Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 291 of 410
Found at i:89596475 original size:2 final size:2
Alignment explanation
Indices: 89596468--89596513 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
89596458 TGGTTACACC
89596468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89596510 AT AT
1 AT AT
89596514 TCTTTCTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89598593 original size:17 final size:17
Alignment explanation
Indices: 89598571--89598603 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
89598561 TTTGTGGTAC
89598571 GATGATAGCGAAGAAGT
1 GATGATAGCGAAGAAGT
89598588 GATGATAGCGAAGAAG
1 GATGATAGCGAAGAAG
89598604 GTTGTTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.36, T:0.15
Consensus pattern (17 bp):
GATGATAGCGAAGAAGT
Found at i:89603689 original size:6 final size:6
Alignment explanation
Indices: 89603671--89603701 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
89603661 ATTGTGAAAT
*
89603671 GGCTGG GGATGG GGCTGG GGCTGG GGCTGG G
1 GGCTGG GGCTGG GGCTGG GGCTGG GGCTGG G
89603702 ATATTAGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.13, G:0.68, T:0.16
Consensus pattern (6 bp):
GGCTGG
Found at i:89604118 original size:21 final size:20
Alignment explanation
Indices: 89604082--89604136 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
89604072 TAGATATATA
* *
89604082 AAAAAATCATAGAAAATTAT
1 AAAAAATCATAAAAAAGTAT
*
89604102 TAAAAATCATTAAAAAAGTAT
1 AAAAAATCA-TAAAAAAGTAT
*
89604123 AAAAAATAATAAAA
1 AAAAAATCATAAAA
89604137 TTGTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAAAATCATAAAAAAGTAT
Found at i:89608790 original size:43 final size:43
Alignment explanation
Indices: 89608731--89608835 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
89608721 CCATGATATG
* *
89608731 GTCTTACATGTTATCACAT-ATCGATGCCATTGTCCCAGACAGA
1 GTCTTACATGTAATCACATAAT-GATGCCAATGTCCCAGACAGA
* *
89608774 GTCTTATATGTAATCACATAATGATGCCAATGTCCCAGAAATG-
1 GTCTTACATGTAATCACATAATGATGCCAATGTCCCAGACA-GA
**
89608817 GTCTTACACATAATCACAT
1 GTCTTACATGTAATCACAT
89608836 CTCATTAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 50 0.94
44 3 0.06
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
GTCTTACATGTAATCACATAATGATGCCAATGTCCCAGACAGA
Found at i:89613929 original size:54 final size:54
Alignment explanation
Indices: 89613870--89613979 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
89613860 CATGGCTGCG
*
89613870 AGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACC
* * * *
89613924 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACC
89613978 AG
1 AG
89613980 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACC
Found at i:89613930 original size:27 final size:26
Alignment explanation
Indices: 89613870--89613979 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
89613860 CATGGCTGCG
* *
89613870 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
89613896 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
89613924 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
89613951 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
89613978 AG
1 AG
89613980 GATGCTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.04
27 56 0.74
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:89618259 original size:46 final size:44
Alignment explanation
Indices: 89618080--89618288 Score: 156
Period size: 46 Copynumber: 4.5 Consensus size: 44
89618070 ATTGTGAGCT
* * * *
89618080 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTACA-GATG-TAGTC
* * * **
89618126 AGTGTAAGACCATGTCTGGGACATATC-TTCGACTTTCA-AACTAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATT-GGC-TACAGATGTAGT-C
* * *
89618173 TAGTGTAAAACATGTCTAGGACATGCATCGGCCT-CAAGATGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATTGG-CTAC-AGATGT-AGTC
*
89618220 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGT-GTT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTAC-AGATGTAGTC
89618264 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
89618289 ACATCGGCAC
Statistics
Matches: 130, Mismatches: 20, Indels: 27
0.73 0.11 0.15
Matches are distributed among these distances:
44 11 0.08
45 18 0.14
46 49 0.38
47 36 0.28
48 14 0.11
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTACAGATGTAGTC
Found at i:89618773 original size:26 final size:26
Alignment explanation
Indices: 89618744--89618853 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
89618734 TGGTACAAAT
89618744 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
89618770 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
89618796 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
89618822 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTTCA
89618848 TGATAA
1 TGATAA
89618854 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.01
26 76 0.96
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:89623034 original size:60 final size:59
Alignment explanation
Indices: 89622938--89623121 Score: 198
Period size: 60 Copynumber: 3.1 Consensus size: 59
89622928 ACACCTCTTC
* * *
89622938 TTACACTTCGGTGCCTCTT-CTTACACTTTGGTGTCTCTGTTTGCACTTTGATGCCTTTGT
1 TTACACTTCAGTGCCT-TTGCTTACACTTTGGTGTCTCTGTTT-CACTTCGATGCCTTTAT
* * *
89622998 TTGCACTTCAGTGCCTTTGCTTACACTTTGGTGTCTCTAATTTCACTTCGGTGCCTTTAT
1 TTACACTTCAGTGCCTTTGCTTACACTTTGGTGTCTCT-GTTTCACTTCGATGCCTTTAT
* * *
89623058 TTACACTT-TGATGCCTCTGCTTACACTTTGGTGTCTCTG--ACACTTC-AGTGCCTTTAT
1 TTACACTTCAG-TGCCTTTGCTTACACTTTGGTGTCTCTGTTTCACTTCGA-TGCCTTTAT
*
89623115 TTGCACT
1 TTACACT
89623122 AAGGTGCCTC
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
57 21 0.20
59 3 0.03
60 80 0.75
61 3 0.03
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (59 bp):
TTACACTTCAGTGCCTTTGCTTACACTTTGGTGTCTCTGTTTCACTTCGATGCCTTTAT
Found at i:89623096 original size:20 final size:20
Alignment explanation
Indices: 89622931--89623096 Score: 125
Period size: 20 Copynumber: 8.3 Consensus size: 20
89622921 ATCTGCTACA
* *
89622931 CCTCTTCTTACACTTCGGTG
1 CCTCTGCTTACACTTTGGTG
*
89622951 CCTCTTCTTACACTTTGGTG
1 CCTCTGCTTACACTTTGGTG
* * * *
89622971 TCTCTGTTTGCACTTTGATG
1 CCTCTGCTTACACTTTGGTG
* * * **
89622991 CCTTTGTTTGCACTTCAGTG
1 CCTCTGCTTACACTTTGGTG
*
89623011 CCTTTGCTTACACTTTGGTG
1 CCTCTGCTTACACTTTGGTG
* ** * *
89623031 TCTCTAATTTCACTTCGGTG
1 CCTCTGCTTACACTTTGGTG
* ** *
89623051 CCTTTATTTACACTTTGATG
1 CCTCTGCTTACACTTTGGTG
89623071 CCTCTGCTTACACTTTGGTG
1 CCTCTGCTTACACTTTGGTG
*
89623091 TCTCTG
1 CCTCTG
89623097 ACACTTCAGT
Statistics
Matches: 114, Mismatches: 32, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 114 1.00
ACGTcount: A:0.11, C:0.27, G:0.17, T:0.45
Consensus pattern (20 bp):
CCTCTGCTTACACTTTGGTG
Found at i:89623532 original size:23 final size:23
Alignment explanation
Indices: 89623506--89623551 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
89623496 ATTTAACTAA
*
89623506 GAACTTTCTAAGCTATATAAGCT
1 GAACTTACTAAGCTATATAAGCT
89623529 GAACTTACTAAGCTATATAAGCT
1 GAACTTACTAAGCTATATAAGCT
89623552 TACTCCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
GAACTTACTAAGCTATATAAGCT
Found at i:89626289 original size:11 final size:11
Alignment explanation
Indices: 89626253--89626294 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
89626243 TAAATATTAC
89626253 TTTATTAATAT
1 TTTATTAATAT
*
89626264 TTTAATGAGATAT
1 TTT-ATTA-ATAT
89626277 TTTATTAATAT
1 TTTATTAATAT
89626288 TTTATTA
1 TTTATTA
89626295 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:89630054 original size:69 final size:67
Alignment explanation
Indices: 89629933--89630064 Score: 160
Period size: 69 Copynumber: 1.9 Consensus size: 67
89629923 ATAAACAATA
* ** *
89629933 TAATGGTTTTGCCTTTTAACTTAATGAGTAAACATTTATCAAAGCAACGTAG-TTCGCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTCGCCTTTTAA
89629997 CT
66 CT
* *
89629999 TAATGGTTTTGACTTTTAACTTTAGAAAATGTAAACATTTATCAAAATAGA-GTAGTTTTGCCTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACA-ACGTAGTTTCGCCTT
89630063 TT
62 TT
89630065 TCTTATTCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 19 0.35
67 3 0.05
68 2 0.04
69 21 0.38
70 10 0.18
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTCGCCTTTTAA
CT
Found at i:89636061 original size:14 final size:14
Alignment explanation
Indices: 89636042--89636068 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89636032 TCAATAACAT
89636042 AAAAAAAAAAAGAG
1 AAAAAAAAAAAGAG
89636056 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
89636069 AACAAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAG
Found at i:89646917 original size:37 final size:37
Alignment explanation
Indices: 89646853--89647183 Score: 486
Period size: 37 Copynumber: 8.9 Consensus size: 37
89646843 AGCTCAGATG
* * **
89646853 AAATCTCCACACGAAGTTATTTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89646890 AAATCTCCACATGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89646927 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89646964 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89647001 TAAA-CTCCACACGTAATCATCTGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89647038 AAATCTCCACATGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89647075 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89647112 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
89647149 TAAA-CTCCACACGTAATCATCTGGTCTTACCCGGA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
89647184 ATATATTTCC
Statistics
Matches: 269, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
36 3 0.01
37 262 0.97
38 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89647384 original size:48 final size:48
Alignment explanation
Indices: 89647325--89647746 Score: 763
Period size: 48 Copynumber: 8.8 Consensus size: 48
89647315 TATACACACG
* * * *
89647325 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89647373 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
89647421 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89647469 TCTCATTCATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89647517 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89647565 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89647613 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89647661 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89647709 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
89647747 TATTTCACAT
Statistics
Matches: 362, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 362 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:89647758 original size:29 final size:29
Alignment explanation
Indices: 89647716--89647775 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
89647706 ATATCTCATA
*
89647716 CATATTTCACATTAGCCATTCGGCTTTAC
1 CATATTTCACATTAGCCATTCGACTTTAC
89647745 CATATTTCACATTAGCCATTCGACTTTAC
1 CATATTTCACATTAGCCATTCGACTTTAC
89647774 CA
1 CA
89647776 CATATACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (29 bp):
CATATTTCACATTAGCCATTCGACTTTAC
Found at i:89647772 original size:125 final size:125
Alignment explanation
Indices: 89647620--89647871 Score: 477
Period size: 125 Copynumber: 2.0 Consensus size: 125
89647610 CTATCTCATA
* *
89647620 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
1 CATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAACC
89647685 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
*
89647745 CATATTTCACATTAGCCATTCGACTTTACCACATATACCTATCTCATACATATTTCACATTAACC
1 CATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAACC
89647810 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
89647870 CA
1 CA
89647872 CATATACCTA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (125 bp):
CATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAACC
ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
Found at i:89647801 original size:48 final size:48
Alignment explanation
Indices: 89647745--89648169 Score: 762
Period size: 48 Copynumber: 8.9 Consensus size: 48
89647735 TCGGCTTTAC
* *
89647745 CATATTTCACATTAGCCATTCGACTTTACCACATATACCTATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
89647793 CATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
89647841 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
89647889 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
89647937 CATATTTCACATTAGCC-TTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
89647984 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
89648032 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
* *
89648080 CATATTTCACATTAACCATTCGACTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
89648128 CATATTTCACATTAGCCATTCGGTTTTACCACATATACATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
89648170 ATTTATCTTG
Statistics
Matches: 362, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
47 46 0.13
48 316 0.87
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:89647861 original size:173 final size:173
Alignment explanation
Indices: 89647572--89648110 Score: 844
Period size: 173 Copynumber: 3.0 Consensus size: 173
89647562 ATATCTCATA
89647572 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAGCC
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAGCC
89647637 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
89647702 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
131 ATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
* *
89647745 CATATTTCACATTAGCCATTCGACTTTACCACATATACCTATCTCATACATATTTCACATTAACC
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAGCC
89647810 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
89647875 ATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
131 ATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTA-C
** *
89647919 ACATATACTTATCTCATACATATTTCACATTAGCCTTCGGCTTTACCACATATACATATCTCATA
1 -C--ATA--T-T-TC--ACAT-TAGC-C---A---TTCGGCTTTACCACATATACCTATCTCATA
89647984 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
49 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
* *
89648049 ATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAACCATTCGACTTTAC
114 ATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
89648109 CA
1 CA
89648111 CATATACATA
Statistics
Matches: 338, Mismatches: 10, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
173 169 0.50
174 1 0.00
175 1 0.00
177 3 0.01
179 1 0.00
180 1 0.00
181 2 0.01
183 4 0.01
184 2 0.01
185 1 0.00
187 1 0.00
188 1 0.00
189 1 0.00
190 1 0.00
191 149 0.44
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (173 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTCACATTAGCC
ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
ATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
Found at i:89647981 original size:191 final size:192
Alignment explanation
Indices: 89647745--89648169 Score: 780
Period size: 191 Copynumber: 2.2 Consensus size: 192
89647735 TCGGCTTTAC
* *
89647745 CATATTTCACATTAGCCATTCGACTTTACCACATATACCTATCTCATACATATTTCACATTAACC
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAACC
89647810 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
* * *
89647875 ATACCTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATA
131 ATACCTATCTCATACATATTTCACATTAACCATTCGACTTTACCACATATACATATCTCATA
*
89647937 CATATTTCACATTAGCC-TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAACC
89648001 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
66 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
89648066 ATACCTATCTCATACATATTTCACATTAACCATTCGACTTTACCACATATACATATCTCATA
131 ATACCTATCTCATACATATTTCACATTAACCATTCGACTTTACCACATATACATATCTCATA
*
89648128 CATATTTCACATTAGCCATTCGGTTTTACCACATATACATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
89648170 ATTTATCTTG
Statistics
Matches: 225, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
191 185 0.82
192 40 0.18
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (192 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAACC
ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
ATACCTATCTCATACATATTTCACATTAACCATTCGACTTTACCACATATACATATCTCATA
Found at i:89651827 original size:40 final size:40
Alignment explanation
Indices: 89651757--89651975 Score: 294
Period size: 42 Copynumber: 5.3 Consensus size: 40
89651747 AGGCACGAAG
* * * *
89651757 GCCCGAATATACATCACCAGCATGATTGCTCTTCGGGACCTA
1 GCCCGGATATA-A-CACCAGCACGAATGCTCTTCGGGACTTA
89651799 GCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTA
* *
89651839 GCCCGGCTATATATCACTAGCACGAATGCTCTTCGGGACTTA
1 GCCCGG--ATATAACACCAGCACGAATGCTCTTCGGGACTTA
* *
89651881 GACCGAATATAACACCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTA
* *
89651921 GCCCGGCTATATATCACTAGCACGAATGCTCTTCGGGACTTA
1 GCCCGG--ATATAACACCAGCACGAATGCTCTTCGGGACTTA
89651963 GCCCGGATATAAC
1 GCCCGGATATAAC
89651976 TCTCAATTCT
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
40 73 0.46
41 1 0.01
42 84 0.53
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTA
Found at i:89651864 original size:42 final size:41
Alignment explanation
Indices: 89651764--89651973 Score: 291
Period size: 40 Copynumber: 5.1 Consensus size: 41
89651754 AAGGCCCGAA
* * * *
89651764 TATACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGG
1 TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
*
89651805 -ATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
* *
89651845 CTATATATCACTAGCACGAATGCTCTTCGGGACTTAGACC-G
1 -TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
* *
89651886 AATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
*
89651927 CTATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 -TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
89651969 -ATATA
1 TATATA
89651974 ACTCTCAATT
Statistics
Matches: 150, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
40 75 0.50
41 2 0.01
42 73 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
TATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
Found at i:89651872 original size:82 final size:82
Alignment explanation
Indices: 89651764--89651975 Score: 361
Period size: 82 Copynumber: 2.6 Consensus size: 82
89651754 AAGGCCCGAA
* * * * *
89651764 TATACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCT
89651829 TCGGGACTTAGCCCGGC
66 TCGGGACTTAGCCCGGC
* *
89651846 TATATATCACTAGCACGAATGCTCTTCGGGACTTAGACCGAATATAACACCAGCACGAATGCTCT
1 TATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCT
89651911 TCGGGACTTAGCCCGGC
66 TCGGGACTTAGCCCGGC
89651928 TATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAAC
1 TATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAAC
89651976 TCTCAATTCT
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 121 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (82 bp):
TATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCT
TCGGGACTTAGCCCGGC
Found at i:89653307 original size:37 final size:37
Alignment explanation
Indices: 89653245--89653426 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 37
89653235 GCTCAGATGA
* * * *
89653245 AATCTCCACACGAAGTTATCTGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
89653282 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
89653319 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
89653356 AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
89653393 AATCTCCACACGTAATCATCTGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
89653427 ATATATTTCC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 137 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:89653627 original size:48 final size:48
Alignment explanation
Indices: 89653568--89654239 Score: 1166
Period size: 48 Copynumber: 14.0 Consensus size: 48
89653558 TATACACACG
* * * * *
89653568 TCTCCTACATATTTCACACTAGCCCTTCGGTTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653616 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* * * *
89653664 TCTCATATATATTTCACATTAGCCATACGGCTTTATCATATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89653712 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89653760 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653808 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653856 TCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACA-A
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653903 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653951 TCTCATAGATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89653999 TCTCATACATATTTCACATTAGCCCTTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89654047 TCTCATACATATTTCACATTAGCCCTTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89654095 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89654143 TCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
89654191 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
89654239 T
1 T
89654240 ATTTATCTTG
Statistics
Matches: 595, Mismatches: 28, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
47 45 0.08
48 550 0.92
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:89660209 original size:2 final size:2
Alignment explanation
Indices: 89660202--89660229 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89660192 ATCCATTACT
89660202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89660230 AAAGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89669600 original size:46 final size:45
Alignment explanation
Indices: 89669533--89669699 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 45
89669523 AACTTGATGT
* * * *
89669533 CATAGTGTCTTTCAACCATGGTCTTATTGATTTTCTGTTGTGAAGC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTGTA-C
* * * *
89669579 CACAATGTTTTTCAACTATGGTCCTATTCATTTTCTGTCGTGTTAC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTG-TAC
* *
89669625 CATAATGTCTTTCAACTATAGTCTTATTCATTTTCCGTCATGT-TAC
1 CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGT--TGTGTAC
*
89669671 CATAGTGTCTTTCAACTATGGTCTTATTC
1 CATAATGTCTTTCAACTATGGTCTTATTC
89669700 GTTTGAGTCG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 99 0.97
47 1 0.01
48 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (45 bp):
CATAATGTCTTTCAACTATGGTCTTATTCATTTTCTGTTGTGTAC
Found at i:89669735 original size:45 final size:44
Alignment explanation
Indices: 89669678--89669835 Score: 181
Period size: 45 Copynumber: 3.5 Consensus size: 44
89669668 TACCATAGTG
* * * * *
89669678 TCTTTCAACTATGGTCTTATTCGTTTGAGTCGTGATGACATAACA
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGAT-ACATAACA
* * * *
89669723 TCTTTTAGCTATGGTCTTACTTGATAGAATCGTAATCCCATAACA
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGAT-ACATAACA
* *
89669768 TCTTTCAGCTATGTTCTTACTCGATAGAATCGTGATACCATAACG
1 TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATA-CATAACA
*
89669813 TCTTTCAACTATGGTCTTACTCG
1 TCTTTCAGCTATGGTCTTACTCG
89669836 TTTCTGGGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (44 bp):
TCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATACATAACA
Found at i:89671614 original size:2 final size:2
Alignment explanation
Indices: 89671607--89671638 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89671597 TTAACCTTGA
*
89671607 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89671639 TTATGCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89680394 original size:43 final size:42
Alignment explanation
Indices: 89680331--89680449 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
89680321 TCGTACAATG
*** ** *
89680331 CCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAGACAAGGTCTTACATAAAATCAAATAT-GATA
** *
89680374 CCATTGTCCCAGACAAGGTCTTACACAAAATCAAATATGATA
1 CCAACGTCCCAGACAAGGTCTTACATAAAATCAAATATGATA
**
89680416 CCAACGTCCCAGACGTGGTCTTACATATAAATCA
1 CCAACGTCCCAGACAAGGTCTTACATA-AAATCA
89680450 TAAGGCAATG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 25 0.41
43 36 0.59
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (42 bp):
CCAACGTCCCAGACAAGGTCTTACATAAAATCAAATATGATA
Found at i:89681379 original size:11 final size:11
Alignment explanation
Indices: 89681347--89681371 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89681337 TAACCTTATT
89681347 AATATCATTAA
1 AATATCATTAA
89681358 AATATCATTAA
1 AATATCATTAA
89681369 AAT
1 AAT
89681372 TCCATTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATCATTAA
Found at i:89685790 original size:40 final size:40
Alignment explanation
Indices: 89685726--89685893 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
89685716 ACCTCCGGAT
** *
89685726 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* * * *
89685765 TTAACCCGGATTTAGTGACTTGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* *
89685805 TTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCAC-AATTGCCTTCGGGTC
* * * * *
89685845 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
*
89685885 TTAGCCCGG
1 TTAACCCGG
89685894 GTATCATTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 6 0.06
40 101 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
Found at i:89685877 original size:80 final size:80
Alignment explanation
Indices: 89685726--89685893 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
89685716 ACCTCCGGAT
* * * * *
89685726 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTAGTGACTTGCAC
1 TTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCAC
* *
89685790 AATTGCCTTCGGGTC
66 AAATGCCTTCGGGAC
** *
89685805 TTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
1 TTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCA
*
89685869 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
*
89685885 TTAGCCCGG
1 TTAACCCGG
89685894 GTATCATTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 4 0.05
80 69 0.92
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCAC
AAATGCCTTCGGGAC
Found at i:89693910 original size:40 final size:40
Alignment explanation
Indices: 89693846--89694013 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
89693836 ACCTCCGGAT
** *
89693846 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* * *
89693885 TTAACCCGGATTTAGTAACTTGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* *
89693925 TTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCAC-AATTGCCTTCGGGTC
* * * * *
89693965 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
*
89694005 TTAGCCCGG
1 TTAACCCGG
89694014 GTATCATTCA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.05
40 102 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
Found at i:89723180 original size:43 final size:42
Alignment explanation
Indices: 89723063--89723217 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 42
89723053 TCGTACAATG
* * *
89723063 CCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATCAAT
1 CCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CGAT
* * * *
89723105 GCAATTGTCCTAGATAG-GGTCTTACACG-AAATCAAATACGAT
1 CCAA-CGTCCCAGA-CGTGGTCTTACACGTAAATCAAATACGAT
89723147 ACCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CGAT
1 -CCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TACGAT
* *
89723191 GCCAACATCCTAGACGTGGTCTTACAC
1 -CCAACGTCCCAGACGTGGTCTTACAC
89723218 AATAACACAT
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 35 0.38
44 31 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACGAT
Found at i:89723207 original size:44 final size:42
Alignment explanation
Indices: 89723122--89723217 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 42
89723112 TCCTAGATAG
*
89723122 GGTCTTACACGAAATCAAATACGATACCAACGTCCCAGACGT
1 GGTCTTACACGAAATCAAATACGATACCAACATCCCAGACGT
* *
89723164 GGTCTTACACGTAAATCATAAGT-CGATGCCAACATCCTAGACGT
1 GGTCTTACACG-AAATCA-AA-TACGATACCAACATCCCAGACGT
89723208 GGTCTTACAC
1 GGTCTTACAC
89723218 AATAACACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
42 11 0.23
43 6 0.12
44 30 0.62
45 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATACCAACATCCCAGACGT
Found at i:89730498 original size:46 final size:45
Alignment explanation
Indices: 89730405--89730490 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
89730395 TACATTTCAC
* *
89730405 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
89730451 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
89730491 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:89737248 original size:16 final size:16
Alignment explanation
Indices: 89737227--89737261 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89737217 AGTTAAAAAT
*
89737227 TATTTAAATTATATAA
1 TATTTAAATAATATAA
*
89737243 TATTTAAATAATTTAA
1 TATTTAAATAATATAA
89737259 TAT
1 TAT
89737262 AATGATACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTAAATAATATAA
Found at i:89750748 original size:2 final size:2
Alignment explanation
Indices: 89750741--89750769 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89750731 AACTATTGCT
89750741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89750770 CTAGGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89757052 original size:17 final size:17
Alignment explanation
Indices: 89757030--89757074 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
89757020 ATTAATAATT
*
89757030 TAAAATTTATATTTGCA
1 TAAAATTTATATTTCCA
*
89757047 TAAAATTTACATTTCCA
1 TAAAATTTATATTTCCA
89757064 TAAAAATTTAT
1 T-AAAATTTAT
89757075 TTATATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATTTCCA
Found at i:89757182 original size:11 final size:11
Alignment explanation
Indices: 89757166--89757226 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
89757156 AATAGTTTCA
89757166 TAAAATATAAT
1 TAAAATATAAT
89757177 TAAAATAT-AT
1 TAAAATATAAT
*
89757187 TAACATGA-AAT
1 TAAAAT-ATAAT
*
89757198 TTAAATATAAT
1 TAAAATATAAT
* *
89757209 TCAATATATAAA
1 T-AAAATATAAT
89757221 TAAAAT
1 TAAAAT
89757227 TTAAAACATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 8 0.21
11 23 0.59
12 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (11 bp):
TAAAATATAAT
Found at i:89757227 original size:29 final size:32
Alignment explanation
Indices: 89757168--89757231 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
89757158 TAGTTTCATA
*
89757168 AAATATAATTAAAATATATTAACATGAAATTT
1 AAATATAATTAAAATATATTAACATAAAATTT
*
89757200 AAATATAATT-CAATATA-TAA-ATAAAATTT
1 AAATATAATTAAAATATATTAACATAAAATTT
89757229 AAA
1 AAA
89757232 ACATTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 3 0.10
31 6 0.20
32 10 0.33
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (32 bp):
AAATATAATTAAAATATATTAACATAAAATTT
Found at i:89757598 original size:23 final size:22
Alignment explanation
Indices: 89757572--89757622 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
89757562 CCAAGTCTGT
89757572 AAATATAAAATAAAAATATTTAC
1 AAATATAAAATAAAAATA-TTAC
* * *
89757595 AAATTTAATATAAAAATATTAT
1 AAATATAAAATAAAAATATTAC
89757617 AAATAT
1 AAATAT
89757623 CGGTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATAAAATAAAAATATTAC
Found at i:89757851 original size:27 final size:28
Alignment explanation
Indices: 89757816--89757875 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
89757806 TTAAGTTAAT
89757816 ATTATAATT-ATATATATAATTGTCTTA
1 ATTATAATTAATATATATAATTGTCTTA
*
89757843 ATTATAATTAAATATCTATAATTGTCTTA
1 ATTATAATT-AATATATATAATTGTCTTA
89757872 ATTA
1 ATTA
89757876 AGTTAATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.30
29 21 0.70
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTATAATTAATATATATAATTGTCTTA
Found at i:89757995 original size:36 final size:35
Alignment explanation
Indices: 89757955--89758035 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 35
89757945 TTGAGCCCGT
89757955 AAATATA-AAATAGGAATATTTACGGAGTTAAAATAA
1 AAATATATAAATA--AATATTTACGGAGTTAAAATAA
*
89757991 AAATATATTGAAGTAAATATTTACGGAGTTAAAATAA
1 AAATATA-T-AAATAAATATTTACGGAGTTAAAATAA
89758028 AAATATAT
1 AAATATAT
89758036 TGAAGTACGG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
36 8 0.20
37 29 0.71
39 4 0.10
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.31
Consensus pattern (35 bp):
AAATATATAAATAAATATTTACGGAGTTAAAATAA
Found at i:89758012 original size:37 final size:37
Alignment explanation
Indices: 89757969--89758042 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
89757959 ATAAAATAGG
89757969 AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
1 AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
89758006 AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
1 AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
89758043 CGGTCGAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (37 bp):
AATATTTACGGAGTTAAAATAAAAATATATTGAAGTA
Found at i:89760977 original size:21 final size:21
Alignment explanation
Indices: 89760948--89760987 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89760938 CAATGCAAGT
* *
89760948 AAGGGCACAAGCTCGTGTGGA
1 AAGGCCACAAGCCCGTGTGGA
*
89760969 AAGGCCACACGCCCGTGTG
1 AAGGCCACAAGCCCGTGTG
89760988 TCCTCTTAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AAGGCCACAAGCCCGTGTGGA
Found at i:89762314 original size:50 final size:50
Alignment explanation
Indices: 89762236--89762516 Score: 347
Period size: 50 Copynumber: 5.7 Consensus size: 50
89762226 AAGATGCCGA
* * *
89762236 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATTGG
1 TGCCGATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGG
* *
89762286 TGTCGATGCCATGTCCCAAGCATGGTCTTACGCTAGCTCAT-ATATATCGG
1 TGCCGATGCCATGTCCCAAGCATGGTCTTACACTAGCTC-TCATATATCGG
* * *
89762336 TGTCAATGCCATGTCCC-AGACATGGTCTTACACTAGCTCTCATATATCAG
1 TGCCGATGCCATGTCCCAAG-CATGGTCTTACACTAGCTCTCATATATCGG
* * * *
89762386 TCCCGAAGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATATATCGG
1 TGCCGATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGG
* *
89762436 TGCCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTTTCAT-TA-CGA
1 TGCCGATGCCATGTCCCAAG-CATGGTCTTACACTAGCTCTCATATATCGG
* * *
89762484 TGCCGATGCCATGTTCCAAACATGGTTTTACAC
1 TGCCGATGCCATGTCCCAAGCATGGTCTTACAC
89762517 CGACTCACAT
Statistics
Matches: 201, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
48 30 0.15
49 7 0.03
50 162 0.81
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAAGCATGGTCTTACACTAGCTCTCATATATCGG
Found at i:89762659 original size:19 final size:20
Alignment explanation
Indices: 89762632--89762670 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
89762622 AAAATCACAC
*
89762632 ATTCCATAC-AATAACAATT
1 ATTCAATACAAATAACAATT
89762651 ATTCAATACATAATAACAAT
1 ATTCAATACA-AATAACAAT
89762671 AGAATGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTCAATACAAATAACAATT
Found at i:89764158 original size:6 final size:6
Alignment explanation
Indices: 89764147--89764180 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
89764137 CAAATGGATT
* *
89764147 ATTTCC ATTTCC ATTTTC ATTTCT ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
89764181 TTGGAAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:89764174 original size:18 final size:18
Alignment explanation
Indices: 89764147--89764181 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89764137 CAAATGGATT
89764147 ATTTCCATTTCCATTTTC
1 ATTTCCATTTCCATTTTC
*
89764165 ATTTCTATTTCCATTTT
1 ATTTCCATTTCCATTTT
89764182 TGGAAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:89767202 original size:69 final size:69
Alignment explanation
Indices: 89767116--89767253 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
89767106 GACTTGAGTG
*
89767116 GTAAATGTACAATTTAAAG-ATTAAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATT
1 GTAAATATACAATTTAAAGAATT-AGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATT
89767180 AATGA
65 AATGA
*
89767185 GTAAATATACAATTTAAAGAATTAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTATTGATTA
1 GTAAATATACAATTTAAAGAATTAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
89767250 ATGA
66 ATGA
89767254 TAAGGGTAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 63 0.95
70 3 0.05
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (69 bp):
GTAAATATACAATTTAAAGAATTAGTGGATGTTCATGGGCTTGGTTTTATTGAAATTACTGATTA
ATGA
Found at i:89771077 original size:46 final size:46
Alignment explanation
Indices: 89771025--89771400 Score: 414
Period size: 46 Copynumber: 8.0 Consensus size: 46
89771015 GTGCTCTCTT
* *
89771025 ATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
89771071 ATATGAAATATGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
89771117 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
89771163 ATATGAAATATGTAAGACCATGGTTGAAAGATACCATGACAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * **
89771209 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * *
89771255 ACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACGTG
1 ATATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * **
89771305 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * *
89771351 ACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCAACATG
89771401 TCAAAATAAA
Statistics
Matches: 282, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.01
46 212 0.75
50 67 0.24
51 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:89771182 original size:92 final size:94
Alignment explanation
Indices: 89771037--89771395 Score: 487
Period size: 92 Copynumber: 3.8 Consensus size: 94
89771027 ATGAAATGTG
* * *
89771037 TAAGACCATGATTGAAAGATACCATGGCAACCTGATATG-AAAT-AT-GTAAGACCATAGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAATAGTAAGACCATAGTTGAA
* * * * **
89771099 AGATACCATGGCAACCTGATATGAAATGTG
65 AGACACCATGGCAACGTGACATGAAAAGAA
* *
89771129 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAAT-AT-GTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAATAGTAAGACCATAGTTGAA
* *
89771191 AGATACCATGACAACGTGACATGAAAAGAA
65 AGACACCATGGCAACGTGACATGAAAAGAA
89771221 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATGAGTAAGACCATAGTTGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT-AAT-AGTAAGACCATAGTTGA
*
89771286 AAGACACTATGGCAACGTGACATGAAAAGAA
64 AAGACACCATGGCAACGTGACATGAAAAGAA
89771317 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATGAGTAAGACCATAGTTGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT-AAT-AGTAAGACCATAGTTGA
*
89771382 AAGACACTATGGCA
64 AAGACACCATGGCA
89771396 TCATGTCAAA
Statistics
Matches: 248, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
91 1 0.00
92 123 0.50
94 2 0.01
96 122 0.49
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (94 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAATAGTAAGACCATAGTTGAAA
GACACCATGGCAACGTGACATGAAAAGAA
Found at i:89771700 original size:23 final size:25
Alignment explanation
Indices: 89771655--89771701 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
89771645 AATAAATATA
*
89771655 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
89771680 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
89771702 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:89777252 original size:502 final size:497
Alignment explanation
Indices: 89776309--89777303 Score: 1469
Period size: 502 Copynumber: 2.0 Consensus size: 497
89776299 ATAACCACGG
** * *
89776309 TTATCCTAGTGGCACCTAAGGTTATACTGTAAACTAAATAATTTCCCATCAATATACTATTTAGT
1 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
** * *
89776374 CAATTCTCAATCGAAAAATAACGATTGGTGGGTACTTGATAGACAAGTGTCTCTAGCGGATAATC
66 CAATTCTCAATCGAAAAATAACGATTGGAAGGTACTTGATAGACAAGTGTCTCTAACGGACAATC
* *
89776439 AATCTTTCAGGATAACAAAGGGTTTTAGAAAAAAAAACATGTCAAAAACCGACAGGTGTCAAAAA
131 AATCTTTCAGGATAACAAAGGGTTTCAG-AAAAAAAACATGTCAAAAACAGACAGGTGTCAAAAA
* *
89776504 TAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTTCCCTTAGACATTTAACT
195 TAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTGCCCTTAGACATTTAACA
* * *
89776569 ATTTAAATCAAGATGTAGAGATAGGTAATCCTTTCATCTAAGATCCTCCTTTCCCCCTAAATTTT
260 ATGTAAATCAAGATGCAGAGATAGGTAATCCTTTCATCTAAGATCCTCCTTCCCCCCTAAATTTT
* *
89776634 CTTTATCGCTTAATCTTCTGCTTAGACCTTAAGTTTCCTTTTTCCTCTATTTTTCTTCTTTCAAT
325 CTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCCTTTTCCTCTATTTTTCTTCTTTCAAT
** * * *
89776699 TTTGTTATCAGAGCTTATTTTTCCCTTTTAGAATTAACCAACCCTAAGGTAAATCTTCTTTCTTC
390 TTCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATATTCTTTCTTC
89776764 CTTTCATGTTTCTTATTTCA-ATATCAACATGTCTAGGATAGTGA
455 CTTT-ATGTTTCTT-TTTCATATATCAACATGTCTAGGATAGTGA
*
89776808 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCTCATCAATATACTATTTAGT
1 TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
** * * *
89776873 TGATTCTCAATCGACAAATAACGATTGGAAGGTGCTTGATAGACAAGTGTCTCTAATGGACAATC
66 CAATTCTCAATCGAAAAATAACGATTGGAAGGTACTTGATAGACAAGTGTCTCTAACGGACAATC
* ** * ** *
89776938 -CTGCCTTTC-GAGATAACAAAGGGTTTCAG-AAAAAAATGTTTCTTAAACTAG-CAGGTGTTAA
131 AAT--CTTTCAG-GATAACAAAGGGTTTCAGAAAAAAAACATGTCAAAAAC-AGACAGGTGTCAA
* * * *
89776999 AAATAGATTTGAGGACTTGTACAATTTATTACAGATTTTAAATCCAAGCTGCCCTTAGACATTTA
192 AAATAGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTGCCCTTAGACATTTA
* *
89777064 ACAATGTAAATCGAGATGCAGAGATAGGTAATCCTTTCATCTAATATCCTCCTTCCCCCTCCCCT
257 ACAATGTAAATCAAGATGCAGAGATAGGTAATCCTTTCATCTAAGATCCTCCTT---CC-CCCCT
89777129 AAATTTTCTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCCTTTTCCTCTATTTTTCTTC
318 AAATTTTCTTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCCTTTTCCTCTATTTTTCTTC
*
89777194 TTTCAATTTCATTATCAGAGCTTATTTTTCCCTTTCAGCATTAACCAACCCCAAGGTAAATATTC
383 TTTCAATTTCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATATTC
*
89777259 TTTCTTCCTTTATGTTTCTTTTTTATATATCAACATGTCTAGGAT
448 TTTCTTCCTTTATGTTTCTTTTTCATATATCAACATGTCTAGGAT
89777304 CGCACCTATG
Statistics
Matches: 444, Mismatches: 43, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
498 133 0.30
499 118 0.27
500 26 0.06
501 29 0.07
502 138 0.31
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (497 bp):
TTATCCTAGTGGCACCTAACCTTATAATCTAAACTAAATAATTTCCCATCAATATACTATTTAGT
CAATTCTCAATCGAAAAATAACGATTGGAAGGTACTTGATAGACAAGTGTCTCTAACGGACAATC
AATCTTTCAGGATAACAAAGGGTTTCAGAAAAAAAACATGTCAAAAACAGACAGGTGTCAAAAAT
AGATTTGAGGACTTGAACAATTTATTAAAAATTTGAAATCCAAGCTGCCCTTAGACATTTAACAA
TGTAAATCAAGATGCAGAGATAGGTAATCCTTTCATCTAAGATCCTCCTTCCCCCCTAAATTTTC
TTTATCGCTTAATCTTCTACTTAGACCTTAAGTTTCCCTTTTCCTCTATTTTTCTTCTTTCAATT
TCATTATCAGAGCTTATTTTTCCCTTTCAGAATTAACCAACCCCAAGGTAAATATTCTTTCTTCC
TTTATGTTTCTTTTTCATATATCAACATGTCTAGGATAGTGA
Found at i:89796954 original size:49 final size:49
Alignment explanation
Indices: 89796788--89797012 Score: 272
Period size: 49 Copynumber: 4.5 Consensus size: 49
89796778 TGAGGTCGCA
* * * * * *
89796788 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
89796839 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
89796889 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
** *
89796938 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
89796987 TGTGTAGTATTATA-TGCAGGCTACTA
1 TGTGTAGTACTA-AGTGCAGGCTACTA
89797013 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 76 0.50
50 45 0.29
51 32 0.21
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:89796967 original size:99 final size:101
Alignment explanation
Indices: 89796788--89796969 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 101
89796778 TGAGGTCGCA
**
89796788 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTACAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
89796853 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * * *
89796889 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTACAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
89796952 TGCAGGCTACTACGTGTA
66 TGCAGGCTACTACGTGTA
89796970 CCGGATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 39 0.53
100 1 0.01
101 34 0.46
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTACAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:89799732 original size:2 final size:2
Alignment explanation
Indices: 89799694--89799724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89799684 ATTCATCTAC
89799694 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89799725 GCATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89802071 original size:26 final size:26
Alignment explanation
Indices: 89802032--89802115 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
89802022 TGATACAAAT
89802032 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
89802058 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89802084 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89802110 TGATAA
1 TGATAA
89802116 AAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89803776 original size:27 final size:27
Alignment explanation
Indices: 89803735--89803847 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
89803725 GAGGAAGCGT
*
89803735 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89803762 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89803789 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
89803817 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
89803843 TCTGG
1 TCTGG
89803848 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:89803840 original size:54 final size:54
Alignment explanation
Indices: 89803733--89803847 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
89803723 TGGAGGAAGC
*
89803733 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
89803787 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
89803841 GTTCTGG
1 GTTCTGG
89803848 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:89805724 original size:39 final size:39
Alignment explanation
Indices: 89805670--89805861 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
89805660 GAATGTTCGA
89805670 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
89805709 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
89805748 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
89805787 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * * **
89805826 GTGATACCCGGGTTAAGTCCCAAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
89805862 GGTTACCATA
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 125 0.89
40 15 0.11
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:89805877 original size:78 final size:78
Alignment explanation
Indices: 89805670--89805891 Score: 239
Period size: 78 Copynumber: 2.8 Consensus size: 78
89805660 GAATGTTCGA
* * * *** * *
89805670 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCAGGCTAAGCCCGAAGGC
1 GTGATACCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
89805735 AATTGTGCGAATT
66 AATTGTGCGAATT
* * * ** *
89805748 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATACCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
*
89805813 AATTGTGCGAGTT
66 AATTGTGCGAATT
* ** * *
89805826 GTGATACCCGGGTTAAGTCCCAAAGGCCTTTGTGCGGGTTACCATA-ACGGGCTATGTCCCGAAG
1 GTGATACCCGGGCTAAG-CCCAAAGGCAATTGTGCGAGTTACCATATACGGGCTAAG-CCCGAAG
89805890 GC
64 GC
89805892 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 95 0.75
79 31 0.25
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
GTGATACCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTACCATATACGGGCTAAGCCCGAAGGC
AATTGTGCGAATT
Found at i:89805878 original size:117 final size:118
Alignment explanation
Indices: 89805671--89805891 Score: 293
Period size: 117 Copynumber: 1.9 Consensus size: 118
89805661 AATGTTCGAG
* *
89805671 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCAGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCAGGCTAAGCCCAAAGGCA
*** *
89805736 ATTGTGCGAATTGTGATATCTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
66 ATTGTGCGAATTACCATAACTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
89805788 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCAAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCAGGCTAAG-CCCAAAGGC
** ** *
89805853 CTTTGTGCGGGTTACCATAAC-GGGCTATGTCCCGAAGGC
65 AATTGTGCGAATTACCATAACTGGGCTAAGTCCCGAAGGC
89805892 GTTTGAACGA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
117 58 0.66
118 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (118 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCAGGCTAAGCCCAAAGGCA
ATTGTGCGAATTACCATAACTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:89810909 original size:26 final size:26
Alignment explanation
Indices: 89810873--89810956 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
89810863 TGATACAAAT
89810873 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89810899 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89810925 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89810951 TGATAA
1 TGATAA
89810957 AATTTCATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89812668 original size:27 final size:27
Alignment explanation
Indices: 89812570--89812671 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 27
89812560 AAGCGTTCTA
* * *
89812570 GTGGCTATGCCACAAATATCTG-ATCTA
1 GTGGCTCTGCCAC-ATTATCTGTATCTG
89812597 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACAT-TATCTGTATCTG
89812624 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGTATCTG
* *
89812652 GTGACTCTGTCACATTATCT
1 GTGGCTCTGCCACATTATCT
89812672 ATTCTGGCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 48 0.73
28 17 0.26
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACATTATCTGTATCTG
Found at i:89812671 original size:54 final size:54
Alignment explanation
Indices: 89812564--89812678 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
89812554 TGGAGGAAGC
* *
89812564 GTTCTAGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* * * * *
89812618 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
*
89812672 ATTCTGG
1 GTTCTGG
89812679 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:89814005 original size:30 final size:30
Alignment explanation
Indices: 89813961--89814065 Score: 185
Period size: 30 Copynumber: 3.5 Consensus size: 30
89813951 TACATTGTAT
*
89813961 AAGGTATG-TATGTAATTGAAAATGATTAG
1 AAGGTATGATATGTAATTGGAAATGATTAG
89813990 AAGGTATGATATGTAATTGGAAATGATTAG
1 AAGGTATGATATGTAATTGGAAATGATTAG
*
89814020 AAGGTATGATATGTAATTGGAAATGATTAT
1 AAGGTATGATATGTAATTGGAAATGATTAG
89814050 AAGGTATGATATGTAA
1 AAGGTATGATATGTAA
89814066 CTATGAATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 8 0.11
30 65 0.89
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (30 bp):
AAGGTATGATATGTAATTGGAAATGATTAG
Found at i:89816522 original size:17 final size:18
Alignment explanation
Indices: 89816486--89816525 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
89816476 CCAATAAGTG
89816486 ACACGCTCATGTGGTCCC
1 ACACGCTCATGTGGTCCC
* *
89816504 ACACGCTCGTGT-TTCCC
1 ACACGCTCATGTGGTCCC
89816521 ACACG
1 ACACG
89816526 GCCACACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.40, G:0.20, T:0.23
Consensus pattern (18 bp):
ACACGCTCATGTGGTCCC
Found at i:89817183 original size:3 final size:3
Alignment explanation
Indices: 89817175--89817250 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
89817165 AAACAAATAT
* * * *
89817175 TTA TTA TTA TTA TATA ATA ATA ATA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
89817221 TTA TTA TTA TT- TTCA CTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T
89817251 GGAATAAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:89817857 original size:18 final size:18
Alignment explanation
Indices: 89817836--89817884 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
89817826 TTTCAAGATA
*
89817836 GAATTGAAAAAG-GGGATT
1 GAATTG-AAAAGTAGGATT
*
89817854 GAATTGTAAAGTAGGATT
1 GAATTGAAAAGTAGGATT
*
89817872 GAATTGTAAAGTA
1 GAATTGAAAAGTA
89817885 AGTTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (18 bp):
GAATTGAAAAGTAGGATT
Found at i:89818537 original size:21 final size:21
Alignment explanation
Indices: 89818511--89818592 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
89818501 CGGCTTTGCC
*
89818511 TATCAGGCACTTTATGTGTCA
1 TATCAGGCACCTTATGTGTCA
* * *
89818532 TATCAGACACCTTGTGTGTCG
1 TATCAGGCACCTTATGTGTCA
*
89818553 TAAT-AGGCACCTCATGTGTCA
1 T-ATCAGGCACCTTATGTGTCA
* * *
89818574 TTTTAGGCACTTTATGTGT
1 TATCAGGCACCTTATGTGT
89818593 TGTATACTGC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.94
22 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (21 bp):
TATCAGGCACCTTATGTGTCA
Found at i:89819454 original size:22 final size:22
Alignment explanation
Indices: 89819404--89819454 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
89819394 TATTTAAAGG
*
89819404 TGAA-TTGGATTGGTTTTGATT
1 TGAATTTGGATTGGTCTTGATT
***
89819425 TTTGTTTGGATTGGTCTTGATT
1 TGAATTTGGATTGGTCTTGATT
89819447 TGAATTTG
1 TGAATTTG
89819455 CAGGGAAGGT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.16, C:0.02, G:0.27, T:0.55
Consensus pattern (22 bp):
TGAATTTGGATTGGTCTTGATT
Found at i:89825826 original size:29 final size:30
Alignment explanation
Indices: 89825760--89825828 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
89825750 TAAATCTTCA
*
89825760 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAAGAAGAGAAAATAAAATTCAAAT
* *
89825790 AAAGATAAA-AATA-AAAATAAAATTCATAGT
1 AAA-ATAAAGAAGAGAAAATAAAATTCA-AAT
89825820 AAAATAAAG
1 AAAATAAAG
89825829 GGACTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 17 0.52
30 11 0.33
31 5 0.15
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (30 bp):
AAAATAAAGAAGAGAAAATAAAATTCAAAT
Found at i:89828304 original size:18 final size:18
Alignment explanation
Indices: 89828281--89828316 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89828271 CTCGAGAAGC
89828281 GCTATTTACCTTAAAAGT
1 GCTATTTACCTTAAAAGT
89828299 GCTATTTACCTTAAAAGT
1 GCTATTTACCTTAAAAGT
89828317 TTCGAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
GCTATTTACCTTAAAAGT
Found at i:89830941 original size:19 final size:19
Alignment explanation
Indices: 89830913--89830949 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
89830903 ACCTATCAGA
89830913 AGTAAATAAAATAAAATTT
1 AGTAAATAAAATAAAATTT
*
89830932 AGTAATTAAAATAAAATT
1 AGTAAATAAAATAAAATT
89830950 AAATTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAATAAAATAAAATTT
Found at i:89836261 original size:45 final size:45
Alignment explanation
Indices: 89836197--89836287 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
89836187 CGGATTCGTG
89836197 ATTTCGCAACCACTATTCCGTTTAGGCCCTATTTTGAGATGTTAC
1 ATTTCGCAACCACTATTCCGTTTAGGCCCTATTTTGAGATGTTAC
*
89836242 ATTTCGCAACCACTATTCCGTTTAGGCCTTATTTTGAGATGTTAC
1 ATTTCGCAACCACTATTCCGTTTAGGCCCTATTTTGAGATGTTAC
89836287 A
1 A
89836288 AATATTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (45 bp):
ATTTCGCAACCACTATTCCGTTTAGGCCCTATTTTGAGATGTTAC
Found at i:89840900 original size:16 final size:16
Alignment explanation
Indices: 89840879--89840912 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
89840869 CTATCGATAC
89840879 CTATTAAAAAAATTAT
1 CTATTAAAAAAATTAT
89840895 CTATTAAAAAAATTAT
1 CTATTAAAAAAATTAT
89840911 CT
1 CT
89840913 TTGGTATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
CTATTAAAAAAATTAT
Found at i:89841641 original size:20 final size:19
Alignment explanation
Indices: 89841618--89841664 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
89841608 ATAAAAAATA
89841618 TTAAAAATG-GTAAACATTAT
1 TTAAAAATGTG-AAA-ATTAT
89841638 TTAAAAATGTGAAAATTAT
1 TTAAAAATGTGAAAATTAT
89841657 TTAAAAAT
1 TTAAAAAT
89841665 AATATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.50
20 12 0.46
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (19 bp):
TTAAAAATGTGAAAATTAT
Found at i:89841682 original size:29 final size:29
Alignment explanation
Indices: 89841649--89841721 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
89841639 TAAAAATGTG
*
89841649 AAAATTATTTAA-AAATAATA-TTTTATTT
1 AAAAATATTTAATAAATAATATTTTTA-TT
* **
89841677 AAAAATAATTAATATTTAATATTTTTATT
1 AAAAATATTTAATAAATAATATTTTTATT
89841706 AAAAAATATTTAATAA
1 -AAAAATATTTAATAA
89841722 TTATTGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 10 0.28
29 8 0.22
30 18 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAAATATTTAATAAATAATATTTTTATT
Found at i:89841692 original size:17 final size:18
Alignment explanation
Indices: 89841654--89841695 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
89841644 ATGTGAAAAT
**
89841654 TATTTAAAAATAATATTT
1 TATTTAAAAATAATATAA
89841672 TATTTAAAAATAAT-TAA
1 TATTTAAAAATAATATAA
89841689 TATTTAA
1 TATTTAA
89841696 TATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTAAAAATAATATAA
Found at i:89841705 original size:30 final size:29
Alignment explanation
Indices: 89841664--89841720 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
89841654 TATTTAAAAA
*
89841664 TAATATTTTATTTAAAAATAATTAATATT
1 TAATATTTTATTAAAAAATAATTAATATT
*
89841693 TAATATTTTTATTAAAAAATATTTAATA
1 TAATA-TTTTATTAAAAAATAATTAATA
89841721 ATTATTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATATTTTATTAAAAAATAATTAATATT
Found at i:89841731 original size:23 final size:23
Alignment explanation
Indices: 89841687--89841731 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89841677 AAAAATAATT
* *
89841687 AATATTTAATATTTTTATTAAAA
1 AATATTTAATATTATTAGTAAAA
89841710 AATATTTAATAATTATT-GTAAA
1 AATATTTAAT-ATTATTAGTAAA
89841732 TTTATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AATATTTAATATTATTAGTAAAA
Found at i:89844171 original size:28 final size:28
Alignment explanation
Indices: 89844120--89844181 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
89844110 TCATTCTAGA
** *
89844120 TTTATTTTTTATGAACTTATATATTTTT
1 TTTATTTTTTATGAAAATATATATTATT
89844148 TTTATTTTTTAT-AAAATATCATATTATT
1 TTTATTTTTTATGAAAATAT-ATATTATT
*
89844176 TATATT
1 TTTATT
89844182 ATTACTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTATTTTTTATGAAAATATATATTATT
Found at i:89844520 original size:8 final size:8
Alignment explanation
Indices: 89844482--89844554 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
89844472 TACTATAAGC
89844482 TTTTTATA
1 TTTTTATA
89844490 TAATTTTA-A
1 T--TTTTATA
*
89844499 TTGTATATA
1 TT-TTTATA
*
89844508 CTTTTATA
1 TTTTTATA
89844516 TTTTTATA
1 TTTTTATA
**
89844524 AATTTATA
1 TTTTTATA
*
89844532 ATTTTATA
1 TTTTTATA
89844540 TTTTATATA
1 TTTT-TATA
89844549 TTTTTA
1 TTTTTA
89844555 AAATAATAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
7 1 0.02
8 34 0.65
9 12 0.23
10 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTTATA
Found at i:89844564 original size:31 final size:32
Alignment explanation
Indices: 89844504--89844564 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
89844494 TTTAATTGTA
* *
89844504 TATACTTTTATATTTTTATAAATTTATAATTT
1 TATACTTTTATATTTTTATAAAATAATAATTT
89844536 TATA-TTTTATATATTTT-TAAAATAATAAT
1 TATACTTTTATAT-TTTTATAAAATAATAAT
89844565 AACCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TATACTTTTATATTTTTATAAAATAATAATTT
Found at i:89846023 original size:55 final size:55
Alignment explanation
Indices: 89845956--89846072 Score: 225
Period size: 55 Copynumber: 2.1 Consensus size: 55
89845946 ATTCAAAACA
89845956 ATCTCAAATTGTCTACAATTCAACTTTATATCTTATGCACTAAAGCTACAAAATC
1 ATCTCAAATTGTCTACAATTCAACTTTATATCTTATGCACTAAAGCTACAAAATC
*
89846011 ATCTCAAATTGTCTACAATTCAACTTTATATCTTATGCACTAAAGCTACGAAATC
1 ATCTCAAATTGTCTACAATTCAACTTTATATCTTATGCACTAAAGCTACAAAATC
89846066 ATCTCAA
1 ATCTCAA
89846073 GCAAAACATA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (55 bp):
ATCTCAAATTGTCTACAATTCAACTTTATATCTTATGCACTAAAGCTACAAAATC
Found at i:89850352 original size:40 final size:40
Alignment explanation
Indices: 89850305--89850385 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
89850295 AATTATGGGA
* ** *
89850305 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* * *
89850345 TACTGAATAATGTTACGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
89850385 T
1 T
89850386 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:89850612 original size:12 final size:12
Alignment explanation
Indices: 89850595--89850619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89850585 GCCGACTACT
89850595 GTTACTGTTACC
1 GTTACTGTTACC
89850607 GTTACTGTTACC
1 GTTACTGTTACC
89850619 G
1 G
89850620 ATTTGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:89850719 original size:18 final size:17
Alignment explanation
Indices: 89850687--89850720 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89850677 GTGTGTTGAA
*
89850687 TACTGTACTGTTACTGC
1 TACTGTACCGTTACTGC
89850704 TACTGATACCGTTACTG
1 TACTG-TACCGTTACTG
89850721 ATTACTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (17 bp):
TACTGTACCGTTACTGC
Found at i:89852294 original size:41 final size:41
Alignment explanation
Indices: 89852215--89852355 Score: 142
Period size: 41 Copynumber: 3.3 Consensus size: 41
89852205 TCCCAGAGGT
* *
89852215 GGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-AATCAAATATCGATGCCA-TGTCCCAGACAG
*
89852258 GGTCTTACACGAATCAAATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAATCAAATATCGATGCC-ATGTCCCAGACAG
* * *
89852299 GGTCTTACACATAATCACATATATCGATGTCAACGTCCCAGAC-G
1 GGTCTTACAC-GAATCA-A-ATATCGATG-CCATGTCCCAGACAG
89852343 TGGTCTTACACGA
1 -GGTCTTACACGA
89852356 GAACGCATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
41 28 0.34
42 14 0.17
43 11 0.13
44 4 0.05
45 25 0.30
46 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
GGTCTTACACGAATCAAATATCGATGCCATGTCCCAGACAG
Found at i:89852365 original size:45 final size:41
Alignment explanation
Indices: 89852200--89852355 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 41
89852190 CGTACAATGC
* * *
89852200 CAACGTCCCAGAGGTGGTCTTACATGCAATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACG-AATCATATATCGATG
* *
89852242 CCACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGAATCATATATCGATG
* * * *
89852283 CCGATGTCCCAGACATGGTCTTACACATAATCACATATATCGATG
1 -CAACGTCCCAGACGTGGTCTTACAC-GAAT--CATATATCGATG
89852328 TCAACGTCCCAGACGTGGTCTTACACGA
1 -CAACGTCCCAGACGTGGTCTTACACGA
89852356 GAACGCATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
41 24 0.26
42 16 0.17
43 18 0.20
44 7 0.08
45 27 0.29
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
CAACGTCCCAGACGTGGTCTTACACGAATCATATATCGATG
Found at i:89855214 original size:21 final size:21
Alignment explanation
Indices: 89855188--89855248 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
89855178 TTCTGCTCTG
* *
89855188 CTCTGCCTCCTTCGCTGTTAC
1 CTCTGCCTCCCTCACTGTTAC
*
89855209 CTCTGCCTCCCTCACTGCTAC
1 CTCTGCCTCCCTCACTGTTAC
*
89855230 CGCTGCCTCCCTCACTGTT
1 CTCTGCCTCCCTCACTGTT
89855249 GCCGCCGCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.07, C:0.48, G:0.13, T:0.33
Consensus pattern (21 bp):
CTCTGCCTCCCTCACTGTTAC
Found at i:89871985 original size:41 final size:41
Alignment explanation
Indices: 89871906--89872046 Score: 142
Period size: 41 Copynumber: 3.3 Consensus size: 41
89871896 TCCCAGAGGT
* *
89871906 GGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-AATCAAATATCGATGCCA-TGTCCCAGACAG
*
89871949 GGTCTTACACGAATCAAATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAATCAAATATCGATGCC-ATGTCCCAGACAG
* * *
89871990 GGTCTTACACATAATCACATATATCGATGTCAACGTCCCAGAC-G
1 GGTCTTACAC-GAATCA-A-ATATCGATG-CCATGTCCCAGACAG
89872034 TGGTCTTACACGA
1 -GGTCTTACACGA
89872047 GAACGCATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
41 28 0.34
42 14 0.17
43 11 0.13
44 4 0.05
45 25 0.30
46 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
GGTCTTACACGAATCAAATATCGATGCCATGTCCCAGACAG
Found at i:89872056 original size:45 final size:41
Alignment explanation
Indices: 89871891--89872046 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 41
89871881 CGTACAATGC
* * *
89871891 CAACGTCCCAGAGGTGGTCTTACATGCAATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACG-AATCATATATCGATG
* *
89871933 CCACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGAATCATATATCGATG
* * * *
89871974 CCGATGTCCCAGACATGGTCTTACACATAATCACATATATCGATG
1 -CAACGTCCCAGACGTGGTCTTACAC-GAAT--CATATATCGATG
89872019 TCAACGTCCCAGACGTGGTCTTACACGA
1 -CAACGTCCCAGACGTGGTCTTACACGA
89872047 GAACGCATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
41 24 0.26
42 16 0.17
43 18 0.20
44 7 0.08
45 27 0.29
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
CAACGTCCCAGACGTGGTCTTACACGAATCATATATCGATG
Found at i:89891391 original size:26 final size:26
Alignment explanation
Indices: 89891339--89891421 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
89891329 TGATACAAAT
*
89891339 TGATAATAGGTTA-GTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
89891364 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
89891390 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
89891416 TGATAA
1 TGATAA
89891422 GAAATTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 12 0.22
26 42 0.78
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:89892917 original size:25 final size:26
Alignment explanation
Indices: 89892889--89892940 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
89892879 TTTACAGTTT
89892889 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
89892914 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
89892940 T
1 T
89892941 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:89897120 original size:26 final size:26
Alignment explanation
Indices: 89897083--89897166 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
89897073 TGATACAAAT
* *
89897083 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89897109 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89897135 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89897161 TGATAA
1 TGATAA
89897167 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89898672 original size:25 final size:26
Alignment explanation
Indices: 89898644--89898695 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
89898634 TTTACAGTTT
89898644 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
89898669 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
89898695 T
1 T
89898696 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:89899974 original size:20 final size:21
Alignment explanation
Indices: 89899951--89899999 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
89899941 GATACTATTT
89899951 TATCGATACTT-TTTGAAAAA
1 TATCGATACTTATTTGAAAAA
* * * *
89899971 TATCAATATTTATTTTAAAAG
1 TATCGATACTTATTTGAAAAA
89899992 TATCGATA
1 TATCGATA
89900000 TTCATTGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (21 bp):
TATCGATACTTATTTGAAAAA
Found at i:89899995 original size:21 final size:22
Alignment explanation
Indices: 89899961--89900001 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
89899951 TATCGATACT
89899961 TTTTGAAAAATATCAATATTTA
1 TTTTGAAAAATATCAATATTTA
* *
89899983 TTTT-AAAAGTATCGATATT
1 TTTTGAAAAATATCAATATT
89900002 CATTGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTGAAAAATATCAATATTTA
Found at i:89903624 original size:12 final size:12
Alignment explanation
Indices: 89903609--89903637 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
89903599 ATAACATTTT
89903609 TATTTGTTTTAA
1 TATTTGTTTTAA
89903621 TATTTGTTTTAA
1 TATTTGTTTTAA
89903633 TATTT
1 TATTT
89903638 TTAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TATTTGTTTTAA
Found at i:89903648 original size:24 final size:25
Alignment explanation
Indices: 89903621--89903682 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
89903611 TTTGTTTTAA
*
89903621 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
89903645 TATTTGATTTATTATATTTTAAAT-
1 TATTTGATTTAATATATTTTAAATG
* *
89903669 TTTTTTATTTAATA
1 TATTTGATTTAATA
89903683 AAATAAGCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:89904726 original size:35 final size:35
Alignment explanation
Indices: 89904687--89904755 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
89904677 ACATTATCAT
* *
89904687 AAATATAATAAATGTTTTATTATATTAAAAATAAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAAA
* *
89904722 AAATATAAAAAATATTTTATTGTATTAAATATAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAA
89904756 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATATAAAAAATATTTTATTATATTAAAAATAAA
Found at i:89904900 original size:18 final size:18
Alignment explanation
Indices: 89904855--89904902 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
89904845 ATTAGTGATC
89904855 TAATATAA-ATATATAAT
1 TAATATAACATATATAAT
*
89904872 TATTATTTAACATATATAAT
1 TA--ATATAACATATATAAT
89904892 TAATATAACAT
1 TAATATAACAT
89904903 TTTTTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 5 0.19
20 11 0.42
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATATAACATATATAAT
Found at i:89905928 original size:1 final size:1
Alignment explanation
Indices: 89905922--89905966 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
89905912 CTCTTTTCTC
* * *
89905922 AAAAAAAAAAAAAAAAGAAAAAAAAAAAGAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89905967 GATAAGCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:89905948 original size:21 final size:21
Alignment explanation
Indices: 89905922--89905966 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
89905912 CTCTTTTCTC
89905922 AAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAGAAAA
*
89905943 AAAAAAAGAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAGAAAA
89905964 AAA
1 AAA
89905967 GATAAGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAGAAAA
Found at i:89911124 original size:58 final size:58
Alignment explanation
Indices: 89911062--89911184 Score: 185
Period size: 58 Copynumber: 2.1 Consensus size: 58
89911052 TTGTAATAAG
* * *
89911062 ATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAAT-AAAATAATAAATAATTTAATAACATTCTTAACATA
* *
89911120 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
89911178 ATTATTA
1 ATTATTA
89911185 GTATATGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 23 0.39
58 36 0.61
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:89911212 original size:57 final size:57
Alignment explanation
Indices: 89911062--89911212 Score: 157
Period size: 58 Copynumber: 2.6 Consensus size: 57
89911052 TTGTAATAAG
* * * *
89911062 ATTATTATTAAATATATTTTAATAAAAATAATAA-ATAATTTAATCATATTTTAACATA
1 ATTATTAGT-AATATAATTTAA-AAAAATAATAATATAATTTAATAACATTTTAACATA
* * *
89911120 ATTATTATTAAATATAATTTAATAAAATAAT-ATATAATTTAATAACATTCTTAATATA
1 ATTATTAGT-AATATAATTTAAAAAAATAATAATATAATTTAATAACATT-TTAACATA
*
89911178 ATTATTAGT-ATATGAA-TTAAAAAAATCATAATATA
1 ATTATTAGTAATAT-AATTTAAAAAAATAATAATATA
89911213 TAATATTATA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
56 16 0.20
57 29 0.36
58 36 0.44
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (57 bp):
ATTATTAGTAATATAATTTAAAAAAATAATAATATAATTTAATAACATTTTAACATA
Found at i:89913395 original size:24 final size:24
Alignment explanation
Indices: 89913368--89913419 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
89913358 GTCATCCTTT
*
89913368 TCAACTTCTTTGAACTCAACAGAC
1 TCAACTTCTTTAAACTCAACAGAC
89913392 TCAACTTCTTTAAACTCAACAGAC
1 TCAACTTCTTTAAACTCAACAGAC
89913416 TCAA
1 TCAA
89913420 ATACAACAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (24 bp):
TCAACTTCTTTAAACTCAACAGAC
Found at i:89914241 original size:18 final size:18
Alignment explanation
Indices: 89914218--89914253 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89914208 TTCTCTTTTG
*
89914218 TTTTGGAGTCTGCAATGC
1 TTTTGGAGCCTGCAATGC
89914236 TTTTGGAGCCTGCAATGC
1 TTTTGGAGCCTGCAATGC
89914254 ATTCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (18 bp):
TTTTGGAGCCTGCAATGC
Found at i:89921820 original size:27 final size:27
Alignment explanation
Indices: 89921788--89921843 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
89921778 AGAAATGAAT
89921788 CATCAAATTTTTACAAAGCTCGAATCA
1 CATCAAATTTTTACAAAGCTCGAATCA
*
89921815 CATCAATTTTTTACAAAGCTCGAATCA
1 CATCAAATTTTTACAAAGCTCGAATCA
89921842 CA
1 CA
89921844 CCTGAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
CATCAAATTTTTACAAAGCTCGAATCA
Found at i:89922226 original size:63 final size:62
Alignment explanation
Indices: 89922126--89922298 Score: 222
Period size: 63 Copynumber: 2.8 Consensus size: 62
89922116 CGTATGGTCC
* ** *
89922126 ACACGGCCTAG-CACACCTCGTGTCTTTGGCCCATGTGACTCTAATTTCAAAACAGTAAGTT
1 ACACGGCCTGGACACACCTCGTGTCCCTGGCCCATGTGACTCTAATTCCAAAACAGTAAGTT
* * *
89922187 ACACGGCCTGGACACACGCTCGTGTCCCTGGCCCGTGTGATTCTAATTCCAAAACAGTGAGTT
1 ACACGGCCTGGACACAC-CTCGTGTCCCTGGCCCATGTGACTCTAATTCCAAAACAGTAAGTT
* ***
89922250 ACACGGCCTGGACACACACTCGTGTCCATGGTTGATGTGACTCTAATTC
1 ACACGGCCTGGACACAC-CTCGTGTCCCTGGCCCATGTGACTCTAATTC
89922299 TAAAGTAGAG
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 10 0.10
62 5 0.05
63 81 0.84
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (62 bp):
ACACGGCCTGGACACACCTCGTGTCCCTGGCCCATGTGACTCTAATTCCAAAACAGTAAGTT
Found at i:89922727 original size:20 final size:20
Alignment explanation
Indices: 89922702--89922741 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
89922692 AAAAAAACTT
89922702 TGTTCATCCCAAACTCAAGC
1 TGTTCATCCCAAACTCAAGC
89922722 TGTTCATCCCAAACTCAAGC
1 TGTTCATCCCAAACTCAAGC
89922742 AAATAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (20 bp):
TGTTCATCCCAAACTCAAGC
Found at i:89928761 original size:49 final size:49
Alignment explanation
Indices: 89928659--89928782 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
89928649 AGATGCCGAC
* * * *
89928659 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACGGGCTCTCATATAGTCAGGCAGAT
*
89928709 GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATCTA-TCAGTGTCAG-T
1 GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATATAGTCAG-G-CAGAT
*
89928758 GCCATGTCCCAGATAGGTCTTACAC
1 GCCATGTCCCAGACAGGTCTTACAC
89928783 TGACACACTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 3 0.05
49 46 0.70
50 17 0.26
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACGGGCTCTCATATAGTCAGGCAGAT
Found at i:89929029 original size:48 final size:48
Alignment explanation
Indices: 89928804--89929020 Score: 210
Period size: 48 Copynumber: 4.6 Consensus size: 48
89928794 AAGCTAACGC
* ** * *
89928804 CATGTCCCAGACAGGTCTTACACTAGCTTATGTATCGCG-AGCCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAAGCC-AATG
* ** *
89928852 CATGTCCCAAACATGTCTTACACTAGCTCT---CGTCT-TAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAA-GCCAATG
* * **
89928898 CATGTCCCATACATGTCTTACACTGGCTTAAATATCTCGAAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAAGCCAATG
* * * *
89928946 CATATCTCAGACATGCCTTACACTGGCTTAAATATCTCGAAGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAAGCCAATG
*
89928994 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
89929021 GCACATATCA
Statistics
Matches: 139, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 32 0.23
47 3 0.02
48 100 0.72
49 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAAGCCAATG
Found at i:89937901 original size:34 final size:34
Alignment explanation
Indices: 89937863--89937937 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
89937853 ATCATATTAA
* * *
89937863 AATGTCACATTACCAGAAACATATATCAAATCAG
1 AATGTCACATTACCAGAAAAAAATACCAAATCAG
* * * *
89937897 AATGTCATATTTCTAGAAAAAAATACCATATCAG
1 AATGTCACATTACCAGAAAAAAATACCAAATCAG
89937931 AATGTCA
1 AATGTCA
89937938 TATCAAATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (34 bp):
AATGTCACATTACCAGAAAAAAATACCAAATCAG
Done.