTAA
1 TCGAGTTAT
30678333 TCGAGTTAT
1 TCGAGTTAT
30678342 TCGAGT
1 TCGAGT
30678348 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30678336 original size:18 final size:18
Alignment explanation
Indices: 30678313--30678347 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30678303 GAGTTAAACG
30678313 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
30678331 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
30678348 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:30683295 original size:65 final size:64
Alignment explanation
Indices: 30683168--30683296 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 64
30683158 TATGCTATTA
30683168 TCGTAAGCAAAAGAGAGAGAAATTAAGAAAAAATATGGGATTTTTGTGGAGAAGAAAGAGAGAG
1 TCGTAAGCAAAAGAGAGAGAAATTAAGAAAAAATATGGGATTTTTGTGGAGAAGAAAGAGAGAG
* * *
30683232 TCGTAAGCAAAGGAGAGAGAGATTAAGAAAAAAATATGGGATTTTTGTGGAGAAGAAATAGAGAG
1 TCGTAAGCAAAAGAGAGAGAAATTAAG-AAAAAATATGGGATTTTTGTGGAGAAGAAAGAGAGAG
30683297 AGAGAGAGAG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 25 0.41
65 36 0.59
ACGTcount: A:0.47, C:0.03, G:0.30, T:0.19
Consensus pattern (64 bp):
TCGTAAGCAAAAGAGAGAGAAATTAAGAAAAAATATGGGATTTTTGTGGAGAAGAAAGAGAGAG
Found at i:30683350 original size:2 final size:2
Alignment explanation
Indices: 30683291--30683333 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
30683281 GAGAAGAAAT
30683291 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30683333 A
1 A
30683334 AAACACAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30685533 original size:15 final size:15
Alignment explanation
Indices: 30685509--30685542 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30685499 TTAATGACTT
*
30685509 CTTAGGGTTGTTAGG
1 CTTAGAGTTGTTAGG
30685524 CTTAGAGTTGTTAGG
1 CTTAGAGTTGTTAGG
30685539 CTTA
1 CTTA
30685543 AGGTTTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.41
Consensus pattern (15 bp):
CTTAGAGTTGTTAGG
Found at i:30691240 original size:46 final size:45
Alignment explanation
Indices: 30691171--30691344 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
30691161 GTAACCCGCC
*
30691171 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
30691216 CCGTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
30691266 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30691309 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30691345 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 58 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30691292 original size:93 final size:93
Alignment explanation
Indices: 30691178--30691348 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30691168 GCCCCTAAGT
* * * *
30691178 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30691243 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
30691271 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30691336 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30691349 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30696016 original size:19 final size:18
Alignment explanation
Indices: 30695992--30696027 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30695982 TCCATGAAAG
*
30695992 GACACGTCCGTGTGCCTTT
1 GACACGCCCGTGT-CCTTT
30696011 GACACGCCCGTGTCCTT
1 GACACGCCCGTGTCCTT
30696028 AGACCGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.36, G:0.25, T:0.28
Consensus pattern (18 bp):
GACACGCCCGTGTCCTTT
Found at i:30700070 original size:34 final size:34
Alignment explanation
Indices: 30700006--30700103 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
30699996 GCGAATACAT
* *
30700006 TCTGGGCCTAAGCCCATATT-AGTAATAGTAGCAG
1 TCTGGGCCTTAGCCCAT-TTCAGTAACAGTAGCAG
* * *
30700040 TCTGGGCCTTAGTCCATTTCAATAACAGTAGCGG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
30700074 TCTGGGCTTTAGCCCATTTCAGTAACAGTA
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTA
30700104 ATCAGTGCAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 2 0.04
34 53 0.96
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:30700116 original size:18 final size:18
Alignment explanation
Indices: 30700093--30700148 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
30700083 TAGCCCATTT
30700093 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* * *
30700111 CAGTAACCA-TGATTAATG
1 CAGTAA-CAGTAATCAGTG
* *
30700129 CAGTAACAGCAAACAGTG
1 CAGTAACAGTAATCAGTG
30700147 CA
1 CA
30700149 ATATGCAAGC
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:30700494 original size:27 final size:27
Alignment explanation
Indices: 30700467--30700606 Score: 181
Period size: 27 Copynumber: 5.2 Consensus size: 27
30700457 TGTAGAATAC
* * * *
30700467 AAGGGTATTACAATCATTTTATCCTAC
1 AAGGGTATTTCAGTCATTTTACCCTAT
*
30700494 AAGGGTATTTCAGTGATTTTACCCTAT
1 AAGGGTATTTCAGTCATTTTACCCTAT
* *
30700521 AGGGGAATTTCAGTCATTTTACCCTAT
1 AAGGGTATTTCAGTCATTTTACCCTAT
* *
30700548 GAGGGTATTTCAGTTATTTTACCCTAT
1 AAGGGTATTTCAGTCATTTTACCCTAT
* *
30700575 GAGCGTATTTCAGTCATTTTACCCTAT
1 AAGGGTATTTCAGTCATTTTACCCTAT
30700602 AAGGG
1 AAGGG
30700607 CAAAATAGCC
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTCAGTCATTTTACCCTAT
Found at i:30718061 original size:10 final size:10
Alignment explanation
Indices: 30718046--30718073 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30718036 ATTAGGGGAA
30718046 AAAGTAAAAC
1 AAAGTAAAAC
30718056 AAAGTAAAAC
1 AAAGTAAAAC
30718066 AAAGTAAA
1 AAAGTAAA
30718074 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:30721311 original size:12 final size:12
Alignment explanation
Indices: 30721294--30721335 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
30721284 CGGGTGTGTG
30721294 TCTACGTCAGAA
1 TCTACGTCAGAA
30721306 TCTACGTCAGAA
1 TCTACGTCAGAA
*
30721318 TCTACATCAGAA
1 TCTACGTCAGAA
30721330 TCTACG
1 TCTACG
30721336 ATCGTGTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (12 bp):
TCTACGTCAGAA
Found at i:30738350 original size:14 final size:15
Alignment explanation
Indices: 30738333--30738361 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30738323 AATACATTTT
30738333 CAAAAATGAT-AACA
1 CAAAAATGATCAACA
30738347 CAAAAATGATCAACA
1 CAAAAATGATCAACA
30738362 TTCCATACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.14
Consensus pattern (15 bp):
CAAAAATGATCAACA
Found at i:30744790 original size:19 final size:20
Alignment explanation
Indices: 30744766--30744803 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30744756 TAATTAGATT
30744766 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
30744785 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
30744804 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:30744998 original size:17 final size:18
Alignment explanation
Indices: 30744970--30745009 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
30744960 ACTTACTTAT
30744970 TATATAAGTAAATAATAA
1 TATATAAGTAAATAATAA
* *
30744988 TATAT-AGTAAATTATAT
1 TATATAAGTAAATAATAA
30745005 TATAT
1 TATAT
30745010 TATCTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATAAGTAAATAATAA
Found at i:30745935 original size:20 final size:20
Alignment explanation
Indices: 30745910--30745957 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
30745900 ATTCCGACTG
*
30745910 TGTGTCGATGAGACACTATA
1 TGTGTCGAAGAGACACTATA
30745930 TGTGTCGAAGAGACACTATA
1 TGTGTCGAAGAGACACTATA
30745950 TGTGTCGA
1 TGTGTCGA
30745958 CTACTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
TGTGTCGAAGAGACACTATA
Found at i:30750128 original size:48 final size:48
Alignment explanation
Indices: 30750070--30750346 Score: 281
Period size: 48 Copynumber: 5.8 Consensus size: 48
30750060 AAGAGGGTGA
* * * *
30750070 ATTGCTGATGCCATG-CTCCAAACATGGTCTTACACTAGCTCTCGTCTC
1 ATTGCAGATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATATC
* * * *
30750118 ATTGCAGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATGTT
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * * * * *
30750166 GTGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * * * * *
30750214 AGTGTAGATGCCATGTCCCAAACATGGTTTTACATTGGCTCTCACAAC
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * * *
30750262 ATCT-CCGATGCCATGTTCCAAACATGATCTTACATTGGCTCTCATATC
1 AT-TGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
*
30750310 -GTGACAGATGCCATGTCCCAAACATGGTCTTACACTG
1 ATTG-CAGATGCCATGTCCCAAACATGGTCTTACACTG
30750347 CACACATATC
Statistics
Matches: 183, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
46 1 0.01
48 180 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
Found at i:30750247 original size:96 final size:96
Alignment explanation
Indices: 30750076--30750346 Score: 321
Period size: 96 Copynumber: 2.8 Consensus size: 96
30750066 GTGAATTGCT
* * * *
30750076 GATGCCATG-CTCCAAACATGGTCTTACACTAGCTCTCGTCTCATTGCAGATGCCATGTCCCAGA
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCTCATATCAGTGCAGATGCCATGTCCCAAA
* ***** *
30750140 CATGATCTTACACTGGCTCTCATGTTGTGGCC
65 CATGGTCTTACACTGGCTCTCACAACATCGCC
* * *
30750172 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAGTGTAGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTGCAGATGCCATGTCCCAAAC
* * *
30750237 ATGGTTTTACATTGGCTCTCACAACATCTCC
66 ATGGTCTTACACTGGCTCTCACAACATCGCC
* * * *
30750268 GATGCCATGTTCCAAACATGATCTTACATTGGCTCTCATATC-GTGACAGATGCCATGTCCCAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTG-CAGATGCCATGTCCCAAA
30750332 CATGGTCTTACACTG
65 CATGGTCTTACACTG
30750347 CACACATATC
Statistics
Matches: 147, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
95 3 0.02
96 143 0.97
97 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTGCAGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCACAACATCGCC
Found at i:30754076 original size:198 final size:197
Alignment explanation
Indices: 30753715--30754109 Score: 718
Period size: 198 Copynumber: 2.0 Consensus size: 197
30753705 ATAAGTACTA
* * *
30753715 AGCACGGCTAGGGATAAAATTTAAACTTCTCTAAGTAAACATTCAAAAGATGTCATTTTCGCATG
1 AGCACAGCCAGGGATAAAATTTAAACTTCTCTAAGTAAACATTCAAAAGATGCCATTTTCGCATG
*
30753780 GCTTATATACATTAACCAAAATATTCTTCCGCCACTAGTCTATTTTATACATGCCATAAGATAAT
66 GCTTATATACATTAACCAAAATATTCTTCCGCCACTAGTCTATTCTATACATGCCATAAGATAAT
* *
30753845 CCAAAACATAGCAGTACCAAACAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGC
131 CCAAAACATAGCAGTACCAAACAATGAATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGC
30753910 CT
196 CT
30753912 AGCACAGCCAGGGATAAAATTTAAACTTCTCTAAGTAAACATTCAAAAGATGCCATTTTCGCATG
1 AGCACAGCCAGGGATAAAATTTAAACTTCTCTAAGTAAACATTCAAAAGATGCCATTTTCGCATG
30753977 GCTTATATACATTAACCAAAAATATTCTTCCGCCACTAGTCTATTCTATACATGCCATAAGATAA
66 GCTTATATACATTAACC-AAAATATTCTTCCGCCACTAGTCTATTCTATACATGCCATAAGATAA
*
30754042 TCCAAAACGTAGCAGTACCAAACAATGAATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAG
130 TCCAAAACATAGCAGTACCAAACAATGAATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAG
30754107 CCT
195 CCT
30754110 GTAGCTTCCA
Statistics
Matches: 190, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
197 79 0.42
198 111 0.58
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (197 bp):
AGCACAGCCAGGGATAAAATTTAAACTTCTCTAAGTAAACATTCAAAAGATGCCATTTTCGCATG
GCTTATATACATTAACCAAAATATTCTTCCGCCACTAGTCTATTCTATACATGCCATAAGATAAT
CCAAAACATAGCAGTACCAAACAATGAATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGC
CT
Found at i:30754746 original size:261 final size:261
Alignment explanation
Indices: 30754282--30754799 Score: 1009
Period size: 261 Copynumber: 2.0 Consensus size: 261
30754272 CCGAATATGC
30754282 ACATCTCATCATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATA
1 ACATCTCATCATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATA
*
30754347 TATCGTATGATTTCACATAACCTCTCACACTGATCCGATGTCACATAATCATAGAAATAGTCTCA
66 TATCGTATGATTTCACATAACCTCTCACACTGATCCGATATCACATAATCATAGAAATAGTCTCA
30754412 TAGATTGCTCTCGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATACAA
131 TAGATTGCTCTCGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATACAA
30754477 ACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACATG
196 ACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACATG
30754542 T
261 T
30754543 ACATCTCATCATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATA
1 ACATCTCATCATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATA
*
30754608 TATCGTATGATTTCACATAACCTCTCACACTGATCCGATATCACATAATCATAGGAATAGTCTCA
66 TATCGTATGATTTCACATAACCTCTCACACTGATCCGATATCACATAATCATAGAAATAGTCTCA
*
30754673 TAGATTGCTCTCGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAA
131 TAGATTGCTCTCGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATACAA
30754738 ACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTAC
196 ACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTAC
30754800 GAAGTCTTAC
Statistics
Matches: 254, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
261 254 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (261 bp):
ACATCTCATCATATACAATAGGCAGATAAACTTTCACATAAAAGTGAGCTCATGTGACATAGATA
TATCGTATGATTTCACATAACCTCTCACACTGATCCGATATCACATAATCATAGAAATAGTCTCA
TAGATTGCTCTCGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATACAA
ACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATATTTATAAGCAATTCTTATTACATG
T
Found at i:30754853 original size:37 final size:37
Alignment explanation
Indices: 30754803--30754881 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30754793 TTATTACGAA
* * *
30754803 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
30754840 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30754877 GTCTT
1 GTCTT
30754882 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30755071 original size:47 final size:47
Alignment explanation
Indices: 30755000--30755467 Score: 766
Period size: 47 Copynumber: 9.9 Consensus size: 47
30754990 CCCTTCGGGA
* * * * * *
30755000 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30755047 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755094 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30755141 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755188 CTTATCACATATATATACACTTTCACATTCAT--CATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755329 CTTATCACATATATACACTTTCACATTCATCACATCGGCC---AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30755373 CTTATCACAAATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30755422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
30755468 CGCCATACTA
Statistics
Matches: 399, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
44 12 0.03
45 22 0.06
46 31 0.08
47 265 0.66
49 69 0.17
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30758781 original size:25 final size:24
Alignment explanation
Indices: 30758728--30758773 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30758718 TTTCATCCTA
*
30758728 AAAATTAAATATTATTGTAAAAAC
1 AAAATTAAATATTAATGTAAAAAC
30758752 AAAATTAAA-ATTACATGTAAAA
1 AAAATTAAATATTA-ATGTAAAA
30758774 GAGAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAATTAAATATTAATGTAAAAAC
Found at i:30759918 original size:47 final size:47
Alignment explanation
Indices: 30759865--30759961 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
30759855 TAAACCAATA
* *
30759865 TTTATCTTAGTAATTATTATTTAAATCTCCCAACTTAACAAATTTAT
1 TTTATCTCAGTAATTATTATTTAAACCTCCCAACTTAACAAATTTAT
* * ** *
30759912 TTTATCTCATTACTTATTATTTAAACCTCTGAACTTATCAAATTTAT
1 TTTATCTCAGTAATTATTATTTAAACCTCCCAACTTAACAAATTTAT
30759959 TTT
1 TTT
30759962 TTTCAATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.49
Consensus pattern (47 bp):
TTTATCTCAGTAATTATTATTTAAACCTCCCAACTTAACAAATTTAT
Found at i:30766407 original size:47 final size:47
Alignment explanation
Indices: 30765900--30766378 Score: 868
Period size: 47 Copynumber: 10.1 Consensus size: 47
30765890 GAAATGATAG
*
30765900 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * *
30765949 TAGGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30765996 TAAGGCCTAATAGCCGATGTGCTGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30766043 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766090 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766137 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766184 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766231 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766278 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30766325 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30766372 CAAGGCC
1 TAAGGCC
30766379 GAGTGGCCAA
Statistics
Matches: 418, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
47 384 0.92
49 34 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30766597 original size:37 final size:37
Alignment explanation
Indices: 30766541--30766619 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30766531 CCGAGCTCTA
* * *
30766541 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30766578 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30766615 AAGAC
1 AAGAC
30766620 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30771232 original size:46 final size:47
Alignment explanation
Indices: 30771083--30771297 Score: 201
Period size: 47 Copynumber: 4.6 Consensus size: 47
30771073 GTAAGGTGCT
* *
30771083 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTATATCTCATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCATGCC
*
30771130 GGTGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-CATCTCAT-GCC
* *
30771178 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTC-ATGCC
* * * * * * * *
30771224 AAT-ACATGTCCCAGACAT-ATTTTACAGTAGCACT-CGTCTCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-TTACATCTC-ATGCC
*
30771270 GATGCCATGTCCCAGACATAGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
30771298 TTGACTCTCA
Statistics
Matches: 141, Mismatches: 17, Indels: 19
0.80 0.10 0.11
Matches are distributed among these distances:
46 60 0.43
47 70 0.50
48 11 0.08
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCATGCC
Found at i:30771279 original size:93 final size:93
Alignment explanation
Indices: 30771079--30771297 Score: 232
Period size: 93 Copynumber: 2.3 Consensus size: 93
30771069 TGGCGTAAGG
* * * * ** *
30771079 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTTATATCTCATGTCGGTGCCATGTCCCA
1 TGCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAGGCCAATGACATGTCCCA
*
30771144 GACATGGTCTTACACTGACTATCATCTCA
66 GACATGATCTTACACTGAC-ATCATCTCA
* *
30771173 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGCCAAT-ACATGTCC
1 T-GCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC-AGGCCAATGACATGTCC
* * *
30771235 CAGACAT-ATTTTACAGT-AGCACTCGTCTCGA
64 CAGACATGATCTTACACTGA-CA-TCATCTC-A
30771266 TGCTGATGCCATGTCCCAGACATAGTCTTACA
1 TGCTGATGCCATGTCCCAGACATAGTCTTACA
30771298 TTGACTCTCA
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
91 2 0.02
92 20 0.19
93 50 0.48
94 27 0.26
95 6 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
TGCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAGGCCAATGACATGTCCCA
GACATGATCTTACACTGACATCATCTCA
Found at i:30772600 original size:13 final size:13
Alignment explanation
Indices: 30772582--30772606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30772572 AAGACCATGG
30772582 CTTCGATATGTGA
1 CTTCGATATGTGA
30772595 CTTCGATATGTG
1 CTTCGATATGTG
30772607 TTTACGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (13 bp):
CTTCGATATGTGA
Found at i:30774286 original size:36 final size:36
Alignment explanation
Indices: 30774246--30774314 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
30774236 AATGTTATTT
**
30774246 GAACCTATTCATTGATAAGATTTTCGGGGACGATTC
1 GAACCTATTCACCGATAAGATTTTCGGGGACGATTC
*
30774282 GAACCTATTCACCGGTAAGATTTTCGGGGACGA
1 GAACCTATTCACCGATAAGATTTTCGGGGACGA
30774315 AAATCCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (36 bp):
GAACCTATTCACCGATAAGATTTTCGGGGACGATTC
Found at i:30781136 original size:60 final size:60
Alignment explanation
Indices: 30781053--30781170 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
30781043 TAGTAAACTA
* * * *
30781053 AACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACG
1 AACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATCTTAAAATAATTACG
*
30781113 AACACAAAAATTTTTAACATAATCCTAAATTACTAACAAATTAATCTTAAAATAATTA
1 AACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATCTTAAAATAATTA
30781171 TAAAAAACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.35
Consensus pattern (60 bp):
AACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATCTTAAAATAATTACG
Found at i:30781359 original size:14 final size:14
Alignment explanation
Indices: 30781342--30781394 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
30781332 ACCTTTTTTT
30781342 TTCTTTCTTTCTTC
1 TTCTTTCTTTCTTC
30781356 TTC-TTC--TCTTC
1 TTCTTTCTTTCTTC
*
30781367 TTCTTTTTTTCTTC
1 TTCTTTCTTTCTTC
* *
30781381 TCCTTTCTCTCTTC
1 TTCTTTCTTTCTTC
30781395 CGGTGTGTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 8 0.25
12 2 0.06
13 3 0.09
14 19 0.59
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:30784169 original size:20 final size:20
Alignment explanation
Indices: 30784131--30784184 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
30784121 AAGTTTTAAG
* *
30784131 ATAATTTTTAAAATTTAAAT
1 ATAATTTTTAAAATATAAAA
30784151 ATAATTTTATAAAA-ATAAAA
1 ATAATTTT-TAAAATATAAAA
30784171 ATAAATATTTTAAA
1 AT-AAT-TTTTAAA
30784185 TGCATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 14 0.48
21 12 0.41
22 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTTTTAAAATATAAAA
Found at i:30784248 original size:18 final size:18
Alignment explanation
Indices: 30784216--30784254 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30784206 GAGATTAAGT
30784216 TTAAAAAATTAAAATATA
1 TTAAAAAATTAAAATATA
30784234 TTAAACAAATT-AAATATA
1 TTAAA-AAATTAAAATATA
30784252 TTA
1 TTA
30784255 TGCATAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTAAAATATA
Found at i:30801223 original size:43 final size:43
Alignment explanation
Indices: 30801175--30801460 Score: 331
Period size: 43 Copynumber: 6.7 Consensus size: 43
30801165 TGTAATTATG
* * *
30801175 TGTAAGACCACATCTGGAACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
* * * *
30801218 TGTAAGACCACGTTTGGGATGTTGGCATCTATATATGATTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
**
30801261 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
* * * **
30801304 TGTAAGACCACGTCTGGGACGTCGACATCGATATGTGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
* * * *
30801347 TGTAAGACCACGTCTTGGACGTCGGCATCAATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
* ** * *
30801390 TGTAAGACC-CTGTCTAGGACAATGGCATCAATATACGATTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATATATGATTACA
* *
30801433 TGTAAGACCGCGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
30801461 TGTACGAAAT
Statistics
Matches: 214, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.00
43 212 0.99
44 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
Found at i:30801314 original size:129 final size:129
Alignment explanation
Indices: 30801169--30801460 Score: 372
Period size: 129 Copynumber: 2.3 Consensus size: 129
30801159 TCAATATGTA
* *
30801169 ATTATGTGTAAGACCACATCTGGAACGTTGGCATCGATATGTGATTACATGTAAGACCACGT-TT
1 ATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCTT
* * * * * ** * *
30801233 GGGATGTTGGCATCTATATATGATTATATGTAAGACCAC-GTCTGGGACGTTGGCATCGATATAT
66 -GGACGTCGGCATCAATATATGATTACATGTAAGACC-CTGTCTAGGACAATGGCATCAATATAC
30801297 G
129 G
* * **
30801298 ATTATGTGTAAGACCACGTCTGGGACGTCGACATCGATATGTGATTATGTGTAAGACCACGTCTT
1 ATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCTT
*
30801363 GGACGTCGGCATCAATATGTGATTACATGTAAGACCCTGTCTAGGACAATGGCATCAATATACG
66 GGACGTCGGCATCAATATATGATTACATGTAAGACCCTGTCTAGGACAATGGCATCAATATACG
** * *
30801427 ATTACATGTAAGACCGCGTCTGGGACATTGGCAT
1 ATTATGTGTAAGACCACGTCTGGGACGTTGGCAT
30801461 TGTACGAAAT
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
128 1 0.01
129 136 0.98
130 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (129 bp):
ATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCTT
GGACGTCGGCATCAATATATGATTACATGTAAGACCCTGTCTAGGACAATGGCATCAATATACG
Found at i:30808402 original size:46 final size:46
Alignment explanation
Indices: 30808335--30808426 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
30808325 AATGAATGTT
*
30808335 AGCCATCATTCAAGGCTTAATACCAAGTGAGGAATCTATCTCAAGC
1 AGCCATCATTCAAGGCTTAATACCAAGTGAGGAATCTATCCCAAGC
* * *
30808381 AGCCATCATTCAAGGCTTAATATCAAGTGTGGGATCTATCCCAAGC
1 AGCCATCATTCAAGGCTTAATACCAAGTGAGGAATCTATCCCAAGC
30808427 CAACACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (46 bp):
AGCCATCATTCAAGGCTTAATACCAAGTGAGGAATCTATCCCAAGC
Found at i:30808987 original size:46 final size:46
Alignment explanation
Indices: 30808898--30809116 Score: 218
Period size: 46 Copynumber: 4.7 Consensus size: 46
30808888 GGGGTAAGGT
30808898 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCG-AG
* *
30808944 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
* * * * *
30808990 GCCGATGCATGTTCTAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAG
* * *
30809036 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT--ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGA-G
30809084 GCCGATGCATGTCCCAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
30809117 TTCACACAAG
Statistics
Matches: 147, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 69 0.47
47 28 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
Found at i:30809087 original size:94 final size:91
Alignment explanation
Indices: 30808898--30809116 Score: 243
Period size: 94 Copynumber: 2.4 Consensus size: 91
30808888 GGGGTAAGGT
* *
30808898 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATC-TCGC-A-G-CTGATGCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCGTCTCAATGTC-GATGCATGTCC
* * *
30808958 CAGACATGTCTTACACTGGCTTACATCTCGAG
61 CAGACATGTCTTACACTAGCTCACATATC-AG
* *
30808990 GCCGATGCATGTTCTAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATG-CATGTCCCAGA
30809055 CATGGTCTTACACTAGCTCACATAAT-ATG
65 CAT-GTCTTACACTAGCTCACAT-ATCA-G
30809084 GCCGATGCATGTCCCAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
30809117 TTCACACAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
89 2 0.02
90 15 0.14
91 14 0.13
92 12 0.11
93 16 0.15
94 49 0.45
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCACATATCAG
Found at i:30810522 original size:18 final size:19
Alignment explanation
Indices: 30810489--30810544 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
30810479 TATTAAAAGT
30810489 ATAATATAATTT-ATTATAA
1 ATAATA-AATTTAATTATAA
30810508 A-AATAAATTTAATTAATAA
1 ATAATAAATTTAATT-ATAA
30810527 ATAA-AAATTATAATTATA
1 ATAATAAATT-TAATTATA
30810545 TCAGTTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.15
18 7 0.21
19 14 0.42
20 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATAAATTTAATTATAA
Found at i:30815240 original size:28 final size:28
Alignment explanation
Indices: 30815183--30815335 Score: 211
Period size: 28 Copynumber: 5.5 Consensus size: 28
30815173 TAAATTGTGC
* *
30815183 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
30815210 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30815238 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30815266 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * * *
30815294 AGCGCTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
30815321 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30815336 GACTTAATAA
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 36 0.32
28 76 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:30815325 original size:83 final size:83
Alignment explanation
Indices: 30815183--30815335 Score: 220
Period size: 83 Copynumber: 1.8 Consensus size: 83
30815173 TAAATTGTGC
* *
30815183 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
30815248 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
30815266 AGCACTAAGTGTGC-AAGTTTGATTATGTAGCGCTAGGTGTGCGAG-CTGATTATATAGCACTGA
1 AGCACTAAGTGTGCGAA--TTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAA
30815329 GTGTGCG
64 GTGTGCG
30815336 GACTTAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
82 2 0.03
83 36 0.58
84 24 0.39
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:30820305 original size:13 final size:13
Alignment explanation
Indices: 30820287--30820319 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
30820277 ATGAATGTAT
30820287 TCCGAATATGGAA
1 TCCGAATATGGAA
30820300 TCCGAATATGGAA
1 TCCGAATATGGAA
30820313 TCCGAAT
1 TCCGAAT
30820320 TTCAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (13 bp):
TCCGAATATGGAA
Found at i:30820469 original size:23 final size:23
Alignment explanation
Indices: 30820443--30820486 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
30820433 CACCCGGGGA
30820443 GTACGAAAATGTACAACGATTGG
1 GTACGAAAATGTACAACGATTGG
30820466 GTACGAAAATGTACAACGATT
1 GTACGAAAATGTACAACGATT
30820487 TGAAACGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (23 bp):
GTACGAAAATGTACAACGATTGG
Found at i:30822735 original size:13 final size:13
Alignment explanation
Indices: 30822717--30822741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30822707 TAATGGTATA
30822717 TTGAATCCATGAC
1 TTGAATCCATGAC
30822730 TTGAATCCATGA
1 TTGAATCCATGA
30822742 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:30823322 original size:27 final size:26
Alignment explanation
Indices: 30823291--30823468 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
30823281 TAAATTGTAC
30823291 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
30823318 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30823344 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30823372 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
30823400 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30823427 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30823454 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30823469 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30823407 original size:82 final size:81
Alignment explanation
Indices: 30823292--30823447 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30823282 AAATTGTACA
* *
30823292 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30823356 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30823373 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30823438 TGCGAGTTGA
65 TGCGAATTGA
30823448 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30823459 original size:82 final size:81
Alignment explanation
Indices: 30823288--30823468 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30823278 GATTAAATTG
* *
30823288 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30823353 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
30823369 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30823433 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30823451 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30823469 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30823479 original size:27 final size:27
Alignment explanation
Indices: 30823373--30823479 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
30823363 TGACCATGCG
* * * *
30823373 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30823401 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30823428 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30823455 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30823480 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30827141 original size:45 final size:45
Alignment explanation
Indices: 30827018--30827248 Score: 155
Period size: 44 Copynumber: 5.2 Consensus size: 45
30827008 GCTATAAATT
* * *
30827018 ATAGCAAATCTCATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 ATAGCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
** * * * * *
30827063 CCA-CCAGTCTTATCTCCCT-AAGGTTGCAATTGAGCAGACTAAAG
1 ATAGCAAATCTCATCTCCCTGAA-GTTGCAGTTGAGCAGATTAAAG
*
30827107 ATAGCAAATCTCATCTCCCTGAAGTAGCAGTTGAGCAGATTAAAG
1 ATAGCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
* * * * * * * * **
30827152 -TTGTAGATCTTATCTCCTTGAAGTTGTAGTAGAGTAGATCGAAG
1 ATAGCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
* * * * * * * *
30827196 ATAACGAATCTTATTTCCCTGATGTTGTAGTGGAACAGATTAAAG
1 ATAGCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
*
30827241 CTA-CAAAT
1 ATAGCAAAT
30827249 TATAGCAAAT
Statistics
Matches: 138, Mismatches: 44, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
43 2 0.01
44 68 0.49
45 66 0.48
46 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
ATAGCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
Found at i:30827334 original size:97 final size:99
Alignment explanation
Indices: 30827161--30827340 Score: 238
Period size: 97 Copynumber: 1.8 Consensus size: 99
30827151 GTTGTAGATC
* * * * * *
30827161 TTATCTCCTTGAAGTTGTAGTAGAGTAGATCGAAGATAACGAATCTTATTTCCCTGATGTTGTAG
1 TTATCTCCCTAAAGTTGCAGTAGAGTAGATCGAAGAGAACGAATCTTATCTCCCTGAAGTTGTAG
*
30827226 TGGAACAGATTAAAGCTACAAATTATAGCAAATA
66 TAGAACAGATTAAAGCTACAAATTATAGCAAATA
* * * *
30827260 TTATCTCCCTAAAGTTGCAGTGGAGTAGATC-AA-AGCACTAATCTTATCTCTCTGAAGTTGTAG
1 TTATCTCCCTAAAGTTGCAGTAGAGTAGATCGAAGAGAACGAATCTTATCTCCCTGAAGTTGTAG
*
30827323 TAGAGCAGATTAAAGCTA
66 TAGAACAGATTAAAGCTA
30827341 TAATCTATAC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
97 40 0.58
98 2 0.03
99 27 0.39
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (99 bp):
TTATCTCCCTAAAGTTGCAGTAGAGTAGATCGAAGAGAACGAATCTTATCTCCCTGAAGTTGTAG
TAGAACAGATTAAAGCTACAAATTATAGCAAATA
Found at i:30827366 original size:42 final size:43
Alignment explanation
Indices: 30827260--30827367 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
30827250 ATAGCAAATA
* * * *
30827260 TTATCTCCCTAAAGTTGCAGTGGAGTAGATCAAAGCACTAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATCAAAGCACTAATC
* *
30827303 TTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA-TAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATCAAAGC-ACTAATC
30827346 -TATACT-TCTAAAGTTGTAGTAG
1 TTAT-CTCTCTAAAGTTGTAGTAG
30827368 GTTGGACCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 18 0.32
43 37 0.66
44 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
TTATCTCTCTAAAGTTGTAGTAGAGCAGATCAAAGCACTAATC
Found at i:30827475 original size:44 final size:44
Alignment explanation
Indices: 30827391--30827498 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
30827381 TAACATGGCG
* * * * *
30827391 AATCTTATCTCTCTGAAGCTATAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCACA
* *
30827435 AATCTTATCTCCCTGAAGTTACAGTAGAGTAGTTTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCACA
*
30827479 AATCCTATAC-CCCTGAAGTT
1 AATCTTAT-CTCCCTGAAGTT
30827499 GTAGTGGGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 54 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCACA
Found at i:30827715 original size:44 final size:44
Alignment explanation
Indices: 30827528--30827772 Score: 129
Period size: 44 Copynumber: 5.5 Consensus size: 44
30827518 TCATACAAAT
* ** * * *
30827528 TACAAGTCTTATCTCCCTAAAGTTGCAGTGGAATAGGCTGAAA-A
1 TACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCA-GATCAAAGC
* * * * * * * *
30827572 TAGTAAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAAGT
1 TA-CAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGC
* * * * * * * * * ** *
30827617 TATAAGCCTAATCTCCTTGAAGTTACAGTGGGGCAGGTTGAAGT
1 TACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGC
* *
30827661 TAC-AGATCTTATATCCCTAAAGTTGCAGT-GAGTAGATCAAAGC
1 TACAAG-TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGC
* * * *
30827704 TAGCAAGTCTTATCTTCTTAAAGTTGTAGTAGAGCAGATTAAAGC
1 TA-CAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGC
30827749 TACAAGTCCTT-TCTCCCTAAAGTT
1 TACAAGT-CTTATCTCCCTAAAGTT
30827773 ATAATGGAAT
Statistics
Matches: 151, Mismatches: 43, Indels: 14
0.73 0.21 0.07
Matches are distributed among these distances:
43 12 0.08
44 92 0.61
45 47 0.31
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
TACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGC
Found at i:30827772 original size:132 final size:133
Alignment explanation
Indices: 30827534--30827773 Score: 299
Period size: 132 Copynumber: 1.8 Consensus size: 133
30827524 AAATTACAAG
* * * * *
30827534 TCTTATCTCCCTAAAGTTGCAGTGGAATAGGCTGAAAATAGTAAATCTTATCTCTCTGAAGTTGT
1 TCTTATATCCCTAAAGTTGCAGTGGAATAGGATCAAAATAGCAAATCTTATCTCTCTAAAGTTGT
* * * * *
30827599 AGTAGAGTAGATTAAAGTTATAAGCCTAATCTCCTTGAAGTTACAGTGGGGCAGGTTGAAGTTAC
66 AGTAGAGCAGATTAAAGCTACAAGCCTAATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTAC
30827664 AGA
131 AGA
* * *
30827667 TCTTATATCCCTAAAGTTGCAGT-GAGTA-GATCAAAGCTAGCAAGTCTTATCT-TCTTAAAGTT
1 TCTTATATCCCTAAAGTTGCAGTGGAATAGGATCAAA-ATAGCAAATCTTATCTCTC-TAAAGTT
*
30827729 GTAGTAGAGCAGATTAAAGCTACAAGTCCT-TTCTCCCTAAAGTTA
64 GTAGTAGAGCAGATTAAAGCTACAAG-CCTAATCTCCCTAAAGTTA
30827774 TAATGGAATG
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
131 7 0.08
132 58 0.64
133 25 0.28
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (133 bp):
TCTTATATCCCTAAAGTTGCAGTGGAATAGGATCAAAATAGCAAATCTTATCTCTCTAAAGTTGT
AGTAGAGCAGATTAAAGCTACAAGCCTAATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTAC
AGA
Found at i:30828302 original size:3 final size:3
Alignment explanation
Indices: 30828294--30828321 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30828284 CGCAAAACAA
30828294 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30828322 TATTGTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30829353 original size:24 final size:24
Alignment explanation
Indices: 30829320--30829396 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
30829310 AAGGCTGTTA
* * *
30829320 GGAGAAGATTTGGGAACTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
30829344 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
30829368 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
30829392 GGAGA
1 GGAGA
30829397 ACGGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:30830867 original size:27 final size:26
Alignment explanation
Indices: 30830827--30830938 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
30830817 AGGAAACATC
*
30830827 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
30830854 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
30830881 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
30830909 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
30830935 CTGG
1 CTGG
30830939 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30830931 original size:54 final size:54
Alignment explanation
Indices: 30830827--30830938 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
30830817 AGGAAACATC
*
30830827 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
30830881 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
30830935 CTGG
1 CTGG
30830939 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:30832500 original size:27 final size:27
Alignment explanation
Indices: 30832459--30832512 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30832449 TGTCATGTGA
* *
30832459 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
30832486 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
30832513 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:30832879 original size:49 final size:51
Alignment explanation
Indices: 30832761--30832896 Score: 195
Period size: 49 Copynumber: 2.7 Consensus size: 51
30832751 TATTGTGAGC
* *
30832761 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGT
* * * * *
30832812 GTAGTACTAAGTGTAGGCTACTATGTGTACTAGATAA-TT-GGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGT
30832861 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
30832897 GCCTTGTCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 40 0.53
50 2 0.03
51 33 0.44
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (51 bp):
GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGT
Found at i:30841710 original size:31 final size:31
Alignment explanation
Indices: 30841672--30841737 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
30841662 TAAAGGTGTT
30841672 GAATATCATTTTAAGGTAGCATGTTAAGCAG
1 GAATATCATTTTAAGGTAGCATGTTAAGCAG
*
30841703 GAATATCATTTTAAGGTAGCATGTTAAGTAG
1 GAATATCATTTTAAGGTAGCATGTTAAGCAG
30841734 GAAT
1 GAAT
30841738 GCCCACTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (31 bp):
GAATATCATTTTAAGGTAGCATGTTAAGCAG
Found at i:30844642 original size:9 final size:9
Alignment explanation
Indices: 30844625--30844680 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
30844615 TCTATTTCAA
*
30844625 AAAAAAAAG
1 AAAAGAAAG
30844634 AAAAGAAAG
1 AAAAGAAAG
30844643 AAAAGAAA-
1 AAAAGAAAG
*
30844651 AAGAGAAA-
1 AAAAGAAAG
*
30844659 AAAATAAAG
1 AAAAGAAAG
30844668 AGAAA-AAAG
1 A-AAAGAAAG
30844677 AAAA
1 AAAA
30844681 AATGGAGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 16 0.39
9 22 0.54
10 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:30844651 original size:20 final size:20
Alignment explanation
Indices: 30844623--30844682 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
30844613 CTTCTATTTC
* *
30844623 AAAAAAAAAAGAAAAGAAAG
1 AAAAGAAAAAGAAAAAAAAG
*
30844643 AAAAGAAAAAGAGAAAAAAAT
1 AAAAGAAAAAGA-AAAAAAAG
30844664 AAAGAGAAAAAAGAAAAAA
1 AAA-AG-AAAAAGAAAAAA
30844683 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.32
21 9 0.26
22 7 0.21
23 7 0.21
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAAAAAG
Found at i:30844683 original size:20 final size:21
Alignment explanation
Indices: 30844623--30844683 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
30844613 CTTCTATTTC
30844623 AAAA-AAAAAAGAAAAGAA-AG
1 AAAAGAAAAAAGAAAA-AATAG
30844643 AAAAGAAAAAGAGAAAAAAATA-
1 AAAAGAAAAA-AG-AAAAAATAG
*
30844665 AAGAGAAAAAAGAAAAAAT
1 AAAAGAAAAAAGAAAAAAT
30844684 GGAGAGGCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 11 0.31
21 7 0.19
22 13 0.36
23 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAAAATAG
Found at i:30845605 original size:44 final size:44
Alignment explanation
Indices: 30845552--30845733 Score: 181
Period size: 44 Copynumber: 4.1 Consensus size: 44
30845542 CAAAGAAATA
* *
30845552 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGC
1 AGATCTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
30845596 AGATCTGGCATTCCTATGCTTACAGCGAAGCAGATTGCAGATTTC
1 AGATCTGGCATCCCTATGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
30845641 AG--CATGGCATCCCTGTGTTTATTGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTATGTTTATAGGGAACAGA-TCGAAGATAGC
* *
30845684 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGC
30845728 AGATCT
1 AGATCT
30845734 AACCTTCAGA
Statistics
Matches: 109, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
42 1 0.01
43 13 0.12
44 82 0.75
45 13 0.12
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AGATCTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGC
Found at i:30845931 original size:119 final size:119
Alignment explanation
Indices: 30845723--30846435 Score: 1228
Period size: 119 Copynumber: 6.0 Consensus size: 119
30845713 CAGATCGAAG
30845723 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
30845788 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
30845842 ATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
30845907 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
30845961 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
30846026 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
30846080 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGAACCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
30846145 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
30846199 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
30846264 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * * * **
30846318 ATAGTAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGACATCCTTGTAC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
30846383 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
30846436 CAGACTTAAG
Statistics
Matches: 569, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 569 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:30846459 original size:83 final size:83
Alignment explanation
Indices: 30846360--30847368 Score: 1901
Period size: 83 Copynumber: 12.1 Consensus size: 83
30846350 AAGCAGATCC
* *
30846360 AAGATGGTTTGACATCCTTGTACTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846425 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846443 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846508 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846526 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846591 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846609 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846674 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846692 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846757 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846775 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846840 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846858 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30846923 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30846941 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30847006 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30847024 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
* *
30847089 ATATTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTT
*
30847107 AAGATGGTTTGGCATACTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
30847172 ATGTTCTCAAACAGACTT
66 ATGTTCTCAAACAGACTT
30847190 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
*
30847255 ATGTTCTCAAACATGACTC
66 ATGTTCTCAAACA-GACTT
* * *
30847274 AAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTCA
1 AAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
30847339 AATGTTCTCAAACAGACTC
65 AATGTTCTCAAACAGACTT
*
30847358 AAGATGATTTG
1 AAGATGGTTTG
30847369 ATGTCCTTAC
Statistics
Matches: 911, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
83 818 0.90
84 28 0.03
85 65 0.07
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (83 bp):
AAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
ATGTTCTCAAACAGACTT
Found at i:30852066 original size:11 final size:11
Alignment explanation
Indices: 30852030--30852071 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
30852020 TTTAAAATTT
*
30852030 AAAATAATTTA
1 AAAATAATATA
30852041 AATAA-AATCATA
1 AA-AATAAT-ATA
30852053 AAAATAATATA
1 AAAATAATATA
30852064 AAAATAAT
1 AAAATAAT
30852072 TTGAAGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAATATA
Found at i:30853722 original size:19 final size:18
Alignment explanation
Indices: 30853700--30853738 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30853690 ATTTAGAATC
30853700 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
* *
30853719 AAAATTAAATTAAATATA
1 AAAACTAAAATAAATATA
30853737 AA
1 AA
30853739 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:30858070 original size:154 final size:154
Alignment explanation
Indices: 30857790--30858097 Score: 571
Period size: 154 Copynumber: 2.0 Consensus size: 154
30857780 GAATCATCCC
30857790 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
** *
30857855 TCTGCTACCATATAAAATGACAGTTGATGAAGGGAGCAAATTTTTTCTTTGAAGAACGTAAAATT
66 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
30857920 CAAGCCTAAAATCAATGAAATCAA
131 CAAGCCTAAAATCAATGAAATCAA
*
30857944 CATTCTGCAGAATATAAGATAAAATAAAAACTATACATCACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
30858009 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
66 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
*
30858074 CAAGCCTAAAATCAGTGAAATCAA
131 CAAGCCTAAAATCAATGAAATCAA
30858098 TCTATCTTAC
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 149 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (154 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
CAAGCCTAAAATCAATGAAATCAA
Found at i:30860299 original size:47 final size:47
Alignment explanation
Indices: 30860240--30860431 Score: 267
Period size: 47 Copynumber: 4.1 Consensus size: 47
30860230 GAAATGATAG
* *
30860240 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
*
30860287 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
*
30860334 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
* * * * * * * * *
30860381 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
30860428 TAAG
1 TAAG
30860432 TCCCGAAGGG
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
Found at i:30860606 original size:37 final size:37
Alignment explanation
Indices: 30860550--30860628 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30860540 CCGAGCTCTA
* *
30860550 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30860587 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30860624 AAGAC
1 AAGAC
30860629 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:30862654 original size:8 final size:8
Alignment explanation
Indices: 30862643--30862716 Score: 69
Period size: 8 Copynumber: 8.9 Consensus size: 8
30862633 ATATTAAATA
30862643 TTAAATTT
1 TTAAATTT
*
30862651 TT-AAGTT
1 TTAAATTT
30862658 TTAAATTT
1 TTAAATTT
*
30862666 TTTAATTT
1 TTAAATTT
*
30862674 TTAATTTT
1 TTAAATTT
*
30862682 TTAATTTTT
1 TTAA-ATTT
30862691 TTAAAGATTT
1 TT-AA-ATTT
30862701 TTATAATTT
1 TTA-AATTT
30862710 TTAAATT
1 TTAAATT
30862717 AACATATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
7 6 0.11
8 27 0.49
9 14 0.25
10 8 0.15
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:30862654 original size:15 final size:15
Alignment explanation
Indices: 30862636--30862689 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
30862626 AACTAAAATA
*
30862636 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
*
30862651 TTAAGTTTTAAATTT
1 TTAAATTTTAAATTT
* *
30862666 TTTAATTTTTAATTT
1 TTAAATTTTAAATTT
*
30862681 TTTAATTTT
1 TTAAATTTT
30862690 TTTAAAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:30862670 original size:9 final size:9
Alignment explanation
Indices: 30862656--30862716 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
30862646 AATTTTTAAG
30862656 TTTTAAATT
1 TTTTAAATT
30862665 TTTT-AA-T
1 TTTTAAATT
30862672 TTTT-AATT
1 TTTTAAATT
*
30862680 TTTTAATTT
1 TTTTAAATT
*
30862689 TTTTAAAGAT
1 TTTTAAA-TT
30862699 TTTTATAA-T
1 TTTTA-AATT
30862708 TTTTAAATT
1 TTTTAAATT
30862717 AACATATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
7 7 0.16
8 9 0.20
9 20 0.45
10 6 0.14
11 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTAAATT
Found at i:30862690 original size:15 final size:15
Alignment explanation
Indices: 30862643--30862690 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
30862633 ATATTAAATA
*
30862643 TTAAATTTTTAAGTTT
1 TTAATTTTTTAA-TTT
*
30862659 TAAATTTTTTAATTT
1 TTAATTTTTTAATTT
30862674 TTAATTTTTTAATTT
1 TTAATTTTTTAATTT
30862689 TT
1 TT
30862691 TTAAAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAATTTTTTAATTT
Found at i:30862960 original size:15 final size:14
Alignment explanation
Indices: 30862940--30862988 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
30862930 TTAAAAGTTA
30862940 GTTTTAGGGTTTGGG
1 GTTTTAGGG-TTGGG
*
30862955 GTTTTAGGATTGGG
1 GTTTTAGGGTTGGG
* *
30862969 GTTTAAGGGTTGGA
1 GTTTTAGGGTTGGG
30862983 GTTTTA
1 GTTTTA
30862989 AAGGTTTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (14 bp):
GTTTTAGGGTTGGG
Done.