Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 209 of 255
Found at i:69950564 original size:58 final size:57
Alignment explanation
Indices: 69950462--69950574 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 57
69950452 CATACATGCA
** * * **
69950462 TATGGCCCACTAAGCCCAATCTTATTCAAATGGTCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAAGCCCAATCACATTCAAATGGCCCATCAGGCCCAAATCATATTCT
* * *
69950519 TATGGCCCACTAGGCCTAATTCACATTCATATGGCCCATCAGGCCCAAATCATATT
1 TATGGCCCACTAAGCCCAA-TCACATTCAAATGGCCCATCAGGCCCAAATCATATT
69950575 ATATTCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 17 0.37
58 29 0.63
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAAGCCCAATCACATTCAAATGGCCCATCAGGCCCAAATCATATTCT
Found at i:69950824 original size:8 final size:8
Alignment explanation
Indices: 69950790--69950841 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
69950780 GTAGCCCAAC
69950790 TTTTGGCT
1 TTTTGGCT
** *
69950798 TTTCAGCA
1 TTTTGGCT
69950806 TTTTGGACT
1 TTTTGG-CT
69950815 TTTTGGCT
1 TTTTGGCT
*
69950823 TTTTGGCA
1 TTTTGGCT
*
69950831 TTTCGGCT
1 TTTTGGCT
69950839 TTT
1 TTT
69950842 ACTGATTCAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.08, C:0.15, G:0.21, T:0.56
Consensus pattern (8 bp):
TTTTGGCT
Found at i:69950831 original size:25 final size:24
Alignment explanation
Indices: 69950790--69950841 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
69950780 GTAGCCCAAC
*
69950790 TTTTGGCTTTTCAGCATTTTGGACT
1 TTTTGGCTTTTCAGCATTTCGG-CT
**
69950815 TTTTGGCTTTTTGGCATTTCGGCT
1 TTTTGGCTTTTCAGCATTTCGGCT
69950839 TTT
1 TTT
69950842 ACTGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.08, C:0.15, G:0.21, T:0.56
Consensus pattern (24 bp):
TTTTGGCTTTTCAGCATTTCGGCT
Found at i:69950838 original size:16 final size:16
Alignment explanation
Indices: 69950790--69950841 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
69950780 GTAGCCCAAC
* *
69950790 TTTTGGCTTTTCAGCA
1 TTTTGGCTTTTCGGCT
*
69950806 TTTTGGACTTTTTGGCT
1 TTTTGG-CTTTTCGGCT
*
69950823 TTTTGGCATTTCGGCT
1 TTTTGGCTTTTCGGCT
69950839 TTT
1 TTT
69950842 ACTGATTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.08, C:0.15, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCT
Found at i:69952051 original size:8 final size:8
Alignment explanation
Indices: 69952038--69952075 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
69952028 AACAAAAAAG
69952038 TTTGGGAT
1 TTTGGGAT
69952046 TTTGGGATT
1 TTTGGGA-T
69952055 TTTGGG-T
1 TTTGGGAT
69952062 TTTGGGAT
1 TTTGGGAT
69952070 TTTGGG
1 TTTGGG
69952076 GCGTTACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.08, C:0.00, G:0.39, T:0.53
Consensus pattern (8 bp):
TTTGGGAT
Found at i:69953155 original size:42 final size:41
Alignment explanation
Indices: 69953099--69953211 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 41
69953089 ATGCCGATAG
* * *
69953099 CCCAGCTATAGTCTTACACGATATCTCGTATCAATACCATGT
1 CCCAGATATGGTCTTACACGAT-TCTCATATCAATACCATGT
* * *
69953141 CCCAGATATGGTCTTACACTATTCTCATATCGATGCCATGT
1 CCCAGATATGGTCTTACACGATTCTCATATCAATACCATGT
* * * * *
69953182 ACTAGACATGGCCTTACACGAAGTCTCATA
1 CCCAGATATGGTCTTACACG-ATTCTCATA
69953212 ATGATGCCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
41 31 0.53
42 27 0.47
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (41 bp):
CCCAGATATGGTCTTACACGATTCTCATATCAATACCATGT
Found at i:69953867 original size:20 final size:20
Alignment explanation
Indices: 69953829--69953867 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
69953819 TGTTTCTCCA
*
69953829 ACCATAAACATGCATAATAT
1 ACCATAAACATGCAAAATAT
69953849 ACCATTAAACAT-CAAAATA
1 ACCA-TAAACATGCAAAATA
69953868 AACAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (20 bp):
ACCATAAACATGCAAAATAT
Found at i:69954650 original size:23 final size:23
Alignment explanation
Indices: 69954603--69954650 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
69954593 TGCATGAAGC
* *
69954603 AGAAGTAGTGAGAATTGAAATCT
1 AGAAGTAGAGAGAATTGAAAACT
69954626 AGAAGTAGAGA-AATTGAGAAACT
1 AGAAGTAGAGAGAATTGA-AAACT
69954649 AG
1 AG
69954651 GTAAGCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.27, T:0.21
Consensus pattern (23 bp):
AGAAGTAGAGAGAATTGAAAACT
Found at i:69957622 original size:32 final size:32
Alignment explanation
Indices: 69957581--69957665 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
69957571 TGAAATTGAA
* * *
69957581 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGATTCTAAG
69957613 ATGGGCTAGGCCCAACTGATATTGATTCTAAG
1 ATGGGCTAGGCCCAACTGATATTGATTCTAAG
*
69957645 ATGGGCTAGGCCCAATTGATA
1 ATGGGCTAGGCCCAACTGATA
69957666 CTGTGATAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGATTCTAAG
Found at i:69970673 original size:17 final size:17
Alignment explanation
Indices: 69970651--69970684 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
69970641 TTCCTGGCAG
69970651 GTTTTTATAGTGTATAA
1 GTTTTTATAGTGTATAA
69970668 GTTTTTATAGTGTATAA
1 GTTTTTATAGTGTATAA
69970685 CTAGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (17 bp):
GTTTTTATAGTGTATAA
Found at i:69973802 original size:13 final size:13
Alignment explanation
Indices: 69973770--69973795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69973760 ACGAAGTAGA
69973770 ACACGACCGTGTG
1 ACACGACCGTGTG
69973783 ACACGACCGTGTG
1 ACACGACCGTGTG
69973796 CATCGACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGACCGTGTG
Found at i:69993998 original size:44 final size:44
Alignment explanation
Indices: 69993918--69994001 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
69993908 TGCTCAGGGA
* *
69993918 TACTTCGACCTTGAGTCAATGAGGCACTATAAGTGTTGTATTGT
1 TACTTCGACCTTGAGTCAATAAGGCACCATAAGTGTTGTATTGT
* **
69993962 TACTTCGA-CTTCGAGTCGATAAGGCACCATGTGTGTTGTA
1 TACTTCGACCTT-GAGTCAATAAGGCACCATAAGTGTTGTA
69994002 CTGCTACTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCAATAAGGCACCATAAGTGTTGTATTGT
Found at i:69994198 original size:39 final size:40
Alignment explanation
Indices: 69994155--69994238 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 40
69994145 ATAGGGGTAA
* * *
69994155 ATAAAGGTACTGAATGACTGATTGTTACTGGATGATATT-
1 ATAAAGGTACTGAATGACTGACTGCTACTGAATGATATTG
* *
69994194 ATAAAGGTTCTGAATGATTGACTGCTACTGAATGATATTG
1 ATAAAGGTACTGAATGACTGACTGCTACTGAATGATATTG
69994234 ATAAA
1 ATAAA
69994239 TTGATTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.87
40 5 0.13
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (40 bp):
ATAAAGGTACTGAATGACTGACTGCTACTGAATGATATTG
Found at i:69994247 original size:18 final size:20
Alignment explanation
Indices: 69994226--69994271 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
69994216 TGCTACTGAA
* *
69994226 TGATATTG-ATAA-ATTGAT
1 TGATATTGAAAAATATTGAC
69994244 TGATATTGAAAAATATTGAC
1 TGATATTGAAAAATATTGAC
69994264 TGATATTG
1 TGATATTG
69994272 GGCTTGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (20 bp):
TGATATTGAAAAATATTGAC
Found at i:69995143 original size:21 final size:21
Alignment explanation
Indices: 69995100--69995156 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
69995090 CGGGCTCTCA
* * *
69995100 ACACAGCCATGTGAGCTAGCG
1 ACACGGCCGTGTGAGCTAACG
* *
69995121 ACATGGCCGTGTGATCTAACG
1 ACACGGCCGTGTGAGCTAACG
69995142 ACACGGCCGTGTGAG
1 ACACGGCCGTGTGAG
69995157 TCACACGGGC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.18
Consensus pattern (21 bp):
ACACGGCCGTGTGAGCTAACG
Found at i:70000296 original size:47 final size:47
Alignment explanation
Indices: 70000244--70000752 Score: 750
Period size: 47 Copynumber: 10.6 Consensus size: 47
70000234 GATAATTGTG
* *
70000244 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
70000291 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70000338 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70000387 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70000436 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70000483 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70000530 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTG---A----T-A-AGGCCTAATGGCCGATGTGATGA
*
70000586 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70000633 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
70000680 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
70000727 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
70000753 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 21, Indels: 25
0.90 0.04 0.05
Matches are distributed among these distances:
46 2 0.00
47 283 0.66
48 3 0.01
49 93 0.22
50 1 0.00
53 1 0.00
54 1 0.00
56 44 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:70000610 original size:150 final size:144
Alignment explanation
Indices: 70000244--70000752 Score: 753
Period size: 150 Copynumber: 3.5 Consensus size: 144
70000234 GATAATTGTG
*
70000244 ATGTG-AA-TGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
70000306 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTA
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTA
70000371 ATGGCCGATGTGATGA
129 ATGGCCGATGTGATGA
*
70000387 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
70000451 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAAT
70000516 GGCCGATGTGATGA
131 GGCCGATGTGATGA
*
70000530 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGAAAGTGTATATATGTGAT---G-AT-A-AGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
70000595 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGG
60 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGG
70000660 CCTAATGGCCGATGTGATGA
125 CCTAATGGCCGATGTGATGA
* * * * * * *
70000680 ATGTGAAAGTGTATATATGTGA-CA-GA-GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
70000742 AATGTGATAAG
66 TATGTGATAAG
70000753 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 16, Indels: 20
0.90 0.04 0.05
Matches are distributed among these distances:
141 41 0.12
142 1 0.00
143 59 0.17
144 3 0.01
145 96 0.28
147 1 0.00
148 1 0.00
149 1 0.00
150 138 0.40
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (144 bp):
ATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAAT
GGCCGATGTGATGA
Found at i:70002928 original size:38 final size:38
Alignment explanation
Indices: 70002883--70002956 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
70002873 AATCCGAGTT
*
70002883 TAAAGACCCGCTGACTATATGA-AGAGATTATGTCCGAG
1 TAAAGACCCGATGACTATAT-ACAGAGATTATGTCCGAG
* *
70002921 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCG
1 TAAAGACCCGATGACTATATACAGAGATTATGTCCG
70002957 GATTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATACAGAGATTATGTCCGAG
Found at i:70003070 original size:40 final size:40
Alignment explanation
Indices: 70003011--70003347 Score: 550
Period size: 40 Copynumber: 8.4 Consensus size: 40
70003001 AGGTCTCGAC
*
70003011 GATG-ATCCGGGCTAAGTCCCGAAGATCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
70003050 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
70003090 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
70003130 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
70003170 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
70003210 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
70003250 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
70003290 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
70003330 GTTGTATCCGGACTAAGT
1 GATGTATCCGGGCTAAGT
70003348 TCTGACCGGA
Statistics
Matches: 274, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 270 0.99
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:70003413 original size:40 final size:40
Alignment explanation
Indices: 70003353--70003454 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
70003343 TAAGTTCTGA
*
70003353 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
70003393 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
70003433 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTTCCGAAGAGCA
70003455 ATCATGCTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:70003421 original size:96 final size:96
Alignment explanation
Indices: 70003257--70003436 Score: 315
Period size: 96 Copynumber: 1.9 Consensus size: 96
70003247 AGTGATGTAT
70003257 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
70003322 GTGCTAGTGTTGTATCCGGACTAAGTTCTGA
66 GTGCTAGTGTTATATCCGGACTAAGTTCTGA
* * *
70003353 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
70003418 GTGCTGGTGTTATATCCGG
66 GTGCTAGTGTTATATCCGG
70003437 GCTAGGTCCC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (96 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGTTATATCCGGACTAAGTTCTGA
Found at i:70003463 original size:40 final size:40
Alignment explanation
Indices: 70003353--70003467 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
70003343 TAAGTTCTGA
* * *
70003353 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
* * *
70003393 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
* * *
70003433 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
70003468 CGTGTATTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
Found at i:70007103 original size:47 final size:47
Alignment explanation
Indices: 70007051--70007503 Score: 728
Period size: 47 Copynumber: 9.6 Consensus size: 47
70007041 GATAATTGTG
* *
70007051 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
70007098 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70007145 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70007194 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70007243 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70007290 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70007337 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70007384 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
70007431 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
70007478 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
70007504 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 19, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 285 0.74
48 2 0.01
49 94 0.25
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:70008796 original size:46 final size:46
Alignment explanation
Indices: 70008744--70008865 Score: 174
Period size: 46 Copynumber: 2.6 Consensus size: 46
70008734 GTGTTGGGTG
*
70008744 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-CATAAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATCAT-AGTCA
* * *
70008790 GTGTAAGACATGTCTAGGACATGCATTGGCCACGAGATGATAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATCATAGTCA
70008836 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGA-CATGTCTGGGACAT-GCATCG
70008866 ACTTGAGATA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 47 0.70
47 15 0.22
48 5 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATCATAGTCA
Found at i:70008874 original size:47 final size:45
Alignment explanation
Indices: 70008744--70008914 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 45
70008734 GTGTTGGGTG
* *
70008744 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGTCA
1 GTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATATAAGTCA
* * * *
70008790 GTGTAAGACATGTCTAGGACATGCATTGGCCACGAGATGAT-AGTCA
1 GTGTAAGACATGTCTGGGACATGCA-TCGACTCGAGAT-ATAAGTCA
* * *
70008836 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAG-CTG
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATATAAGTC-A
* *
70008883 GTGTAAGACCAAGTTTGGGACATGGCATCGAC
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGAC
70008915 ACCTTACCCA
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
46 48 0.45
47 56 0.52
48 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGACTCGAGATATAAGTCA
Found at i:70010073 original size:20 final size:21
Alignment explanation
Indices: 70010035--70010073 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70010025 TCGAGTTGGT
70010035 CACACGGGCATGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
*
70010056 CACACGGGCGTG-TGCCCT
1 CACACGGGCATGTTGCCCT
70010074 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:70015828 original size:46 final size:46
Alignment explanation
Indices: 70015775--70016036 Score: 208
Period size: 47 Copynumber: 5.6 Consensus size: 46
70015765 ATTGGTGGGT
* * **
70015775 AGTGTAAGACATGCCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCC
*** * *
70015821 AGTGTAAGACCATGTCTGGGACATGACATCGGCCTTGAGACG-GAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCACAAGATGAGAGCC
* * * * * *
70015868 ACTGTAAGAAATGTTTGGGAGATGCATCGGCCTCAAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATG-AGAGCC
* * **
70015914 AGTGTAAGACATGTCTGGCACATGCATCGGCCACAAGATGATATTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCC
* ***
70015960 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAAGATGA-GAGCC
*
70016007 AGTGTAAGACCATGTCTGGGTCATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
70016037 AGCACCTTAC
Statistics
Matches: 174, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
45 15 0.09
46 69 0.40
47 76 0.44
48 14 0.08
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCC
Found at i:70023058 original size:47 final size:47
Alignment explanation
Indices: 70022928--70023090 Score: 165
Period size: 47 Copynumber: 3.5 Consensus size: 47
70022918 TGAGAGCTAA
*
70022928 TGTAAGACCATGTCTAGGACATGCATCGGCCTTGAGATG-TAAGCCAG
1 TGTAAGACCATGTCTAGGACATGCATC-GACTTGAGATGATAAGCCAG
** * * * **
70022975 TGTACTA-CATGTCTAGGACATGCATTGGCTACGAGATGAT-AGTTAG
1 TGTAAGACCATGTCTAGGACATGCATCGACT-TGAGATGATAAGCCAG
*
70023021 TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAA-CCAG
1 TGTAAGACCATGTCTAGGACAT-GCATCGACTTGAGATGAT-AAGCCAG
*
70023068 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTAGGACATG
70023091 GTATCGGCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.03
46 36 0.38
47 48 0.51
48 8 0.08
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGCATCGACTTGAGATGATAAGCCAG
Found at i:70041099 original size:50 final size:49
Alignment explanation
Indices: 70040972--70041246 Score: 251
Period size: 50 Copynumber: 5.7 Consensus size: 49
70040962 TGATGCTAGG
* * * **
70040972 GATATATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCTT
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCC
*** **
70041021 GAT--AT--GTTTCAGTGTAAGACCATGTCTGGGACATAACATCGGCACC
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CC
* **
70041067 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCTT
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCC
* * * *
70041116 GAT--AT--GTGTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCACC
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CC
* * *
70041162 AATAGATGAGGGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-C
* * * *
70041212 GATATACGAGAGTCAGTGTAAGAACATGTCTGGGA
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGA
70041247 GTAATCGACT
Statistics
Matches: 179, Mismatches: 36, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
45 64 0.36
46 5 0.03
47 4 0.02
48 4 0.02
49 7 0.04
50 95 0.53
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCC
Found at i:70041140 original size:95 final size:95
Alignment explanation
Indices: 70040972--70041216 Score: 382
Period size: 95 Copynumber: 2.6 Consensus size: 95
70040962 TGATGCTAGG
* * * *
70040972 GATATATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTTTCAGTGTA
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
* *
70041037 AGACCATGTCTGGGACATAACATCGGCACC
66 AAACCATGTCTGGGACATAACATCAGCACC
*
70041067 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCTTGATATGTGTCAGTGTA
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
**
70041132 AAACCATGTCTGGGACATGGCATCAGCACC
66 AAACCATGTCTGGGACATAACATCAGCACC
* *
70041162 AATAGATGAGGGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATAT
1 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATAT
70041217 ACGAGAGTCA
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 129 0.94
96 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (95 bp):
GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
AAACCATGTCTGGGACATAACATCAGCACC
Found at i:70041276 original size:95 final size:90
Alignment explanation
Indices: 70040988--70041297 Score: 295
Period size: 95 Copynumber: 3.3 Consensus size: 90
70040978 TGAGAGCTAA
* *
70040988 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTTTCAGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGAACATGTCTGGGAC
* *
70041053 ATAACATCGGCACCGATAGATG-AGAGCCAG
66 GT-A-ATC-G-A-C-ATAGATGTGGAGCCAG
*
70041083 TGTAAGACCATGTCTGGGACATGGCATTGGCTTGATATGTGTCAGTGTAA-AACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGAA-CATGTCTGGGA
** *
70041147 CATGGCATCAGCACCAATAGATGAGG-GCCAG
65 C--GTAATC-G-A-C-ATAGATGTGGAGCCAG
*
70041178 TGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATACGAGAGTCAGTGTAAGAACATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATAT----GTGTCAGTGTAAGAACATGTCT
* * *
70041243 GGGA-GTAATCGACTTTGATGTGTGAGCCTG
61 GGGACGTAATCGACATAGATGTG-GAGCCAG
* *
70041273 TGTAAGACCATGTTTAGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
70041298 GTCGAAACCT
Statistics
Matches: 184, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
93 6 0.03
94 3 0.02
95 137 0.74
96 10 0.05
97 4 0.02
100 22 0.12
101 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (90 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGAACATGTCTGGGAC
GTAATCGACATAGATGTGGAGCCAG
Found at i:70041276 original size:145 final size:144
Alignment explanation
Indices: 70041030--70041297 Score: 317
Period size: 145 Copynumber: 1.8 Consensus size: 144
70041020 TGATATGTTT
* *
70041030 CAGTGTAAGACCATGTCTGGGACATAACATCGGCACCGATAGATGAGAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATAACATCGGCACCGATAGACGAGAGCCAGTGTAAGAACATG
* * * * *
70041095 TCTGGGACATGGCATTGGCTTGATATGTGTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCA
66 TCTGGGA-ATGGAATCGACTTGATATGTGCCAGTGTAAAACCATGTCTAGGACATGGCATCAGCA
70041160 CCAATAGATGAGGGC
130 CCAATAGATGAGGGC
** * * *
70041175 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGATATACGAGAGTCAGTGTAAGAACAT
1 CAGTGTAAGACCATGTCTGGGACATAACATCGGCAC-CGATAGACGAGAGCCAGTGTAAGAACAT
* * * * *
70041239 GTCTGGG-A-GTAATCGACTTTGATGTGTGAGCCTGTGTAAGACCATGTTTAGGACATGGC
65 GTCTGGGAATGGAATCGAC-TTGATATGT--GCCAGTGTAAAACCATGTCTAGGACATGGC
70041298 GTCGAAACCT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
142 5 0.05
143 9 0.09
144 1 0.01
145 87 0.85
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
CAGTGTAAGACCATGTCTGGGACATAACATCGGCACCGATAGACGAGAGCCAGTGTAAGAACATG
TCTGGGAATGGAATCGACTTGATATGTGCCAGTGTAAAACCATGTCTAGGACATGGCATCAGCAC
CAATAGATGAGGGC
Found at i:70044400 original size:27 final size:27
Alignment explanation
Indices: 70044370--70044547 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
70044360 ATATTGAGTC
* * *
70044370 CGCACACTCAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTACATAATCAACT
* *
70044397 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
70044424 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
70044452 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
70044479 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
70044506 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
70044533 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70044548 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:70044509 original size:82 final size:81
Alignment explanation
Indices: 70044396--70044546 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
70044386 TATAATCAGC
* *
70044396 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
70044461 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
70044478 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
70044542 AGTGC
65 AGTGC
70044547 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:70059654 original size:36 final size:36
Alignment explanation
Indices: 70059579--70059654 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
70059569 CGTTGTCAGG
* * **
70059579 TGGACTGGCTCATATGAGCATCTGGTGTGTATCGAT
1 TGGACTAGCTCATATAAGCATCTGGTAAGTATCGAT
* * *
70059615 TGGACTAGCTCTTATAAGCATCTGGTAAGTTTCGGT
1 TGGACTAGCTCATATAAGCATCTGGTAAGTATCGAT
70059651 TGGA
1 TGGA
70059655 ATATAGATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (36 bp):
TGGACTAGCTCATATAAGCATCTGGTAAGTATCGAT
Found at i:70061155 original size:11 final size:12
Alignment explanation
Indices: 70061132--70061156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70061122 TTATCGTACC
70061132 AAACATAAAAAA
1 AAACATAAAAAA
70061144 AAACATAAAAAA
1 AAACATAAAAAA
70061156 A
1 A
70061157 TTGATTTGGA
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAACATAAAAAA
Found at i:70066138 original size:19 final size:19
Alignment explanation
Indices: 70066111--70066148 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
70066101 AGACAAAAAA
70066111 AATGCTATTTTCTTGTTTT
1 AATGCTATTTTCTTGTTTT
* *
70066130 AATGTTATTTTGTTGTTTT
1 AATGCTATTTTCTTGTTTT
70066149 CTCCTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (19 bp):
AATGCTATTTTCTTGTTTT
Found at i:70066998 original size:22 final size:22
Alignment explanation
Indices: 70066968--70067030 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
70066958 GAAAAAAAGA
70066968 AAAAGAAAATAACAACAAAACAGT
1 AAAA-AAAA-AACAACAAAACAGT
* * * *
70066992 AAAAAAAAGAGAAGAAAACATT
1 AAAAAAAAAACAACAAAACAGT
70067014 AAAAAAAAGAACAACAA
1 AAAAAAAA-AACAACAA
70067031 TTTTTTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 18 0.58
23 9 0.29
24 4 0.13
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAAAAAAAACAACAAAACAGT
Found at i:70075106 original size:21 final size:22
Alignment explanation
Indices: 70075060--70075109 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
70075050 TCGAATTGGT
*
70075060 CACATGGGCGTGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
70075082 CACACGGGCGTGTTGCCCC-TC
1 CACACGGGCGTGTTGCCCCTTC
70075103 CACACGG
1 CACACGG
70075110 CCATGTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:70079558 original size:16 final size:17
Alignment explanation
Indices: 70079537--70079574 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
70079527 TTTTATATGG
*
70079537 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
70079553 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
70079571 ATTT
1 ATTT
70079575 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:70080904 original size:18 final size:19
Alignment explanation
Indices: 70080877--70080919 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
70080867 AAGAAAAAGG
* *
70080877 AAAAACGGGAA-AGAGAAA
1 AAAAAAGGGAAGAAAGAAA
70080895 AAAAAAGGGAAGAAAGAAA
1 AAAAAAGGGAAGAAAGAAA
70080914 AGAAAA
1 A-AAAA
70080920 TGAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
20 4 0.19
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAAAAGGGAAGAAAGAAA
Found at i:70085407 original size:26 final size:22
Alignment explanation
Indices: 70085359--70085410 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
70085349 TTAATCCCTT
70085359 AATCAATTCTAAATTGAAATTC
1 AATCAATTCTAAATTGAAATTC
70085381 AATCAATTCTAAATTGAAATTC
1 AATCAATTCTAAATTGAAATTC
*
70085403 ATTCAATT
1 AATCAATT
70085411 AAATCTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (22 bp):
AATCAATTCTAAATTGAAATTC
Found at i:70085697 original size:5 final size:5
Alignment explanation
Indices: 70085689--70085735 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
70085679 TTTTATGTTT
70085689 TATTA TATTA TATTA TA-T- TATTA TATTA -ATATA TTATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA TAT
70085736 ACTTAAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 2 0.05
4 4 0.11
5 27 0.73
6 2 0.05
7 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:70085710 original size:8 final size:8
Alignment explanation
Indices: 70085688--70085733 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
70085678 ATTTTATGTT
70085688 TTATTATA
1 TTATTATA
70085696 TTATATTATA
1 -T-TATTATA
70085706 TTATTATA
1 TTATTATA
*
70085714 TTAATATA
1 TTATTATA
70085722 TTATTATA
1 TTATTATA
70085730 TTAT
1 TTAT
70085734 ATACTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 25 0.74
9 2 0.06
10 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:70085710 original size:13 final size:13
Alignment explanation
Indices: 70085694--70085735 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
70085684 TGTTTTATTA
70085694 TATTATATTATAT
1 TATTATATTATAT
70085707 TATTATATTAATATAT
1 TATTATA-T--TATAT
70085723 TATTATATTATAT
1 TATTATATTATAT
70085736 ACTTAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 1 0.04
16 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:70091014 original size:57 final size:57
Alignment explanation
Indices: 70090926--70091040 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
70090916 TTCTTGCTTG
70090926 TTTGACATGGATGTCCAGTTTTCTTACAATGCCATCTGGGTCTATCGGATTTGTTCA
1 TTTGACATGGATGTCCAGTTTTCTTACAATGCCATCTGGGTCTATCGGATTTGTTCA
* *
70090983 TTTGACATGGATGTTCAGTTTTCTTACAATGCCATCTGGGTCTGTCGGATTTGTTCA
1 TTTGACATGGATGTCCAGTTTTCTTACAATGCCATCTGGGTCTATCGGATTTGTTCA
70091040 T
1 T
70091041 GTCCAGTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (57 bp):
TTTGACATGGATGTCCAGTTTTCTTACAATGCCATCTGGGTCTATCGGATTTGTTCA
Found at i:70092356 original size:24 final size:24
Alignment explanation
Indices: 70092328--70092392 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 24
70092318 ATGTCACATC
70092328 AATAAATAATTTAAAA-TTTATAAA
1 AATAAA-AATTTAAAATTTTATAAA
* *
70092352 AATAAAAAATTAAAATTTTTTAAA
1 AATAAAAATTTAAAATTTTATAAA
70092376 AATATAAAAGTTTAAAA
1 AATA-AAAA-TTTAAAA
70092393 AAATTAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.23
24 17 0.49
25 4 0.11
26 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AATAAAAATTTAAAATTTTATAAA
Found at i:70092377 original size:18 final size:17
Alignment explanation
Indices: 70092354--70092399 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
70092344 TTTATAAAAA
*
70092354 TAAAAAATTAAAATTTT
1 TAAAAAATTAAAAGTTT
*
70092371 TTAAAAATATAAAAGTTT
1 TAAAAAAT-TAAAAGTTT
*
70092389 AAAAAAATTAA
1 TAAAAAATTAA
70092400 TATGTAGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAAATTAAAAGTTT
Found at i:70094847 original size:3 final size:3
Alignment explanation
Indices: 70094837--70094865 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
70094827 TTTTTTCTAA
70094837 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
70094866 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:70094994 original size:17 final size:17
Alignment explanation
Indices: 70094972--70095004 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
70094962 TGACCGTGTA
70094972 GTGAAGCAGTGAAGAAT
1 GTGAAGCAGTGAAGAAT
70094989 GTGAAGCAGTGAAGAA
1 GTGAAGCAGTGAAGAA
70095005 AGAAAGAAGA
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):
GTGAAGCAGTGAAGAAT
Found at i:70098902 original size:20 final size:21
Alignment explanation
Indices: 70098870--70098926 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
70098860 AATATAATGC
70098870 AAAA-AAA-TAATTTACAT-A
1 AAAATAAAGTAATTTACATAA
70098888 AAAATAAAGTAATTTACATAA
1 AAAATAAAGTAATTTACATAA
70098909 AAAATAAAGTAATTTACA
1 AAAATAAAGTAATTTACA
70098927 ATACAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 10 0.28
21 19 0.53
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAAGTAATTTACATAA
Found at i:70099148 original size:33 final size:33
Alignment explanation
Indices: 70099086--70099148 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
70099076 ATGAACTCGA
* **
70099086 GCCGGGGGGAGTAGAGAACGGCGTTGGATATGG
1 GCCGGGGGGAGAAGAGAACGGCGACGGATATGG
*
70099119 GCCGGGGGGAGAAGAGAATGGCGACGGATA
1 GCCGGGGGGAGAAGAGAACGGCGACGGATA
70099149 CGGCTCTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.51, T:0.11
Consensus pattern (33 bp):
GCCGGGGGGAGAAGAGAACGGCGACGGATATGG
Found at i:70101671 original size:26 final size:28
Alignment explanation
Indices: 70101627--70101714 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 28
70101617 TATAATCTTA
*
70101627 AATTACTAA-TA-AATTAATTTTAAAAT
1 AATTACTAACTACAAATAATTTTAAAAT
*
70101653 AATTACTAAC-ACAAA-AATTTATCAAAT
1 AATTACTAACTACAAATAATTT-TAAAAT
*
70101680 AATT-CTAAACTACAAATAATTATAAAA-
1 AATTACT-AACTACAAATAATTTTAAAAT
*
70101707 ATTTACTA
1 AATTACTA
70101715 TCCTTCTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
26 17 0.34
27 18 0.36
28 11 0.22
29 4 0.08
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (28 bp):
AATTACTAACTACAAATAATTTTAAAAT
Found at i:70101725 original size:3 final size:3
Alignment explanation
Indices: 70101717--70101746 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
70101707 ATTTACTATC
70101717 CTT CTT CTT CTT CTTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT C-TT CTT CTT CTT CTT CT
70101747 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:70101736 original size:13 final size:13
Alignment explanation
Indices: 70101718--70101749 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
70101708 TTTACTATCC
70101718 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
70101731 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
70101744 TCTCTT
1 T-TCTT
70101750 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTCTTCTTCTTCT
Found at i:70102352 original size:23 final size:24
Alignment explanation
Indices: 70102316--70102360 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
70102306 CAAAATTGGC
*
70102316 CGGTCGACT-CTTTTTCTTCATAA
1 CGGTCGACTATTTTTTCTTCATAA
*
70102339 CGGTCGATTATTTTTTCTTCAT
1 CGGTCGACTATTTTTTCTTCAT
70102361 TAAGAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (24 bp):
CGGTCGACTATTTTTTCTTCATAA
Found at i:70105745 original size:94 final size:92
Alignment explanation
Indices: 70105628--70105799 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
70105618 AACTCTTAGT
* *
70105628 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACGT-CTCGAGGCCCATACATGTCCCAAAC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCCATACATGTCCCAAAC
70105691 ATGTCTTACACTAGCACTCGTCTCAATGC
64 ATGTCTTACACTAGCACTCGTCTCAATGC
* * * *
70105720 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAAC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCCATACATGTCCCAAAC
*
70105785 GTGTCTTACACTAGC
64 ATGTCTTACACTAGC
70105800 TCACATAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCCATACATGTCCCAAACAT
GTCTTACACTAGCACTCGTCTCAATGC
Found at i:70105807 original size:46 final size:46
Alignment explanation
Indices: 70105628--70105807 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 46
70105618 AACTCTTAGT
* * * * *
70105628 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACGT-CTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCACATAAT-GTGGC
* * *
70105674 CCATACATGTCCCAAACATGTCTTACACTAGCACTCGTC-TCAA--T-GC
1 CGATGCATGTCCCAAACATGTCTTACACTAG--CTC-ACAT-AATGTGGC
* * *
70105720 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCACATAATGTGGC
*
70105768 CGATGCATGTCCCAAACGTGTCTTACACTAGCTCACATAA
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCACATAA
70105808 GTGACCCAAA
Statistics
Matches: 108, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
45 4 0.04
46 56 0.52
47 26 0.24
48 21 0.19
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTCACATAATGTGGC
Found at i:70109333 original size:39 final size:39
Alignment explanation
Indices: 70109289--70109368 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
70109279 CAATTCAATC
* *
70109289 TACTCATCTTGAGCATATTAATCAATAGAAGGGAGGCTT
1 TACTCATCTTGAGCATATTAATCAATAAAAAGGAGGCTT
* *
70109328 TACTCATCTTGAGCATCTTAATCGATAAAAAGGAGGCTT
1 TACTCATCTTGAGCATATTAATCAATAAAAAGGAGGCTT
70109367 TA
1 TA
70109369 TTTGATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (39 bp):
TACTCATCTTGAGCATATTAATCAATAAAAAGGAGGCTT
Found at i:70110071 original size:12 final size:12
Alignment explanation
Indices: 70110056--70110091 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
70110046 TGACTGTTTG
70110056 TTTGAACAACTA
1 TTTGAACAACTA
70110068 TTTGAACAACTA
1 TTTGAACAACTA
70110080 TTTGAAC-ACTA
1 TTTGAACAACTA
70110091 T
1 T
70110092 ATTCAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (12 bp):
TTTGAACAACTA
Found at i:70113099 original size:25 final size:26
Alignment explanation
Indices: 70113071--70113119 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
70113061 CAACAAAAAT
70113071 AAAATCT-ATTCTAAAAA-GAAAAGGG
1 AAAATCTAATT-TAAAAATGAAAAGGG
70113096 AAAATCTAATTTAAAAATGAAAAG
1 AAAATCTAATTTAAAAATGAAAAG
70113120 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.22
Consensus pattern (26 bp):
AAAATCTAATTTAAAAATGAAAAGGG
Found at i:70113125 original size:26 final size:25
Alignment explanation
Indices: 70113071--70113125 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
70113061 CAACAAAAAT
**
70113071 AAAATCTATTCTAAAAAGAAAAGGG
1 AAAATCTATTCTAAAAAGAAAAGAA
70113096 AAAATCTAATT-TAAAAATGAAAAGAA
1 AAAATCT-ATTCTAAAAA-GAAAAGAA
70113122 AAAA
1 AAAA
70113126 GAAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (25 bp):
AAAATCTATTCTAAAAAGAAAAGAA
Found at i:70131537 original size:21 final size:21
Alignment explanation
Indices: 70131482--70131620 Score: 82
Period size: 21 Copynumber: 6.5 Consensus size: 21
70131472 CCGAAGGCTG
* * * *
70131482 AACAGAAGCACACAAGTGCTA
1 AACAGAAGCTCATAAGAGTTA
* * *
70131503 AACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGTTA
*
70131524 AACAGAAGCTCATAAAAGAGCTA
1 AACAGAAGCTCAT--AAGAGTTA
* * *
70131547 AAC-GAAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGTTA
* *
70131568 AACAGAAGCTCAAAAGAGTTG
1 AACAGAAGCTCATAAGAGTTA
** * *
70131589 AATGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGTTA
*
70131610 AACAAAAGCTC
1 AACAGAAGCTC
70131621 GTGAGAGCTA
Statistics
Matches: 86, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
21 69 0.80
22 2 0.02
23 15 0.17
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTA
Found at i:70131610 original size:42 final size:43
Alignment explanation
Indices: 70131482--70131620 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 43
70131472 CCGAAGGCTG
* * * *
70131482 AACAGAAGCAC-ACAAGTGCTAAAC-AGAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAAGAGCTAAACGA-AAACCCATAAGAGTTA
*
70131524 AACAGAAGCTCATAAAAGAGCTAAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCA-AAAAGAGCTAAACGAAAACCCATAAGAGTTA
* * * * * *
70131568 AACAGAAGCTC-AAAAGAGTTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAAGAGCTAAACGAAAACCCATAAGAGTTA
*
70131610 AACAAAAGCTC
1 AACAGAAGCTC
70131621 GTGAGAGCTA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 44 0.53
44 38 0.46
45 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (43 bp):
AACAGAAGCTCAAAAAGAGCTAAACGAAAACCCATAAGAGTTA
Found at i:70136382 original size:47 final size:47
Alignment explanation
Indices: 70136262--70136438 Score: 185
Period size: 48 Copynumber: 3.9 Consensus size: 47
70136252 TACCATAGTT
* *
70136262 ATACATGTAACGTGGTGCTAATTAGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACG-TTACACATATTG
* * *
70136310 ATACATGTAACGTAGTGCTAAGTGGATATGCCACAGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAC-GTTACACATATTG
* *
70136358 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGT-----TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGTTACACATATTG
*
70136396 A-ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAC-GTTACACAT
70136439 GTAATGTGGT
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
37 3 0.03
38 28 0.25
39 2 0.02
41 2 0.02
44 1 0.01
46 2 0.02
47 25 0.23
48 46 0.42
49 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (47 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGTTACACATATTG
Found at i:70136415 original size:38 final size:38
Alignment explanation
Indices: 70136364--70136478 Score: 194
Period size: 38 Copynumber: 3.0 Consensus size: 38
70136354 ATTGATTCAT
70136364 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
70136402 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
70136440 TAATGTGGTGCTAAGTGGATATGCCACGATTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
70136478 T
1 T
70136479 TAAATTGAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:70139896 original size:31 final size:31
Alignment explanation
Indices: 70139861--70139920 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
70139851 ACCATCGTTT
* *
70139861 TTGGGAAATCTATGGTGGTAAGCCATCATCG
1 TTGGGAAATCCAAGGTGGTAAGCCATCATCG
* * *
70139892 TTGGGCAATCCAAGGTGGTAGGTCATCAT
1 TTGGGAAATCCAAGGTGGTAAGCCATCAT
70139921 TGCTAGGCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (31 bp):
TTGGGAAATCCAAGGTGGTAAGCCATCATCG
Found at i:70141495 original size:26 final size:26
Alignment explanation
Indices: 70141446--70141495 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
70141436 GATCAGGACC
* *
70141446 ATTTCACAGCTCGTGTAAGAAAACCT
1 ATTTCACAGCTCATGCAAGAAAACCT
*
70141472 ATTTCACAGCTCATGCAAGCAAAC
1 ATTTCACAGCTCATGCAAGAAAAC
70141496 TATGTATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (26 bp):
ATTTCACAGCTCATGCAAGAAAACCT
Found at i:70153058 original size:12 final size:12
Alignment explanation
Indices: 70153041--70153065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70153031 TATTATACTA
70153041 ACTTGAATGTTG
1 ACTTGAATGTTG
70153053 ACTTGAATGTTG
1 ACTTGAATGTTG
70153065 A
1 A
70153066 GTTTGTGCAT
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:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (12 bp):
ACTTGAATGTTG
Found at i:70164237 original size:13 final size:13
Alignment explanation
Indices: 70164215--70164247 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
70164205 AATGGTTTGT
70164215 TTAT-TAAACTAA
1 TTATCTAAACTAA
70164227 TTATCTAAACTAA
1 TTATCTAAACTAA
*
70164240 TTAACTAA
1 TTATCTAA
70164248 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:70167166 original size:6 final size:6
Alignment explanation
Indices: 70167147--70167193 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
70167137 CTTTATAACG
* * *
70167147 AAAAAT AAACAT AAAAAT AAAAAT AGAAAT AGAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
70167194 AATAAGAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:70177197 original size:48 final size:48
Alignment explanation
Indices: 70177126--70177305 Score: 219
Period size: 48 Copynumber: 3.9 Consensus size: 48
70177116 CCATGGTTAT
70177126 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
* * * *
70177174 ATATGTGATCCCATGTAAGACCATGTCTGGGAGATGGCATTGGCTTCA
1 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
*
70177222 ATATGTGATCCCATATAAGACCATATCTGGGATAT-G-A----CATCG
1 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
* ** * * *
70177264 ACATGTGATTTCGTGTAAGACAATATCTGGGATATGGTATTG
1 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTG
70177306 ATATGAGACT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
42 32 0.29
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
48 76 0.68
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
Found at i:70177283 original size:42 final size:42
Alignment explanation
Indices: 70177237--70177330 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
70177227 TGATCCCATA
* *
70177237 TAAGACCATATCTGGGATATGACATCGACATGTGATTTCGTG
1 TAAGACCATATCTGGGATATGACATCGACATGAGACTTCGTG
* ** * *
70177279 TAAGACAATATCTGGGATATGGTATTGATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGACATCGACATGAGACTTCGTG
70177321 TAAGACCATA
1 TAAGACCATA
70177331 GTTAGGCTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGACATCGACATGAGACTTCGTG
Found at i:70183564 original size:18 final size:18
Alignment explanation
Indices: 70183541--70183577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
70183531 AAACAATTAG
70183541 GCTTTGAAGCACTTTCTT
1 GCTTTGAAGCACTTTCTT
70183559 GCTTTGAAGCACTTTCTT
1 GCTTTGAAGCACTTTCTT
70183577 G
1 G
70183578 GCAAAGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (18 bp):
GCTTTGAAGCACTTTCTT
Found at i:70187619 original size:12 final size:12
Alignment explanation
Indices: 70187598--70187628 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
70187588 GTAAACTCAA
70187598 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
70187610 AAAAAGAAAAAG
1 AAAAAAAAAAAG
70187622 AAAAAAA
1 AAAAAAA
70187629 GGTTACCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:70188662 original size:17 final size:18
Alignment explanation
Indices: 70188642--70188682 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
70188632 AGTTTTGCAA
70188642 ATTCAATACCTA-AA-TTT
1 ATTCAATA-CTAGAATTTT
70188659 ATTCAATACTAGAATTTT
1 ATTCAATACTAGAATTTT
70188677 ATTCAA
1 ATTCAA
70188683 ATTTTATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTCAATACTAGAATTTT
Found at i:70191799 original size:41 final size:41
Alignment explanation
Indices: 70191730--70191988 Score: 369
Period size: 41 Copynumber: 6.4 Consensus size: 41
70191720 GTTTTAATAA
* * *
70191730 AAAATGCCACTAAAAA-TAGAGCATTAGCGGCGCTTCTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
* * *
70191770 AAAACGTCGCTAAAAACCAGAGAATTAGCGTCGCTTCTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
* *
70191811 AAAACGTCGCTAAAAACCAGAGCATTAGTGGCGCTTCTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
**
70191852 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTCTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
* * *
70191893 AAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
* *
70191934 AAAACGCCGCT-AAAACAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
70191974 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
70191989 GTCATATAAC
Statistics
Matches: 196, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 50 0.26
41 146 0.74
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCTGGT
Found at i:70191881 original size:123 final size:121
Alignment explanation
Indices: 70191687--70191988 Score: 394
Period size: 123 Copynumber: 2.5 Consensus size: 121
70191677 TGGCGTTTTG
* * * * ** * *
70191687 GGTAAAACGCCGCTAAAA-AAGAGCAATAGTGACG-TTTTAATAAAAAATGCCACTAAAAATAGA
1 GGTAAAACGCCGCTAAAACAAGAGCATTAGCGGCGCTTCTGGT--AAAACGCCGCTAAAAATAGA
* * *
70191750 GCATTAGCGGCGCTTCTGGTAAAACGTCGCTAAAAACCAGAGA-ATTAGCGTCGCTTCT
64 GCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAACCAGA-ACATTAGCGGCACTTCT
* * *
70191808 GGTAAAACGTCGCTAAAAACCAGAGCATTAGTGGCGCTTCTGGTAAAACGCCGCTAAAAATAAGA
1 GGTAAAACGCCGCT-AAAACAAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAAT-AGA
*
70191873 GCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTT
64 GCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTCT
*
70191931 GGTAAAACGCCGCTAAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 GGTAAAACGCCGCTAAAACAAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAA
70191989 GTCATATAAC
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
121 13 0.08
122 61 0.38
123 81 0.51
124 4 0.03
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (121 bp):
GGTAAAACGCCGCTAAAACAAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAATAGAGC
ATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTCT
Found at i:70192168 original size:14 final size:14
Alignment explanation
Indices: 70192146--70192197 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
70192136 TTAATTGTCA
*
70192146 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
70192160 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
70192174 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
70192188 TTAAGGTTTA
1 TTATGGTTTA
70192198 TGAGTTAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:70192183 original size:21 final size:21
Alignment explanation
Indices: 70192157--70192238 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 21
70192147 TATAGTTTAA
70192157 GGTTTATGGTTTAAGATATAT
1 GGTTTATGGTTTAAGATATAT
* * *
70192178 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTATGGTTTAAGATATAT
70192199 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TATGGTTTAAGATATAT
*
70192224 AGTTTA-GAGTTTAAG
1 GGTTTATG-GTTTAAG
70192239 GTTTATGAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 28 0.57
22 3 0.06
24 3 0.06
25 14 0.29
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
GGTTTATGGTTTAAGATATAT
Found at i:70192211 original size:46 final size:46
Alignment explanation
Indices: 70192161--70192254 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
70192151 GTTTAAGGTT
* *
70192161 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGAGTTTAAGGTTTATGAGTTAAC
70192207 TATGGTTTAAGATATATAGTTTAGAGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGAGTTTAAGGTTTATGAGTTAAC
70192253 TA
1 TA
70192255 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGAGTTTAAGGTTTATGAGTTAAC
Found at i:70194417 original size:58 final size:58
Alignment explanation
Indices: 70194327--70194442 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
70194317 ATTTTTCCTC
70194327 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
1 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
70194385 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
1 ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
70194443 TGCAATGATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (58 bp):
ATTGTCAGTGGGATGGTTTAAATAACATTTAAGGTCTAACTTTATGTTACTGGGACTA
Found at i:70197398 original size:43 final size:43
Alignment explanation
Indices: 70197307--70197498 Score: 258
Period size: 43 Copynumber: 4.4 Consensus size: 43
70197297 TTTTGAATTT
* *
70197307 ATGACATTTAGCAGCGTTTGTGGGAAAAAACGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCGTTTGTGGG-AAAAACGCCGCTAAAAGTC
* *
70197351 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAAGTC
* * * * *
70197394 ATGACCTTTAGCGGTGTTTGTGGTAAAAGCGCTGCTAAATGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAAGTC
*
70197437 ATGACCTTTAGCGGCATTTGTGGGAAAAACGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAAGTC
** *
70197480 ATGATTTTTAGTGGCGTTT
1 ATGACCTTTAGCGGCGTTT
70197499 TTTCAAATAA
Statistics
Matches: 129, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
43 108 0.84
44 21 0.16
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAAGTC
Found at i:70201556 original size:55 final size:53
Alignment explanation
Indices: 70201435--70201648 Score: 209
Period size: 55 Copynumber: 4.0 Consensus size: 53
70201425 ATAAGGATAT
* * **
70201435 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGCCAAGAAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAG-GAA-AAGGTC
** *
70201489 CATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGAAAAGGT-C
* * * *
70201544 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-CAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGG-T-C
* * * * *
70201597 CACGTAAGACCATGTCAAGACATGGCAATGATAAGTTCAAAAAGGAAAAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGGT
70201649 TCCCGAGTAA
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 42 0.32
55 44 0.33
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGGTC
Found at i:70218660 original size:54 final size:54
Alignment explanation
Indices: 70218596--70218872 Score: 279
Period size: 54 Copynumber: 5.0 Consensus size: 54
70218586 TTGGTAAGAT
* *
70218596 AAGGATATCATGTAAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
* * **
70218650 AAGGAAATCATGTAAGACAAGACCATGCCAAGTCATGGCATTGATAAGTTCTATAAGTC
1 AAGGATATCATGT-----AAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
* *
70218709 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-A
** * * * * *
70218765 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCTTTGGTGAGTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
* * * * * * *
70218817 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
70218871 AA
1 AA
70218873 AGGTTCCTGA
Statistics
Matches: 187, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
52 4 0.02
53 40 0.21
54 50 0.27
55 39 0.21
56 4 0.02
59 50 0.27
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
Found at i:70218848 original size:108 final size:109
Alignment explanation
Indices: 70218596--70218876 Score: 325
Period size: 108 Copynumber: 2.6 Consensus size: 109
70218586 TTGGTAAGAT
* * * * *
70218596 AAGGATATCATGTAAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGG-AAAGGAAATCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGG-TACCA
* *
70218660 TGTAAGACAAGACCATGCCAAGTCATGGCATTGATAAGTTCTATAAGTC
65 TGT---A-AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
70218709 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTCCCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGGAAAAGGTACCA
* * *
70218774 TGT-AAGACCATGCCAAGGCATGGCTTTGGTGAGTTC-ATAAGGC
65 TGTAAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
70218817 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGGT
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGGT
70218877 TCCTGAGTAA
Statistics
Matches: 147, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
107 13 0.09
108 46 0.31
109 29 0.20
113 41 0.28
114 13 0.09
115 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (109 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGAAAAGGTACCAT
GTAAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:70218863 original size:53 final size:54
Alignment explanation
Indices: 70218596--70218862 Score: 268
Period size: 59 Copynumber: 4.9 Consensus size: 54
70218586 TTGGTAAGAT
* * * *
70218596 AAGGATATCATGTAAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
70218650 AAGGAAATCATGTAAGACAAGACCATGCCAAGTCATGGCATTGATAAGTTCTATAAGTC
1 AAGGATACCATGT-----AAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
70218709 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-C
* * * * *
70218765 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCTTTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
70218817 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
70218863 AAAAAGGAAA
Statistics
Matches: 180, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.02
53 40 0.22
54 43 0.24
55 39 0.22
56 4 0.02
59 50 0.28
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:70221465 original size:49 final size:49
Alignment explanation
Indices: 70221390--70221606 Score: 177
Period size: 49 Copynumber: 4.6 Consensus size: 49
70221380 GTCTTACACT
*
70221390 GATGCCATGTCCCAGAAAGGTCTTACACTGACTTTCATATATCAAGGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTC
* * * * *
70221439 GATGCCATGTCCCAGACAGGTATTACATTGGCTCTCATGTATC--GGTGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGT--C
* * * * *
70221488 GATGCCATGTCCCAGAAAAGTCTTACACTGAC--ACACA-A-CAAGCT-
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTC
* * *
70221532 GATGCCATATCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGG-C
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCAAGGTC
*
70221580 TGATG-CATGTCCCAGACATGTCTTACA
1 -GATGCCATGTCCCAGACAGGTCTTACA
70221607 ATAGCTCTCG
Statistics
Matches: 131, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 27 0.21
45 1 0.01
46 3 0.02
47 7 0.05
48 23 0.18
49 69 0.53
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTC
Found at i:70221603 original size:48 final size:46
Alignment explanation
Indices: 70221527--70221663 Score: 139
Period size: 46 Copynumber: 2.9 Consensus size: 46
70221517 GACACACAAC
* * * * *
70221527 AAGCTGATGCCATATCCCAGACAGGTCTTACACTAGCTTGTATATCTCG
1 AAGCTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCA
* * *
70221576 AGGCTGATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCA
1 AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA
* * * *
70221622 AAGCCGATGCATGTCCCAGGCATGTCTTACACTGGCACTCAT
1 AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT
70221664 ATCACCAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
46 39 0.53
47 2 0.03
48 24 0.33
49 8 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA
Found at i:70228305 original size:48 final size:47
Alignment explanation
Indices: 70228197--70228419 Score: 186
Period size: 48 Copynumber: 4.7 Consensus size: 47
70228187 AGATGTAAGC
** *
70228197 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGTTACG--AGATGTGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GACACGATAGAGGTGT
* *
70228241 CAGTGTAAGCCCATGTCTGGGACATGGCATCGACACGTATAGAGGTGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGACACG-ATAGAGGTGT
* * *
70228289 TAGTGTAAGACCATGTCTGGGACATGGCATC-AGCACAGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGA-CAC-GATA-GAG-GTGT
* * * *** * *
70228339 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAAT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GACACGATAGAGGT-GT
*
70228388 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
70228420 GCATTATATC
Statistics
Matches: 146, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 8 0.05
45 18 0.12
46 5 0.03
47 1 0.01
48 43 0.29
49 34 0.23
50 35 0.24
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGTGT
Found at i:70228412 original size:49 final size:50
Alignment explanation
Indices: 70228151--70228422 Score: 195
Period size: 50 Copynumber: 5.7 Consensus size: 50
70228141 TATTTGTGTA
* * *
70228151 CTAGTGTAAGA--ATGTCTGGAACAT-GCATCGGC-CTTGAGATGT--AAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGAAAG
** * *
70228196 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGTTAC-GAGATGTG---T
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACAGATATGTGAAAG
* * * **
70228241 C-AGTGTAAGCCCATGTCTGGGACATGGCATCGACAC-G-TAT-AGAGGTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGA-AAG
* * *
70228288 TTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAAAG
* * * *
70228338 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGAT-TTTGATAAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGA-AAG
70228388 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
70228423 TTATATCTTA
Statistics
Matches: 186, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 10 0.05
45 30 0.16
46 29 0.16
47 1 0.01
48 33 0.18
49 38 0.20
50 42 0.23
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (50 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAAAG
Found at i:70229447 original size:28 final size:28
Alignment explanation
Indices: 70229407--70229462 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
70229397 ACATGGGCTA
70229407 GGACATGGGC-GTGTCATGGCCGTGTGAG
1 GGACATGGGCGGTGTCA-GGCCGTGTGAG
70229435 GGACATGGGCGTGTGTCAGGCCGTGTGA
1 GGACATGGGCG-GTGTCAGGCCGTGTGA
70229463 AAACCCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.38
29 10 0.38
30 6 0.23
ACGTcount: A:0.14, C:0.18, G:0.46, T:0.21
Consensus pattern (28 bp):
GGACATGGGCGGTGTCAGGCCGTGTGAG
Found at i:70241718 original size:49 final size:48
Alignment explanation
Indices: 70241661--70241791 Score: 174
Period size: 49 Copynumber: 2.7 Consensus size: 48
70241651 ACATCAAAGT
* *
70241661 CGATGCCATGTCCTAGACAGCTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAG-TCTTACACTGACTCTCATATATCG-GTGC
*
70241710 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCGGTGC
1 CGATGCCATGTCCCAGACA-GTCTTACACTGACTCTCATATATCGGTGC
* *
70241759 CGATGCCCTGTCCCAGACAAGTCTTAGACTGAC
1 CGATGCCATGTCCCAGAC-AGTCTTACACTGAC
70241792 GCACAACAAG
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 1 0.01
49 71 0.96
50 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGTCTTACACTGACTCTCATATATCGGTGC
Found at i:70249636 original size:55 final size:55
Alignment explanation
Indices: 70249530--70249636 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
70249520 TTGTTTTGGC
* * * **
70249530 AGGTTCACCCACGGTTTGAAGGCACAAGCGTTTTGCACGCCCGTGTTAATTTGAT
1 AGGTTCACCCACGGTTTGAAGGCACAAGCATGTCGCACGCCCGTGGCAATTTGAT
* * *
70249585 AGGTTCAGCCACGGTTTGAAGGCACAGGCATGTCGCACGGCCGTGGCAATTT
1 AGGTTCACCCACGGTTTGAAGGCACAAGCATGTCGCACGCCCGTGGCAATTT
70249637 ATCGTAGCCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (55 bp):
AGGTTCACCCACGGTTTGAAGGCACAAGCATGTCGCACGCCCGTGGCAATTTGAT
Found at i:70253322 original size:14 final size:13
Alignment explanation
Indices: 70253299--70253330 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
70253289 AGAATATCAA
70253299 AACAATAATTAAG
1 AACAATAATTAAG
70253312 AACACATAATTAAG
1 AACA-ATAATTAAG
70253326 AACAA
1 AACAA
70253331 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:70265436 original size:42 final size:42
Alignment explanation
Indices: 70265323--70265491 Score: 142
Period size: 43 Copynumber: 4.0 Consensus size: 42
70265313 GGAAAGCTTG
* * *
70265323 TACAATGCCAATGTCCCATACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
** * * *
70265365 TATCGTTGCCACTGTCCTAGACAGGGTCTTACATGAAATCAAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
* * * *
70265408 TACAATGCCAATATCCCGGACATGGTCTTAGACGTAAATCTCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATG-AAA--TCAAA
** * * *
70265453 T-CGGTGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
70265492 CATATCGAAA
Statistics
Matches: 99, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
41 3 0.03
42 25 0.25
43 40 0.40
44 25 0.25
45 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
Found at i:70269167 original size:15 final size:15
Alignment explanation
Indices: 70269147--70269175 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70269137 TACAAGCTTG
70269147 AAAATTAAGTCAAAT
1 AAAATTAAGTCAAAT
70269162 AAAATTAAGTCAAA
1 AAAATTAAGTCAAA
70269176 CATTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAAATTAAGTCAAAT
Found at i:70269236 original size:22 final size:22
Alignment explanation
Indices: 70269164--70269236 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
70269154 AGTCAAATAA
70269164 AATTAAGTCAAACATTT-ACTAT
1 AATTAAGTCAAACATTTGA-TAT
* * *
70269186 AATTAAATTAATACAAACTTGA-A-
1 AATTAAGTCAA-AC--ATTTGATAT
70269209 AATTAAGTCAAACATTTGATAT
1 AATTAAGTCAAACATTTGATAT
70269231 AATTAA
1 AATTAA
70269237 ATTAATACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 5 0.13
21 1 0.03
22 17 0.44
23 11 0.28
24 1 0.03
25 3 0.08
26 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (22 bp):
AATTAAGTCAAACATTTGATAT
Found at i:70270948 original size:24 final size:25
Alignment explanation
Indices: 70270904--70270966 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 25
70270894 TACTATCTTT
70270904 TTCTTCTTTTTTTACAATCTCCTTTTC
1 TTCTTCTTTTTTTAC-ATCT-CTTTTC
70270931 TTCTTCTTTTTTT-C-TCTCTTTTC
1 TTCTTCTTTTTTTACATCTCTTTTC
70270954 TT-TTCTTTTTTTA
1 TTCTTCTTTTTTTA
70270967 GCGTCTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 10 0.29
23 8 0.23
24 3 0.09
26 1 0.03
27 13 0.37
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (25 bp):
TTCTTCTTTTTTTACATCTCTTTTC
Found at i:70270960 original size:10 final size:11
Alignment explanation
Indices: 70270902--70270962 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
70270892 ACTACTATCT
*
70270902 TTTTCTTCTTT
1 TTTTCTTCTTC
* *
70270913 TTTTACAATCTCC
1 TTTT-C-TTCTTC
70270926 TTTTCTTCTTC
1 TTTTCTTCTTC
*
70270937 TTTTTTTCTCTC
1 TTTTCTTCT-TC
70270949 TTTTCTT-TTC
1 TTTTCTTCTTC
70270959 TTTT
1 TTTT
70270963 TTTAGCGTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 6 0.15
11 17 0.43
12 10 0.25
13 7 0.17
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTCTTCTTC
Found at i:70270982 original size:25 final size:23
Alignment explanation
Indices: 70270925--70270985 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
70270915 TTACAATCTC
* **
70270925 CTTTTCTTCTTCTTTTTTTCTCT
1 CTTTTCTTTTTCTTTTTTTAGCT
70270948 CTTTTC-TTTTCTTTTTTTAGCGT
1 CTTTTCTTTTTCTTTTTTTAGC-T
70270971 CTTCTTCTTTTTCTT
1 CTT-TTCTTTTTCTT
70270986 CTCTCTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 10 0.31
24 3 0.09
25 7 0.22
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (23 bp):
CTTTTCTTTTTCTTTTTTTAGCT
Found at i:70270995 original size:12 final size:12
Alignment explanation
Indices: 70270899--70270994 Score: 54
Period size: 12 Copynumber: 7.5 Consensus size: 12
70270889 TAAACTACTA
70270899 TCTTTTTCTTCT
1 TCTTTTTCTTCT
*
70270911 T-TTTTTACAATC-
1 TCTTTTT-C-TTCT
*
70270923 TCCTTTTCTTCT
1 TCTTTTTCTTCT
70270935 TCTTTTT-TTCT
1 TCTTTTTCTTCT
*
70270946 CTCTTTTCTTTTCT
1 -TCTTTT-TCTTCT
*
70270960 TTTTTTAGCGTCTTCT
1 TCTTTT----TCTTCT
70270976 TCTTTTTCTTCT
1 TCTTTTTCTTCT
70270988 CTCTTTT
1 -TCTTTT
70270995 CTTTGCTCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
11 11 0.17
12 22 0.34
13 18 0.28
14 4 0.06
16 10 0.15
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:70271303 original size:3 final size:3
Alignment explanation
Indices: 70271295--70271324 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
70271285 CAGTTAAAAA
70271295 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
70271325 TTGTAATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:70280990 original size:18 final size:19
Alignment explanation
Indices: 70280969--70281008 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
70280959 TTGAACTTTA
70280969 TTTAAT-ATTCTTAT-AAAT
1 TTTAATAATT-TTATAAAAT
70280987 TTTAATAATTTTATAAAAT
1 TTTAATAATTTTATAAAAT
70281006 TTT
1 TTT
70281009 TAAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATAATTTTATAAAAT
Found at i:70281115 original size:23 final size:23
Alignment explanation
Indices: 70281089--70281141 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
70281079 ATATTCATTA
*
70281089 TATTTTTTTAAAAATGATTTTTT
1 TATTTTTTAAAAAATGATTTTTT
*
70281112 TATTTTCTAAAAAATGATTTTTT
1 TATTTTTTAAAAAATGATTTTTT
70281135 TATTTTT
1 TATTTTT
70281142 ATTGGCGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTTTTAAAAAATGATTTTTT
Found at i:70284565 original size:14 final size:13
Alignment explanation
Indices: 70284544--70284583 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
70284534 AATTCAAGTA
70284544 AATATTTAAACAT
1 AATATTTAAACAT
70284557 AATTATTTAAA-A-
1 AA-TATTTAAACAT
70284569 AATATTTAAACAT
1 AATATTTAAACAT
70284582 AA
1 AA
70284584 AATATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 5 0.21
14 8 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTAAACAT
Found at i:70294515 original size:31 final size:31
Alignment explanation
Indices: 70294480--70294542 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
70294470 TAATATTAAA
70294480 TAAATTTAAT-TATATTAAATAAATTTAAATT
1 TAAA-TTAATATATATTAAATAAATTTAAATT
* * * *
70294511 TAAATTAATATTTATTAATTTAATTTTAATT
1 TAAATTAATATATATTAAATAAATTTAAATT
70294542 T
1 T
70294543 TATTATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TAAATTAATATATATTAAATAAATTTAAATT
Found at i:70294559 original size:20 final size:21
Alignment explanation
Indices: 70294507--70294547 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
70294497 AATAAATTTA
*
70294507 AATTTAA-ATTAATATTTATT
1 AATTTAATTTTAATATTTATT
70294527 AATTTAATTTTAAT-TTTATT
1 AATTTAATTTTAATATTTATT
70294547 A
1 A
70294548 TTATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTTAATTTTAATATTTATT
Found at i:70295338 original size:18 final size:18
Alignment explanation
Indices: 70295317--70295351 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
70295307 AAAATTTAGG
70295317 TATTTTAGATT-TTTTAAT
1 TATTTT-GATTCTTTTAAT
70295335 TATTTTGATTCTTTTAA
1 TATTTTGATTCTTTTAA
70295352 AATTTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTTTGATTCTTTTAAT
Found at i:70295356 original size:17 final size:18
Alignment explanation
Indices: 70295318--70295368 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
70295308 AAATTTAGGT
*
70295318 ATTTTAGATTTTTTAATT
1 ATTTTAGATTTTTTAATA
70295336 ATTTT-GATTCTTTTAA-A
1 ATTTTAGATT-TTTTAATA
*
70295353 ATTTTAAGAATTTTTA
1 ATTTT-AGATTTTTTA
70295369 TTTCAAGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 9 0.32
18 16 0.57
19 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTTTAGATTTTTTAATA
Found at i:70302643 original size:19 final size:20
Alignment explanation
Indices: 70302611--70302649 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
70302601 GAGAAGATAG
*
70302611 GGGAAGAAGAAGAAGAGAAA
1 GGGAAAAAGAAGAAGAGAAA
70302631 GGGAAAAAG-AGAAGAGAAA
1 GGGAAAAAGAAGAAGAGAAA
70302650 AATGGGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
GGGAAAAAGAAGAAGAGAAA
Found at i:70317540 original size:48 final size:47
Alignment explanation
Indices: 70317480--70317661 Score: 159
Period size: 48 Copynumber: 3.8 Consensus size: 47
70317470 GTGGTGTTAC
*
70317480 AGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATAT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATAT
* * * * ***
70317527 ACGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTAT
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATAT
* * ** * * * *
70317575 ATGTGTCAGCATAAGACCATGACTGGGACATGGCATTGGCACTGATGTAT
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-ATAT
70317625 GAGAGCCAGTGTAAGACCATGT-TCGGGACATGGCATC
1 -AGAGCCAGTGTAAGACCATGTCT-GGGACATGGCATC
70317662 AGCATTTTAC
Statistics
Matches: 102, Mismatches: 28, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
47 1 0.01
48 68 0.67
49 2 0.02
50 30 0.29
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATAT
Found at i:70325754 original size:9 final size:9
Alignment explanation
Indices: 70325740--70325771 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
70325730 AACGTGTTTT
70325740 TTGCATTCA
1 TTGCATTCA
70325749 TTGCATTCA
1 TTGCATTCA
70325758 TTGCATTCA
1 TTGCATTCA
70325767 -TGCAT
1 TTGCAT
70325772 CAGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:70333949 original size:44 final size:44
Alignment explanation
Indices: 70333894--70334933 Score: 292
Period size: 44 Copynumber: 23.6 Consensus size: 44
70333884 GATGGTGAGC
* *
70333894 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * ** *
70333938 CTTATCACCCTAAGCAGTAGGGAAACA-GAT-TGAATTCACTAG-C
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT-AC-AGAT
* *
70333981 CTTGA-CCCCCTAAGCAGTAAGGGTAACAGGCAAAAAATTATAGAT
1 CTT-ATCCCCCTAAGCAGT-AGGGTAACAGGCTAAAAATTACAGAT
* * ** * * * * *
70334026 CTCATCTCCCTCAA-CAGTAGCGG-AGTAGATCGAAGACAGTA-AG-C
1 CTTATCCCCCT-AAGCAGTAG-GGTAACAG-GCTAA-AAATTACAGAT
70334070 CTTGA-CCCCCTAAGCAGTAAGGGTAACAGGC-AGAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGT-AGGGTAACAGGCTA-AAAATTACAGAT
* * * * * * * * *
70334115 CTCATCTCCCTAAGTAGTAGCGG-AGCAGATCGAAGACAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAG-GCTAA-AAATTACAGAT
*
70334159 CTTGA-CCCCCTAAGCAGTAAGGTAACAGGCTAAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * * * * * * *
70334203 CTCATCTCCCTAAGTAGTAGCGG-AGCAGATCGAAGACAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAG-GCTAA-AAATTACAGAT
* * *
70334247 CTTGA-CCCCCTAAGCAGTTGGGTAATAGGCTGAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * * ** *
70334291 CTCATCTCCCTAAGCAGTAGCGG-AGCA-GTTCGAAA--ACAGTGAG
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCTAAAAATTACA--GAT
* * *
70334334 CGTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTATAGAT
1 C-TTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * **
70334379 CTTATCACCCTAAGCAGTAGGGAAACA-GAT-CGAATT-CA-AT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
*
70334419 AGCCTTGA-CCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGAT
1 ---CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * * ** *
70334466 CTCATCTCCCTAAGCAGTAGGGAAACA-GAT-CGAATTCACTAG-C
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT-AC-AGAT
*
70334509 CTTGA-CCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * ** * * * * *
70334553 CTCATCTCCCTAAGCAGTTGCGG-AGTAGATCGAAGACAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAG-GCTAA-AAATTACAGAT
70334597 CTTGA-CCCCCTAAGCAGTAAGGGTAACAGG-TAAAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGT-AGGGTAACAGGCT-AAAAATTACAGAT
* * * ** * * * *
70334642 CTCATCTCCCTAAGCAGTAGCGG-AGCAGATTGATGACAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCT-A-AAAATTACAGAT
*
70334686 CTTGA-CCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* * * * * *
70334730 CTCATCTCCCTAAGCAGTA--GTAGAGCAGATCGAAGACAGTA-AG-T
1 CTTATCCCCCTAAGCAGTAGGGTA-A-CAG-GCTAA-AAATTACAGAT
* *
70334774 CTTGA-CCCCTTAAACAGTAGGGTAACAGGC-AGAAAATTACAGAT
1 CTT-ATCCCCCTAAGCAGTAGGGTAACAGGCTA-AAAATTACAGAT
* ** * * *
70334818 CTTA-CCTCCCTAAGCAATAGTGG-AGTA-GAT-CAAA-TACAGGAAAAC
1 CTTATCC-CCCTAAGCAGTAG-GGTAACAGGCTAAAAATTACA-G---AT
* * *** *
70334863 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGGAATCACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
* *
70334907 CTTATCACCCTAAGCAGTAGGGGAACA
1 CTTATCCCCCTAAGCAGTAGGGTAACA
70334934 TATCAAAGAC
Statistics
Matches: 701, Mismatches: 194, Indels: 202
0.64 0.18 0.18
Matches are distributed among these distances:
40 2 0.00
41 8 0.01
42 36 0.05
43 123 0.18
44 350 0.50
45 132 0.19
46 40 0.06
47 7 0.01
48 3 0.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (44 bp):
CTTATCCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
Found at i:70334004 original size:88 final size:88
Alignment explanation
Indices: 70333802--70335006 Score: 1437
Period size: 88 Copynumber: 13.7 Consensus size: 88
70333792 CGGTGAATTT
* * ** * *
70333802 GTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGG-T-TGAATTATAGATCTTATCTCCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* **
70333865 AGTAGCGGAGCAAATCGAAGATG
66 AGTAGCGGAGCAGATCGAAGACA
* * * * *
70333888 GTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCACCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* * **
70333953 AGTAG-GGAAACAGATTGAATTCA
66 AGTAGCGG-AGCAGATCGAAGACA
* * *
70333976 CT-AGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAAAAAATTATAGATCTCATCTCCCTCAA
1 GTAAGCCTTGACCCCCTAAGCAGT-AGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCT-AA
*
70334040 -CAGTAGCGGAGTAGATCGAAGACA
64 GCAGTAGCGGAGCAGATCGAAGACA
70334064 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGC-AGAAAATTACAGATCTCATCTCCCTAA
1 GTAAGCCTTGACCCCCTAAGCAGT-AGGGTAACAGGCTA-AAAATTACAGATCTCATCTCCCTAA
*
70334128 GTAGTAGCGGAGCAGATCGAAGACA
64 GCAGTAGCGGAGCAGATCGAAGACA
* *
70334153 GTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGT
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
70334218 AGTAGCGGAGCAGATCGAAGACA
66 AGTAGCGGAGCAGATCGAAGACA
* * *
70334241 GTAAGCCTTGACCCCCTAAGCAGTTGGGTAATAGGCTGAAAATTACAGATCTCATCTCCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* *
70334306 AGTAGCGGAGCAGTTCGAAAACA
66 AGTAGCGGAGCAGATCGAAGACA
* * * * * * *
70334329 GTGAGCGTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* **
70334394 AGTAG-GGAAACAGATCGAATTCA
66 AGTAGCGG-AGCAGATCGAAGACA
* *
70334417 AT-AGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* **
70334481 AGTAG-GGAAACAGATCGAATTCA
66 AGTAGCGG-AGCAGATCGAAGACA
* *
70334504 CT-AGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
* *
70334568 AGTTGCGGAGTAGATCGAAGACA
66 AGTAGCGGAGCAGATCGAAGACA
70334591 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGG-TAAAAAATTACAGATCTCATCTCCCTAA
1 GTAAGCCTTGACCCCCTAAGCAGT-AGGGTAACAGGCT-AAAAATTACAGATCTCATCTCCCTAA
* *
70334655 GCAGTAGCGGAGCAGATTGATGACA
64 GCAGTAGCGGAGCAGATCGAAGACA
*
70334680 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTCATCTCCCTAAGC
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
**
70334745 AGTAGTAGAGCAGATCGAAGACA
66 AGTAGCGGAGCAGATCGAAGACA
* * * * *
70334768 GTAAGTCTTGACCCCTTAAACAGTAGGGTAACAGGC-AGAAAATTACAGATCTTACCTCCCTAAG
1 GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTA-AAAATTACAGATCTCATCTCCCTAAG
* * * * *
70334832 CAATAGTGGAGTAGATCAAATACA
65 CAGTAGCGGAGCAGATCGAAGACA
* * * * *** * * *
70334856 GGAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGGAATCACAGATCTTATCACCCTAAG
1 -GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAG
* * * *
70334921 CAGTAGGGGAACATATCAAAGAC-
65 CAGTAGCGGAGCAGATCGAAGACA
* * * ** * *
70334944 GATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGGAAATTCACAGATTTTATCTCCCT
1 G-TAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT-ACAGATCTCATCTCCCT
70335007 GAAGTTACAG
Statistics
Matches: 984, Mismatches: 114, Indels: 39
0.87 0.10 0.03
Matches are distributed among these distances:
86 34 0.03
87 182 0.18
88 496 0.50
89 272 0.28
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (88 bp):
GTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCATCTCCCTAAGC
AGTAGCGGAGCAGATCGAAGACA
Found at i:70334345 original size:265 final size:263
Alignment explanation
Indices: 70333802--70335006 Score: 1503
Period size: 265 Copynumber: 4.6 Consensus size: 263
70333792 CGGTGAATTT
* * *
70333802 GTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTTG--AATTATAGATCTTATCTCCCTAAGC
1 GTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAAAATTACAGATCTTATCTCCCTAAGC
* ** * * *
70333865 AGTAGCGGAGCAAATCGAAGATGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAA
66 AGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAA
* * * **
70333930 TTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATTGAATTCACTAGCCTTGACCCCCTAAG
131 TTACAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACACTAGCCTTGACCCCCTAAG
*
70333995 CAGTAAGGGTAACAGGCAAAAAATTATAGATCTCATCTCCCTCAA-CAGTAGCGGAGTAGATCGA
196 CAGT-AGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCT-AAGCAGTAGCGGAGTAGATCGA
*
70334059 AGACA
259 AAACA
* * *
70334064 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAGAAAATTACAGATCTCATCTCCCTAAG
1 GTAAGCCTTAACCCCCTAAGCAGT-AGGGTAACAGGTAGAAAATTACAGATCTTATCTCCCTAAG
* *
70334129 TAGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAA
65 CAGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAA
* * *
70334194 ATTACAGATCTCATCTCCCTAAGTAGTAGCGG-AGCAGATCGAAGACAGTAAGCCTTGACCCCCT
130 ATTACAGATCTCATCTCCCTAAGCAGTAG-GGAAACAGATCGAAGACACT-AGCCTTGACCCCCT
* * ** * *
70334258 AAGCAGTTGGGTAATAGGCTGAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGCAGTTCG
193 AAGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGTAGATCG
70334323 AAAACA
258 AAAACA
* * * * *
70334329 GTGAGCGTTAACCCCCTAAGTAGTAGGGTAACAGGCTA-AAAATTATAGATCTTATCACCCTAAG
1 GTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-TAGAAAATTACAGATCTTATCTCCCTAAG
* ** * *
70334393 CAGTAG-GGAAACAGATCGAATTCAAT-AGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCAAAA
65 CAGTAGCGG-AGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAA
**
70334456 AATTACAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACCCCCTA
129 AATTACAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACACTAGCCTTGACCCCCTA
*
70334521 AGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGTTGCGGAGTAGATCGA
194 AGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGTAGATCGA
*
70334586 AGACA
259 AAACA
* * *
70334591 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGTAAAAAATTACAGATCTCATCTCCCTAAG
1 GTAAGCCTTAACCCCCTAAGCAGT-AGGGTAACAGGTAGAAAATTACAGATCTTATCTCCCTAAG
* * *
70334656 CAGTAGCGGAGCAGATTGATGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTGAAA
65 CAGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAA
* * * * *
70334721 ATTACAGATCTCATCTCCCTAAGCAGTA-GTAGAGCAGATCGAAGACAGTAAGTCTTGACCCCTT
130 ATTACAGATCTCATCTCCCTAAGCAGTAGGGA-AACAGATCGAAGACACT-AGCCTTGACCCCCT
* * * * * *
70334785 AAACAGTAGGGTAACAGGCAGAAAATTACAGATCTTACCTCCCTAAGCAATAGTGGAGTAGATC-
193 AAGCAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGTAGATCG
70334849 AAATACA
258 AAA-ACA
* * * ** * *
70334856 GGAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGGAATCACAGATCTTATCACCCTAAG
1 -GTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAAAATTACAGATCTTATCTCCCTAAG
* * * * * * * **
70334921 CAGTAGGGGAACATATCAAAGAC-GATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGGA
65 CAGTAGCGGAGCAGATCGAAGACAG-TAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAA
* *
70334985 AATTCACAGATTTTATCTCCCT
129 AATT-ACAGATCTCATCTCCCT
70335007 GAAGTTACAG
Statistics
Matches: 814, Mismatches: 110, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
262 123 0.15
263 144 0.18
264 136 0.17
265 352 0.43
266 59 0.07
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (263 bp):
GTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTAGAAAATTACAGATCTTATCTCCCTAAGC
AGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTAAAAA
TTACAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACACTAGCCTTGACCCCCTAAG
CAGTAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGTAGATCGAAA
ACA
Found at i:70334434 original size:43 final size:43
Alignment explanation
Indices: 70334386--70334536 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
70334376 GATCTTATCA
70334386 CCCTAAGCAGTAGGGAAACAGATCGAATTCAATAGCCTTGACC
1 CCCTAAGCAGTAGGGAAACAGATCGAATTCAATAGCCTTGACC
* *** * *
70334429 CCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGAT---C-TCATCT
1 CCCTAAGCAGTAGGGAAACA-G-ATCGAATT-CA-ATAGCCTTGA-CC
*
70334473 CCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACC
1 CCCTAAGCAGTAGGGAAACAGATCGAATTCAATAGCCTTGACC
*
70334516 CCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
70334537 GCAAAAAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 5 0.06
43 44 0.52
44 24 0.28
45 5 0.06
46 2 0.02
47 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAAACAGATCGAATTCAATAGCCTTGACC
Found at i:70334811 original size:527 final size:526
Alignment explanation
Indices: 70333807--70334980 Score: 1759
Period size: 527 Copynumber: 2.2 Consensus size: 526
70333797 AATTTGTAAG
* *
70333807 CCTTAACCCCCTAAGTAGTAGGGTAACAGGTTGAATTATAGATCTTATCTCCCTAAGCAGTAGCG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGTAGAATTATAGATCTTATCACCCTAAGCAGTAG-G
* * * *
70333872 GAGCAAATCGAAGAT-GGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAG
65 GAACAAATCGAA-ATCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAG
* *
70333936 ATCTTATCACCCTAAGCAGTAGGGAAACAGATTGAATTCACTAGCCTTGACCCCCTAAGCAGTAA
129 ATCTCATCACCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACCCCCTAAGCAGTAA
*
70334001 GGGTAACAGGCAAAAAATTATAGATCTCATCTCCCTCAACAGTAGCGGAGTAGATCGAAGACAGT
194 GGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTCAACAGTAGCGGAGTAGATCGAAGACAGT
* *
70334066 AAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAGAAAATTACAGATCTCATCTCCCTAAGTA
259 AAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCA
70334131 GTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAAAT
324 GTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAAAT
* * *
70334196 TACAGATCTCATCTCCCTAAGTAGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAG
389 TACAGATCTCATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAA
* * * * * *
70334261 CAGTTGGGTAATAGGCTGAAAATTACAGATCTCATCTCCCTAAGCAGTAGCGGAGCAGTTCGAAA
454 CAGTAGGGTAACAGGCAGAAAATTACAGATCTCACCTCCCTAAGCAATAGCGGAGCAGATC-AAA
*
70334326 -ACAGTG-AG
518 TACAG-GAAA
* *
70334334 CGTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGG-T-AGAATTATAGATCTTATCACCCTAAGCAGTAG
* * * *
70334399 GGAAACAGATCGAATTCAAT-AGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACA
64 GG-AACAAATCGAAATCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACA
*
70334463 GATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACCCCCTAAGCAGT-
128 GATCTCATCACCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACCCCCTAAGCAGTA
*
70334527 AGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCT-AAGCAGTTGCGGAGTAGATCGAAGACA
193 AGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTCAA-CAGTAGCGGAGTAGATCGAAGACA
*
70334591 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGTAAAAAATTACAGATCTCATCTCCCTAAG
257 GTAAGCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAG
* * * *
70334656 CAGTAGCGGAGCAGATTGATGACAGTAAGCCTTGACCCCCTAAGCAGTAGGGTAACAGGCTGAAA
322 CAGTAGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAA
* * *
70334721 ATTACAGATCTCATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTAAGTCTTGACCCCTTA
387 ATTACAGATCTCATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTA
* * *
70334786 AACAGTAGGGTAACAGGCAGAAAATTACAGATCTTACCTCCCTAAGCAATAGTGGAGTAGATCAA
452 AACAGTAGGGTAACAGGCAGAAAATTACAGATCTCACCTCCCTAAGCAATAGCGGAGCAGATCAA
70334851 ATACAGGAAAA
517 ATACAGG-AAA
* * * *
70334862 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGGAATCACAGATCTTATCACCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGG-T-AGAATTATAGATCTTATCACCCTAAGCAGTA-
* * *
70334927 GGGAACATATC-AAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGC
63 GGGAACAAATCGAAA-TCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
70334981 TGGAAATTCA
Statistics
Matches: 582, Mismatches: 54, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
526 6 0.01
527 330 0.57
528 173 0.30
529 73 0.13
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (526 bp):
CCTTAACCCCCTAAGTAGTAGGGTAACAGGTAGAATTATAGATCTTATCACCCTAAGCAGTAGGG
AACAAATCGAAATCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCAAAAAATTACAGAT
CTCATCACCCTAAGCAGTAGGGAAACAGATCGAATTCACTAGCCTTGACCCCCTAAGCAGTAAGG
GTAACAGGCAAAAAATTACAGATCTCATCTCCCTCAACAGTAGCGGAGTAGATCGAAGACAGTAA
GCCTTGACCCCCTAAGCAGTAAGGGTAACAGGCAAAAAATTACAGATCTCATCTCCCTAAGCAGT
AGCGGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAGCAGTAAGGTAACAGGCTAAAAATTA
CAGATCTCATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACAGTAAGCCTTGACCCCCTAAACA
GTAGGGTAACAGGCAGAAAATTACAGATCTCACCTCCCTAAGCAATAGCGGAGCAGATCAAATAC
AGGAAA
Found at i:70335857 original size:11 final size:12
Alignment explanation
Indices: 70335835--70335860 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
70335825 TACCTACATA
70335835 TTTCCTTTTTTT
1 TTTCCTTTTTTT
70335847 TTTCCTTTTTTT
1 TTTCCTTTTTTT
70335859 TT
1 TT
70335861 AAAAAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:70336425 original size:3 final size:3
Alignment explanation
Indices: 70336417--70336646 Score: 141
Period size: 3 Copynumber: 76.0 Consensus size: 3
70336407 ATCATTTTAC
*** *
70336417 TTA TTA TTA TTA TTA TTA TTA TTA TTA CCG TTA GTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * *
70336462 TTA CTA TTA TT- TT- TTA GTTA -TA TTA TCA TTA TTA TTC TTA CTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
70336505 TTA TTA TTA CTA CTA CTA TTA TTT TTA TTA ACA -TA TTA TTA TT- TCCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA
* * * **
70336553 TTT TTA -TA TATA TTT TTA TTG TTA TTA ACA TATA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
70336599 TTA TTA TTA TTA TTAA TGTA CTA TTA TTT TCTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
70336647 CTAATATCAC
Statistics
Matches: 175, Mismatches: 37, Indels: 30
0.72 0.15 0.12
Matches are distributed among these distances:
2 12 0.07
3 145 0.83
4 16 0.09
5 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Done.