Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 128 of 175
Found at i:39981534 original size:46 final size:46
Alignment explanation
Indices: 39981290--39981534 Score: 160
Period size: 46 Copynumber: 5.6 Consensus size: 46
39981280 TTTAATACAC
* *
39981290 TCCACTGTAATCTCAGGGAGATAGGATTATTG-A-C-TTT-AATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-TTGAATCTTTTCAATCTAT
* * * * ** *
39981334 TCCGCTGTAATCTCAGGAAGATAAGATCTGTAAT-TCTTCGGTTTAT
1 TCCACTGTAATCTCAGGGAGATAAGATTTG-AATCTTTTCAATCTAT
**
39981380 TCCACTGTAATCTCAGGGAGAT-A-A---G-ATCTTTT-AATCCGT
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAATCTTTTCAATCTAT
* * * *** *
39981419 TCCACTGTAATCTCAGGGAAATAGGA-TT-ACTGGCTTCAATCTGCT
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAATCTTTTCAATCT-AT
* **
39981464 T-CGCTGTAATCTCAGGGAGATAAGATTTGAATCTTTTCGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAATCTTTTCAATCTAT
39981509 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
39981535 CCTGATGCGA
Statistics
Matches: 149, Mismatches: 36, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
39 25 0.17
40 3 0.02
41 2 0.01
42 2 0.01
43 4 0.03
44 50 0.34
45 9 0.06
46 54 0.36
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (46 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTGAATCTTTTCAATCTAT
Found at i:39994974 original size:14 final size:15
Alignment explanation
Indices: 39994955--39994984 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39994945 TTCCATATAT
39994955 AAAATAG-AAAGAAA
1 AAAATAGTAAAGAAA
39994969 AAAATAGTAAAGAAA
1 AAAATAGTAAAGAAA
39994984 A
1 A
39994985 CGCAGAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAATAGTAAAGAAA
Found at i:39997124 original size:17 final size:17
Alignment explanation
Indices: 39997102--39997147 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
39997092 GAAATCTTCA
39997102 TTAAATCCCTAAAATCT
1 TTAAATCCCTAAAATCT
*
39997119 TTAAAT-CCTTAAATCT
1 TTAAATCCCTAAAATCT
*
39997135 TGAAATCCCTAAA
1 TTAAATCCCTAAA
39997148 TCATTAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAATCCCTAAAATCT
Found at i:39998469 original size:51 final size:51
Alignment explanation
Indices: 39998397--39998501 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
39998387 GAAGTTGCTA
* * *
39998397 CTGATGAATATGCTGGTGATTTTGCAACATCAGGTGGAGTGGATAATGTTG
1 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTAGATAATGTTG
39998448 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTAGATAATGTTG
1 CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTAGATAATGTTG
39998499 CTG
1 CTG
39998502 CGGCACATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (51 bp):
CTGATGAATATGCTGGTGATTTTGCAACATCAGATGGACTAGATAATGTTG
Found at i:40003829 original size:36 final size:36
Alignment explanation
Indices: 40003782--40003931 Score: 165
Period size: 36 Copynumber: 3.9 Consensus size: 36
40003772 GCTAAGCTAC
40003782 CACTTATCACTTTGTCACTTGATCAGATAAGTATAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAT
*
40003818 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--A--T
* * *
40003862 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 --CACTTATCACTTTGTCACTTGATCAGATAAGTATAT
*
40003900 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTGTCACTTGATCAGATAAGT
40003932 GTAGCTAAAG
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 59 0.61
38 3 0.03
40 2 0.02
42 2 0.02
44 3 0.03
46 28 0.29
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAT
Found at i:40003869 original size:46 final size:46
Alignment explanation
Indices: 40003818--40003972 Score: 204
Period size: 46 Copynumber: 3.6 Consensus size: 46
40003808 ATAAGTATAT
40003818 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
40003864 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
40003900 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
40003946 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
40003973 AGGACTCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 28 0.30
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 53 0.57
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:40003877 original size:82 final size:82
Alignment explanation
Indices: 40003732--40003972 Score: 398
Period size: 82 Copynumber: 3.0 Consensus size: 82
40003722 ATGGTCTTAC
* *
40003732 GTATGATCACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTT
1 GTAT-ATCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
*
40003794 TGTCACTTGATCAGATAA
65 TGTCTCTTGATCAGATAA
40003812 GTATATCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 GTATATCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
40003877 GTCTCTTGATCAGATAA
66 GTCTCTTGATCAGATAA
* *
40003894 GTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 GTATATCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
*
40003959 ATCTCTTGATCAGA
66 GTCTCTTGATCAGA
40003973 AGGACTCAAA
Statistics
Matches: 152, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
79 11 0.07
80 9 0.06
81 20 0.13
82 112 0.74
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (82 bp):
GTATATCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
GTCTCTTGATCAGATAA
Found at i:40007959 original size:300 final size:298
Alignment explanation
Indices: 40007401--40008052 Score: 773
Period size: 300 Copynumber: 2.2 Consensus size: 298
40007391 CAACTAATAG
* *
40007401 AGATAATAACTTGTGCATATTAAAATAAAAAT-TATAAAATATATCAAAAATAAAACTTTGGTTT
1 AGATAATAACTTGTGCATATTAAAAT-AAAATGTATAAAATATAT-TAAAATAAAACTTTGGTTG
* * *
40007465 AGTGATAAATTTAATATTTTACTAATCTAATTTGCGCGGATTCAAATCCCACCATATGCAAATTT
64 AGTGATAAATTTAAGATTTTACTAATCTAATTGGCACGGATTCAAATCCCACCATATGCAAATTT
* ** ** * *
40007530 TAATTAGTTTTTGTTAAAATAAAAAGACTAAAATACCCTTGAATGGTATAGCTTTTTTAATTAGG
129 TAATTAGTTTTTCTTAAAATAAAAAGACTAAAATACCCTCAAATAATATAACTTTTTTAATTAAG
40007595 GAAGGATATTTCCATAATTTTCCAACTGAGTTGGTCACTCGATTGAGGATGACACCAACTCAAT-
194 GAAGGATATTTCCATAATTTTCCAACTGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATA
*
40007659 AAAACACTTAATAAATAGTAAGTATTGATATACAATTGATGA
259 AAAACACTTAATAAATAGTAAGTA-T-AGATACAATTGATGA
* * * *
40007701 AGATATTAACTTGTGCATATTAAAATAAAGATGTCTAAAATATATTAAAATGAAGCTTTGGTTGA
1 AGATAATAACTTGTGCATATTAAAATAAA-ATGTATAAAATATATTAAAATAAAACTTTGGTTGA
* * * * *
40007766 GTGGTAAATTTAAGGATTTT-TTAATCTAATTGGCACGTG-TTTAAATCCTACCATATGCATATT
65 GTGATAAATTTAA-GATTTTACTAATCTAATTGGCACG-GATTCAAATCCCACCATATGCAAATT
* * *
40007829 TTAATT-GTTTTTCTTAAAATGAAAAGATTAAACTACCCTCAAATAATATAACTTATTTTAATTA
128 TTAATTAGTTTTTCTTAAAATAAAAAGACTAAAATACCCTCAAATAATATAACTT-TTTTAATTA
* * * * * * * *
40007893 TAGG-ATGATATTTCCATAA-TTTCCTAACTGGGTTGGTGACTTGGTTGAGGGA-GCCACTAGCT
192 -AGGAAGGATATTTCCATAATTTTCC-AACTGAGTTGGTCACTCGATTGA-GGATGACACCAACT
* *
40007955 CAATAAAAATACTTAATAAATAGTAAGTATAGATACAATTGATGT
254 CAATAAAAACACTTAATAAATAGTAAGTATAGATACAATTGATGA
* ** * *
40008000 AGGTAATAAAATGTGAATAATAAAATTAAAATGTATAAAA-ATATTAAAATAAA
1 AGATAATAACTTGTGCATATTAAAA-TAAAATGTATAAAATATATTAAAATAAA
40008053 GTTTTAGTTA
Statistics
Matches: 299, Mismatches: 43, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
298 12 0.04
299 88 0.29
300 154 0.52
301 45 0.15
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (298 bp):
AGATAATAACTTGTGCATATTAAAATAAAATGTATAAAATATATTAAAATAAAACTTTGGTTGAG
TGATAAATTTAAGATTTTACTAATCTAATTGGCACGGATTCAAATCCCACCATATGCAAATTTTA
ATTAGTTTTTCTTAAAATAAAAAGACTAAAATACCCTCAAATAATATAACTTTTTTAATTAAGGA
AGGATATTTCCATAATTTTCCAACTGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAAA
AACACTTAATAAATAGTAAGTATAGATACAATTGATGA
Found at i:40008045 original size:18 final size:19
Alignment explanation
Indices: 40008006--40008049 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
40007996 ATGTAGGTAA
40008006 TAAAATGTGAATAATAAAAT
1 TAAAATGT-AATAATAAAAT
40008026 TAAAATGT-ATAA-AAATAT
1 TAAAATGTAATAATAAA-AT
40008044 TAAAAT
1 TAAAAT
40008050 AAAGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATGTAATAATAAAAT
Found at i:40009330 original size:23 final size:23
Alignment explanation
Indices: 40009287--40009330 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
40009277 AACATTAAAA
*
40009287 ATAAAAATTCATATATCAAATTT
1 ATAAAAATTCATATATAAAATTT
*
40009310 ATAAAACTT-ATATACTAAAAT
1 ATAAAAATTCATATA-TAAAAT
40009331 AAAGCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAAATTCATATATAAAATTT
Found at i:40015105 original size:24 final size:24
Alignment explanation
Indices: 40015058--40015112 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
40015048 GACACACCAC
* **
40015058 AGCTCGCAAGAGCATCCCGTTATT
1 AGCTCTCAAGAGCATCCCAATATT
*
40015082 AGCTCTCATGAGCATCCCAATATT
1 AGCTCTCAAGAGCATCCCAATATT
*
40015106 GGCTCTC
1 AGCTCTC
40015113 TTAAGCTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (24 bp):
AGCTCTCAAGAGCATCCCAATATT
Found at i:40015286 original size:24 final size:24
Alignment explanation
Indices: 40015259--40015350 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
40015249 TTCTCGCTAT
*
40015259 TGGCTCGCACGAGCTTCCCAATTA
1 TGGCTCGCATGAGCTTCCCAATTA
*
40015283 TGGCTCGCATGAGCTTCCCGATTA
1 TGGCTCGCATGAGCTTCCCAATTA
* *
40015307 TGGCTCTCATGAGCTTCCCATTATA
1 TGGCTCGCATGAGCTTCCCAAT-TA
* *
40015332 TAGCTCGAATGAGCTTCCC
1 TGGCTCGCATGAGCTTCCC
40015351 GTTACATGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 41 0.69
25 18 0.31
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (24 bp):
TGGCTCGCATGAGCTTCCCAATTA
Found at i:40015321 original size:48 final size:49
Alignment explanation
Indices: 40015259--40015351 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
40015249 TTCTCGCTAT
* *
40015259 TGGCTCGCACGAGCTTCCCAAT-TATGGCTCGCATGAGCTTCCCGATTA
1 TGGCTCGCACGAGCTTCCCAATATATAGCTCGAATGAGCTTCCCGATTA
* * *
40015307 TGGCTCTCATGAGCTTCCCATTATATAGCTCGAATGAGCTTCCCG
1 TGGCTCGCACGAGCTTCCCAATATATAGCTCGAATGAGCTTCCCG
40015352 TTACATGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 19 0.49
49 20 0.51
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (49 bp):
TGGCTCGCACGAGCTTCCCAATATATAGCTCGAATGAGCTTCCCGATTA
Found at i:40015343 original size:25 final size:24
Alignment explanation
Indices: 40015259--40015364 Score: 97
Period size: 24 Copynumber: 4.3 Consensus size: 24
40015249 TTCTCGCTAT
* * *
40015259 TGGCTCGCACGAGCTTCCCAATTA
1 TGGCTCGAATGAGCTTCCCATTTA
*
40015283 TGGCTCGCATGAGCTTCCCGA-TTA
1 TGGCTCGAATGAGCTTCCC-ATTTA
**
40015307 TGGCTCTCATGAGCTTCCCATTATA
1 TGGCTCGAATGAGCTTCCCATT-TA
* * *
40015332 TAGCTCGAATGAGCTTCCCGTTACA
1 TGGCTCGAATGAGCTTCCCATT-TA
40015357 TGGCTCGA
1 TGGCTCGA
40015365 GAGAGAGAGC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
23 1 0.01
24 40 0.56
25 30 0.42
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (24 bp):
TGGCTCGAATGAGCTTCCCATTTA
Found at i:40020298 original size:16 final size:17
Alignment explanation
Indices: 40020265--40020298 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
40020255 TCTAACTTAT
40020265 TTGAAAATGATATTTTA
1 TTGAAAATGATATTTTA
*
40020282 TTGAAAAT-ATTTTTTA
1 TTGAAAATGATATTTTA
40020298 T
1 T
40020299 CTACCGTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTGAAAATGATATTTTA
Found at i:40025151 original size:41 final size:41
Alignment explanation
Indices: 40025085--40025236 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
40025075 TTCTTACCTT
* * *
40025085 TCGGGGATTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGC
* * *
40025126 TTGGGGCTTTAGCGGCGTTTCTGAAAAAGCGTCGATAATGC
1 TCGGGGCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGC
* * * *
40025167 TCAGGGTTTTAACGACGTTTCTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGC
** * * *
40025208 AGGGGGCTTTAGCAGCGTTTTTGGAAAAG
1 TCGGGGCTTTAGCGGCGTTTCTGAAAAAG
40025237 AGCTAAAAAC
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGC
Found at i:40026962 original size:2 final size:2
Alignment explanation
Indices: 40026949--40026981 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
40026939 TAATTCATCC
*
40026949 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40026982 AGCCTTCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:40027329 original size:40 final size:40
Alignment explanation
Indices: 40027256--40027396 Score: 219
Period size: 40 Copynumber: 3.5 Consensus size: 40
40027246 TAATTCCGTA
* * *
40027256 CACCAGCATGAAGCCTGCTAGATGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
* *
40027296 CACCGGCATTAAGTCTGCTAGACGTATAATCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
40027336 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
**
40027376 CATTGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
40027397 GCACAAGCCT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTT
Found at i:40029289 original size:22 final size:23
Alignment explanation
Indices: 40029238--40029290 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
40029228 GGATTATGTA
*
40029238 TTAGGGG-T-TGGGATTTAAGGT
1 TTAGGGGTTATGGGATTTAAGGG
**
40029259 TTAAAGGTTATGGGA-TTAAGGG
1 TTAGGGGTTATGGGATTTAAGGG
40029281 TTAGGGGTTA
1 TTAGGGGTTA
40029291 AGAGTTAGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.36
Consensus pattern (23 bp):
TTAGGGGTTATGGGATTTAAGGG
Found at i:40029291 original size:14 final size:14
Alignment explanation
Indices: 40029259--40029318 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
40029249 GATTTAAGGT
*
40029259 TTAAAGGTTATGGGA
1 TTAAGGGTTA-GGGA
*
40029274 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGA
*
40029288 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGA
*
40029302 TTTAGGGTTTAGGGA
1 TTAAGGG-TTAGGGA
40029317 TT
1 TT
40029319 CACAGGTCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 20 0.53
15 18 0.47
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGA
Found at i:40029388 original size:25 final size:25
Alignment explanation
Indices: 40029356--40029403 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40029346 AGATTAATTA
* *
40029356 TTTTTTAATTTATATTTTAAATATG
1 TTTTTTAAGTTATATATTAAATATG
40029381 TTTTTTAAGTTATATATTAAATA
1 TTTTTTAAGTTATATATTAAATA
40029404 ATTTCATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTTTAAGTTATATATTAAATATG
Found at i:40029589 original size:14 final size:15
Alignment explanation
Indices: 40029559--40029596 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
40029549 GGGAATTATA
*
40029559 TATGGATTTAGGGAT
1 TATGGATTTAGGCAT
40029574 TATGGA-TTAGGCAT
1 TATGGATTTAGGCAT
40029588 TATGG-TTTA
1 TATGGATTTA
40029597 AGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGCAT
Found at i:40029636 original size:21 final size:21
Alignment explanation
Indices: 40029591--40029662 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
40029581 TAGGCATTAT
* * * *
40029591 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAGGGGTTAGGAGTTAG
40029612 GGTTTAGGGGTTAGGAGTTAG
1 GGTTTAGGGGTTAGGAGTTAG
* *
40029633 GG-TTAGGGGTTAAGAGTCAG
1 GGTTTAGGGGTTAGGAGTTAG
40029653 GGATTTAGGG
1 GG-TTTAGGG
40029663 TTTCAAGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
20 18 0.42
21 19 0.44
22 6 0.14
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.32
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGAGTTAG
Found at i:40029638 original size:20 final size:20
Alignment explanation
Indices: 40029615--40029654 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40029605 GATTTAAGGT
* *
40029615 TTAGGGGTTAGGAGTTAGGG
1 TTAGGGGTTAAGAGTCAGGG
40029635 TTAGGGGTTAAGAGTCAGGG
1 TTAGGGGTTAAGAGTCAGGG
40029655 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.47, T:0.28
Consensus pattern (20 bp):
TTAGGGGTTAAGAGTCAGGG
Found at i:40042570 original size:12 final size:12
Alignment explanation
Indices: 40042555--40042596 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
40042545 CGTACAACTG
40042555 GAGGTGCAACCA
1 GAGGTGCAACCA
*
40042567 GAGGTTCAACCA
1 GAGGTGCAACCA
**
40042579 GAGGTGCATTCA
1 GAGGTGCAACCA
40042591 GAGGTG
1 GAGGTG
40042597 TATCTAGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.36, T:0.17
Consensus pattern (12 bp):
GAGGTGCAACCA
Found at i:40044696 original size:20 final size:22
Alignment explanation
Indices: 40044663--40044702 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
40044653 TTTACACAAT
40044663 AAAAAGAAATTTTAA-ATTAAA
1 AAAAAGAAATTTTAACATTAAA
*
40044684 AAAAATAAA-TTTAACATTA
1 AAAAAGAAATTTTAACATTA
40044703 TTGAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAAAGAAATTTTAACATTAAA
Found at i:40051256 original size:21 final size:21
Alignment explanation
Indices: 40051232--40051278 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
40051222 TATGTGTATT
*
40051232 ACCCTCATAAGATATCCTTAA
1 ACCCTCACAAGATATCCTTAA
* *
40051253 ACCCTCGCAGGATATCCTTAA
1 ACCCTCACAAGATATCCTTAA
*
40051274 TCCCT
1 ACCCT
40051279 TAGGTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.28
Consensus pattern (21 bp):
ACCCTCACAAGATATCCTTAA
Found at i:40054773 original size:6 final size:6
Alignment explanation
Indices: 40054762--40054810 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
40054752 AAGCAGGCCT
*
40054762 AGAAAA AGAAAA AGAAAA ATAAGAA A-AGAAA AG-AAA AG-AAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAA-AA AGA-AAA AGAAAA AGAAAA AGAAAA
40054809 AG
1 AG
40054811 GAAAGAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 24 0.63
7 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:40054779 original size:5 final size:5
Alignment explanation
Indices: 40054765--40054808 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
40054755 CAGGCCTAGA
*
40054765 AAAAG AAAAAG AAAA- ATAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
40054809 AGGAAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
4 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:40054815 original size:11 final size:11
Alignment explanation
Indices: 40054762--40054816 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 11
40054752 AAGCAGGCCT
40054762 AGAAAAAGAAA
1 AGAAAAAGAAA
*
40054773 A-AGAAAA-ATA
1 AGA-AAAAGAAA
40054783 AG-AAAAGAAA
1 AGAAAAAGAAA
40054793 AG-AAAAGAAA
1 AGAAAAAGAAA
*
40054803 AGAAAAAGGAA
1 AGAAAAAGAAA
40054814 AGA
1 AGA
40054817 GAATGAGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.11
10 18 0.49
11 15 0.41
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:40057632 original size:45 final size:45
Alignment explanation
Indices: 40057581--40057794 Score: 161
Period size: 45 Copynumber: 4.8 Consensus size: 45
40057571 CTTAAAAAAA
* * * *
40057581 GAGTAAGACTATAGTTGAAAGATGCTATGCCATCATGATA-AATTT
1 GAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATATAA-AT
*
40057626 GAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATATAAAT
1 GAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATATAAAT
* ** * *
40057671 GAGTACGACCAT-GACTGAAAGATGCTATGGTATCATGGTA-AACAA
1 GAGTAAGACCATAG-CTGAAAGATGCTATGACATCATGATATAA-AT
* * * * * * *
40057716 GACTAAGACCAT-GACTAAAAGACGTTATGGCATCATGGTA-AACAA
1 GAGTAAGACCATAG-CTGAAAGATGCTATGACATCATGATATAA-AT
* *
40057761 GACG-AAGACCATAGTTGAAAGACGCTATGACATC
1 GA-GTAAGACCATAGCTGAAAGATGCTATGACATC
40057795 CTAATAGTTT
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
44 3 0.02
45 136 0.96
46 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATATAAAT
Found at i:40061225 original size:11 final size:11
Alignment explanation
Indices: 40061199--40061264 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
40061189 CTTATATATT
40061199 AAATAAATAATAA
1 AAAT-AATAAT-A
40061212 AAATAATAATA
1 AAATAATAATA
* * *
40061223 AAATATCTCATT
1 AAATA-ATAATA
* *
40061235 AAATATTAGTA
1 AAATAATAATA
*
40061246 AAATATTAATA
1 AAATAATAATA
40061257 AAATAATA
1 AAATAATA
40061265 TTTATCTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
11 25 0.58
12 14 0.33
13 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:40061238 original size:23 final size:22
Alignment explanation
Indices: 40061206--40061264 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
40061196 ATTAAATAAA
40061206 TAATAAAAATAATAATAAAATAT
1 TAAT-AAAATAATAATAAAATAT
* * * *
40061229 CTCATTAAATATTAGTAAAATAT
1 -TAATAAAATAATAATAAAATAT
40061252 TAATAAAATAATA
1 TAATAAAATAATA
40061265 TTTATCTAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 10 0.36
23 15 0.54
24 3 0.11
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
TAATAAAATAATAATAAAATAT
Found at i:40062541 original size:41 final size:40
Alignment explanation
Indices: 40062482--40062613 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 40
40062472 CTATCTTTCT
*
40062482 CCATGGTGGTGTTGCAGAGTTTAAAGTTGATCCTT-CCTTCG
1 CCATGTTGGTGTTGCAGAGTTTAAA-TTGATCCTTCCCTT-G
* * * *
40062523 CCATGTTGGTATTACAGAGTTCAGAATTGGTCCTTCCCTTG
1 CCATGTTGGTGTTGCAGAGTTTA-AATTGATCCTTCCCTTG
* * *
40062564 TCATGTTGGTGTTGTAGAGTTCTGAATTGAT-CTTCCCTTTG
1 CCATGTTGGTGTTGCAGAGTT-TAAATTGATCCTTCCC-TTG
40062605 CCATGTTGG
1 CCATGTTGG
40062614 CATTTTAAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 6 0.08
41 62 0.84
42 6 0.08
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (40 bp):
CCATGTTGGTGTTGCAGAGTTTAAATTGATCCTTCCCTTG
Found at i:40063727 original size:7 final size:7
Alignment explanation
Indices: 40063711--40063742 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
40063701 ATTCTTGTTG
40063711 AAGT-AA
1 AAGTGAA
40063717 AAGTGAA
1 AAGTGAA
40063724 AAGTGAA
1 AAGTGAA
40063731 AAGTGAA
1 AAGTGAA
40063738 AAGTG
1 AAGTG
40063743 GATGGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (7 bp):
AAGTGAA
Found at i:40066566 original size:17 final size:17
Alignment explanation
Indices: 40066544--40066576 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
40066534 AATGGATCAT
40066544 GGTTTATCTTTAGTTCC
1 GGTTTATCTTTAGTTCC
40066561 GGTTTATCTTTAGTTC
1 GGTTTATCTTTAGTTC
40066577 TCAATTTGGG
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:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (17 bp):
GGTTTATCTTTAGTTCC
Found at i:40067330 original size:21 final size:20
Alignment explanation
Indices: 40067306--40067373 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
40067296 TTATAACTAC
40067306 CATTAGTGTGCCTTAATTGGA
1 CATTAGTGTG-CTTAATTGGA
* * *
40067327 CATTTAGCGTGGTTATGATTAG-
1 CA-TTAGTGTGCTTA--ATTGGA
40067349 CATTAGTGTTGCTTAATTGGA
1 CATTAGTG-TGCTTAATTGGA
40067370 CATT
1 CATT
40067374 TAACGTTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 4 0.11
21 14 0.39
22 14 0.39
23 4 0.11
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (20 bp):
CATTAGTGTGCTTAATTGGA
Found at i:40067333 original size:22 final size:21
Alignment explanation
Indices: 40067308--40067375 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
40067298 ATAACTACCA
40067308 TTAGTGTGCCTTAATTGGACAT
1 TTAGTGTG-CTTAATTGGACAT
* * *
40067330 TTAGCGTGGTTATGATTAG-CA-
1 TTAGTGTGCTTA--ATTGGACAT
40067351 TTAGTGTTGCTTAATTGGACAT
1 TTAGTG-TGCTTAATTGGACAT
40067373 TTA
1 TTA
40067376 ACGTTGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
20 4 0.11
21 10 0.29
22 17 0.49
23 4 0.11
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (21 bp):
TTAGTGTGCTTAATTGGACAT
Found at i:40068178 original size:120 final size:120
Alignment explanation
Indices: 40068048--40068334 Score: 495
Period size: 120 Copynumber: 2.4 Consensus size: 120
40068038 AATTATTTTA
* *
40068048 AATTTTATTAAATCATTTATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
40068113 ATAGTATCATATATTATGATTTTAGTAAATTCATAAAAGAATACTT-ATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATAAAAGAATA-TTGATTATTAAG
**
40068168 AATTTTATTAAATTATACGTTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
40068233 ATAGTATCATATATTATGATTTTAGTAAATTCATATAATAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATAAAAGAATATTGATTATTAAG
*
40068288 AATTTTATTGAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
40068335 CATGTTAAAA
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
119 2 0.01
120 155 0.99
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATAAAAGAATATTGATTATTAAG
Found at i:40068234 original size:59 final size:59
Alignment explanation
Indices: 40068049--40068334 Score: 157
Period size: 63 Copynumber: 4.8 Consensus size: 59
40068039 ATTATTTTAA
* * *
40068049 ATTTTATTAAATCATTTATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT
1 ATTTTATTAAATTATATGTTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT
* * ** * * * *
40068108 ATTTTATAGTATCATATATTATGATTTT-AGT-AAAT-TCATAAAAGAATACTTATTAT-TAA-G
1 ATTTTAT--TA-AAT-TA-TATG-TTTTAATTAAAATAT-ATTTAATAATAATTATT-TCAAATT
40068168 A-
58 AT
*
40068169 ATTTTATTAAATTATACGTTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT
1 ATTTTATTAAATTATATGTTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT
* * * *
40068228 ATTTTATAGTATCATATATTATGATTTT-AGT-AAAT-TCATATAATAAT-ATTGATTAT-TAA-
1 ATTTTAT--TA-AAT-TA-TATG-TTTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAAT
*
40068287 GA-
57 TAT
* *
40068289 ATTTTATTGAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 ATTTTATTAAATTATATGTTTTAATTAAAATATATTTAATAATAAT
40068335 CATGTTAAAA
Statistics
Matches: 169, Mismatches: 31, Indels: 55
0.66 0.12 0.22
Matches are distributed among these distances:
55 8 0.05
56 11 0.07
57 36 0.21
58 9 0.05
59 17 0.10
61 18 0.11
62 11 0.07
63 40 0.24
64 11 0.07
65 8 0.05
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
ATTTTATTAAATTATATGTTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT
Found at i:40068534 original size:43 final size:45
Alignment explanation
Indices: 40068487--40068573 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 45
40068477 CCTCCATTCC
40068487 ATTCAACCAAACACA-AGAA-TACTATTAC-ACTCTATTCCATTAT
1 ATTCAACCAAACA-ATAGAATTACTATTACGACTCTATTCCATTAT
* * *
40068530 ATTCAACCAAACAATTGAATTGCTATTACGCCTCTATTCCATTA
1 ATTCAACCAAACAATAGAATTACTATTACGACTCTATTCCATTA
40068574 CAGCGAACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 16 0.42
44 8 0.21
45 13 0.34
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (45 bp):
ATTCAACCAAACAATAGAATTACTATTACGACTCTATTCCATTAT
Found at i:40069513 original size:18 final size:18
Alignment explanation
Indices: 40069469--40069519 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
40069459 ATAAAATCAA
*
40069469 ATAATTATTTCAAATATT
1 ATAAATATTTCAAATATT
* *
40069487 ATTATTATTTCAAATATGT
1 ATAAATATTTCAAATAT-T
40069506 A-AAATATTTCAAAT
1 ATAAATATTTCAAAT
40069520 TTCATTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAAATATTTCAAATATT
Found at i:40069758 original size:21 final size:20
Alignment explanation
Indices: 40069729--40069777 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
40069719 AAGATTTATT
40069729 AATTAAAAAGATGAATTAAA
1 AATTAAAAAGATGAATTAAA
* *
40069749 AATATAAAAATATTAATTAAA
1 AAT-TAAAAAGATGAATTAAA
40069770 AATTAAAA
1 AATTAAAA
40069778 TAAAAGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AATTAAAAAGATGAATTAAA
Found at i:40092276 original size:31 final size:31
Alignment explanation
Indices: 40092241--40092299 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
40092231 TGTCAAGTGG
40092241 ACATAAA-AATAATAATTTTCTTATAAAATTC
1 ACATAAATAAT-ATAATTTTCTTATAAAATTC
* *
40092272 ACATAAATCATTTAATTTTCTTATAAAA
1 ACATAAATAATATAATTTTCTTATAAAA
40092300 AATTAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (31 bp):
ACATAAATAATATAATTTTCTTATAAAATTC
Found at i:40092454 original size:32 final size:32
Alignment explanation
Indices: 40092418--40092479 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
40092408 CCCTACAAAT
40092418 TTGTAGCAAACAACCCATTTCGGTAATTAATA
1 TTGTAGCAAACAACCCATTTCGGTAATTAATA
*
40092450 TTGTAGCAAACAACTCATTTCGGTAATTAA
1 TTGTAGCAAACAACCCATTTCGGTAATTAA
40092480 CTTGTATGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTAGCAAACAACCCATTTCGGTAATTAATA
Found at i:40092942 original size:113 final size:112
Alignment explanation
Indices: 40092800--40093061 Score: 325
Period size: 113 Copynumber: 2.3 Consensus size: 112
40092790 ACCCTAACCT
*
40092800 TAAATAATAATTACAAATAAAAAATTACCTTTAAAACAAAATTTGTTGTTGCCTCCTCTCCTTCC
1 TAAATAATAATTACAAA-AAAAAATTACCTTTAAAACAAAATTTGTTGTTGCCTCCTCTCCTCCC
* * * * *
40092865 AAAATCACTAAATCAAACAAATAATAAGTAGCAC-AAAACCCTAAACAAG
65 AAAACCACAAAATAAAAC-AATAATAAGTA-AACTAAAACCCTAAACAAA
* * * *
40092914 TAAATAACAATTACAAAAAAAACTTACCTTTAAAATAAAATTTTTTGTTGCCTCCTCTCCTCCCA
1 TAAATAATAATTACAAAAAAAAATTACCTTTAAAACAAAATTTGTTGTTGCCTCCTCTCCTCCCA
* * *
40092979 AAACCTCAAAATAAAACACTAATAAGTAAACTAAAACCTTAAACAAA
66 AAACCACAAAATAAAACAATAATAAGTAAACTAAAACCCTAAACAAA
* *
40093026 TAAATAATGATT---AAAAAAATTTACCTTTCAAAACAA
1 TAAATAATAATTACAAAAAAAAATTACCTTT-AAAACAA
40093062 CCCTCTACCG
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
109 15 0.12
110 6 0.05
111 2 0.02
112 33 0.26
113 57 0.44
114 16 0.12
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (112 bp):
TAAATAATAATTACAAAAAAAAATTACCTTTAAAACAAAATTTGTTGTTGCCTCCTCTCCTCCCA
AAACCACAAAATAAAACAATAATAAGTAAACTAAAACCCTAAACAAA
Found at i:40098628 original size:4 final size:4
Alignment explanation
Indices: 40098619--40098644 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
40098609 TGTTCCCCTA
40098619 AATG AATG AATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AA
40098645 AGCCCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (4 bp):
AATG
Found at i:40100592 original size:42 final size:45
Alignment explanation
Indices: 40100510--40100597 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
40100500 CTCATTATTT
**
40100510 TTTAAAAACTTTAAAATATATTTTTATATTATGTTTAATTTAATA
1 TTTAAAAACTTTAAAATATATTTTTATATTATGTAAAATTTAATA
* * *
40100555 TTTAATAA-TTTAATATATATTTTTAT-TTAT-TAAAATTTTATA
1 TTTAAAAACTTTAAAATATATTTTTATATTATGTAAAATTTAATA
40100597 T
1 T
40100598 ATAGTCATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 10 0.26
43 4 0.11
44 17 0.45
45 7 0.18
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (45 bp):
TTTAAAAACTTTAAAATATATTTTTATATTATGTAAAATTTAATA
Found at i:40108659 original size:51 final size:51
Alignment explanation
Indices: 40108544--40108868 Score: 420
Period size: 51 Copynumber: 6.3 Consensus size: 51
40108534 CTTACGTATG
* * *
40108544 ATCACTTATCACTTGTCCCTGATCAGATAAATGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
40108594 ATCACTTGCCACTTGTCACTGATCAAATAACTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
40108645 ATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGC-AGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTA-AAGCTACCACTT
*
40108696 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
40108747 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCACTTAT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC-T-T
* * * *
40108800 CATTTGCCACTTGCCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACTACTT
1 -A--T--CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
40108856 ATCACTTGTCACT
1 ATCACTTGTCACT
40108869 GATCAGAAGT
Statistics
Matches: 242, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
50 34 0.14
51 157 0.65
52 2 0.01
53 2 0.01
54 1 0.00
55 1 0.00
56 2 0.01
57 1 0.00
58 42 0.17
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:40114398 original size:13 final size:13
Alignment explanation
Indices: 40114382--40114435 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
40114372 TTTCTTTTTC
*
40114382 TTTTTCTTTTATA
1 TTTTTATTTTATA
*
40114395 TTTTTGTTTTATAA
1 TTTTTATTTTAT-A
40114409 TTTTATAATTTTATA
1 TTTT-T-ATTTTATA
*
40114424 ATTTTATTTTAT
1 TTTTTATTTTAT
40114436 TTCATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 18 0.51
14 6 0.17
15 5 0.14
16 6 0.17
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:40114412 original size:8 final size:8
Alignment explanation
Indices: 40114401--40114430 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
40114391 TATATTTTTG
40114401 TTTTATAA
1 TTTTATAA
40114409 TTTTATAA
1 TTTTATAA
40114417 TTTTATAA
1 TTTTATAA
40114425 TTTTAT
1 TTTTAT
40114431 TTTATTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:40114507 original size:26 final size:26
Alignment explanation
Indices: 40114460--40114516 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
40114450 TGAGTTGTTT
* **
40114460 TATTTTTATAATTTTATTTTTTAAAA
1 TATTTTTATAATTATAAATTTTAAAA
**
40114486 TATTTTTATAATTATAAATTTTTGAA
1 TATTTTTATAATTATAAATTTTAAAA
40114512 TATTT
1 TATTT
40114517 AGAATAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TATTTTTATAATTATAAATTTTAAAA
Found at i:40115742 original size:23 final size:23
Alignment explanation
Indices: 40115681--40115768 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 23
40115671 ATTTTAAAAA
*
40115681 ATATA-AAAATATATTTACATATAC
1 ATATATAAAATA-A-TTACATATAT
*
40115705 ATATATATAATAAATCTGTACATATAT
1 ATATATAAAAT-AA--T-TACATATAT
40115732 ATATATAAAATAATTACATATAT
1 ATATATAAAATAATTACATATAT
* *
40115755 ACATAAAAAATAAT
1 ATATATAAAATAAT
40115769 GATTACTCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 21 0.39
24 6 0.11
25 5 0.09
26 4 0.07
27 18 0.33
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (23 bp):
ATATATAAAATAATTACATATAT
Found at i:40116787 original size:21 final size:21
Alignment explanation
Indices: 40116754--40116833 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
40116744 ATTACAAAAT
40116754 CATATC-T-TCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
*
40116773 CATATCATATCTAAGATTGCA
1 CATATCATATCTAAGATTGTA
*
40116794 TATATCATATCTAAGATTG--
1 CATATCATATCTAAGATTGTA
40116813 CATATCATATCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
40116834 TATCTTCGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
19 24 0.44
20 1 0.02
21 29 0.54
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CATATCATATCTAAGATTGTA
Found at i:40117140 original size:4 final size:4
Alignment explanation
Indices: 40117131--40117156 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
40117121 GATCCATTTT
40117131 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
40117157 ATTAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:40118417 original size:15 final size:15
Alignment explanation
Indices: 40118397--40118427 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40118387 TGACTTGGCT
40118397 AAACACAGTTTTTGC
1 AAACACAGTTTTTGC
40118412 AAACACAGTTTTTGC
1 AAACACAGTTTTTGC
40118427 A
1 A
40118428 TTAGCTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AAACACAGTTTTTGC
Found at i:40119218 original size:20 final size:21
Alignment explanation
Indices: 40119172--40119262 Score: 132
Period size: 21 Copynumber: 4.3 Consensus size: 21
40119162 TTTGAAATGT
40119172 TTTATAATATTATTTTTTAAAA
1 TTTA-AATATTATTTTTTAAAA
40119194 TTTTAAATA-TATTTTTTAAAA
1 -TTTAAATATTATTTTTTAAAA
40119215 TTTAAATATTATTTTTTAAAA
1 TTTAAATATTATTTTTTAAAA
40119236 TTTAAATA-TATTTTTTAATAA
1 TTTAAATATTATTTTTTAA-AA
*
40119257 TATAAA
1 TTTAAA
40119263 ACATTTAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
20 18 0.28
21 39 0.60
22 4 0.06
23 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAATATTATTTTTTAAAA
Found at i:40119223 original size:42 final size:42
Alignment explanation
Indices: 40119172--40119262 Score: 148
Period size: 42 Copynumber: 2.1 Consensus size: 42
40119162 TTTGAAATGT
40119172 TTTATAATATTATTTTTTAAAATTTTAAATATATTTTTTAA-AA
1 TTTA-AATATTATTTTTTAAAA-TTTAAATATATTTTTTAATAA
40119215 TTTAAATATTATTTTTTAAAATTTAAATATATTTTTTAATAA
1 TTTAAATATTATTTTTTAAAATTTAAATATATTTTTTAATAA
*
40119257 TATAAA
1 TTTAAA
40119263 ACATTTAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 18 0.39
42 24 0.52
43 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (42 bp):
TTTAAATATTATTTTTTAAAATTTAAATATATTTTTTAATAA
Found at i:40119326 original size:9 final size:9
Alignment explanation
Indices: 40119308--40119337 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
40119298 TTATTATTAG
40119308 TTTTATAATA
1 TTTTA-AATA
40119318 TTTTAAATA
1 TTTTAAATA
40119327 TTTTAAATA
1 TTTTAAATA
40119336 TT
1 TT
40119338 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAATA
Found at i:40119375 original size:21 final size:21
Alignment explanation
Indices: 40119349--40119410 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
40119339 ATTTTTTTAA
40119349 AATTTGTTTTATAATATTTTT
1 AATTTGTTTTATAATATTTTT
*
40119370 AATTTGTTTTATAATATTTAT
1 AATTTGTTTTATAATATTTTT
*
40119391 AA-TT-TTTTA-AATTTTTTT
1 AATTTGTTTTATAATATTTTT
40119409 AA
1 AA
40119411 AAATATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.24
19 5 0.13
20 2 0.05
21 22 0.58
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
AATTTGTTTTATAATATTTTT
Found at i:40119392 original size:30 final size:28
Alignment explanation
Indices: 40119356--40119430 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
40119346 TAAAATTTGT
*
40119356 TTTATAATATTTTT-AATTTGTTTTATAATA
1 TTTATAAT-TTTTTAAATTT-TTTTA-AAAA
40119386 TTTATAATTTTTTAAATTTTTTTAAAAA
1 TTTATAATTTTTTAAATTTTTTTAAAAA
* *
40119414 TATATAATTTTTAAAAT
1 TTTATAATTTTTTAAAT
40119431 ATGACCTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 18 0.44
29 10 0.24
30 13 0.32
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTATAATTTTTTAAATTTTTTTAAAAA
Found at i:40119512 original size:18 final size:17
Alignment explanation
Indices: 40119476--40119513 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
40119466 TTTAAATGTA
*
40119476 TATTTTAAATATTTTTT
1 TATTTTAAATATATTTT
40119493 TATTTTAAATATAATTTT
1 TATTTTAAATAT-ATTTT
40119511 TAT
1 TAT
40119514 AAATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTAAATATATTTT
Found at i:40119541 original size:11 final size:11
Alignment explanation
Indices: 40119519--40119553 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
40119509 TTTATAAATT
40119519 ATTAATTTTTAA
1 ATTAA-TTTTAA
40119531 ATTAATTTTAA
1 ATTAATTTTAA
*
40119542 ATTAAATTTAA
1 ATTAATTTTAA
40119553 A
1 A
40119554 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTAATTTTAA
Found at i:40119555 original size:12 final size:12
Alignment explanation
Indices: 40119519--40119556 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
40119509 TTTATAAATT
*
40119519 ATTAATTTTTAA
1 ATTAAATTTTAA
40119531 ATT-AATTTTAA
1 ATTAAATTTTAA
*
40119542 ATTAAATTTAAA
1 ATTAAATTTTAA
40119554 ATT
1 ATT
40119557 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTAAATTTTAA
Found at i:40119559 original size:30 final size:30
Alignment explanation
Indices: 40119494--40119561 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
40119484 ATATTTTTTT
* *
40119494 ATTTTAAATATAATTTTTATAAATTATTAA
1 ATTTTAAATATAATTTTAATAAATTATAAA
*
40119524 TTTTTAAAT-TAATTTTAAATTAAATT-TAAA
1 ATTTTAAATATAATTTT-AA-TAAATTATAAA
40119554 ATTTTAAA
1 ATTTTAAA
40119562 AATTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.22
30 19 0.59
31 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTTTAAATATAATTTTAATAAATTATAAA
Found at i:40122954 original size:30 final size:30
Alignment explanation
Indices: 40122890--40122993 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 30
40122880 TGGTTGCTCT
* * * **
40122890 GGGTGAAATGAACTCGAACTGCCTATGTTG
1 GGGTGATATGAACTCGAACTACCCATGTCC
*
40122920 GGGTGATATGAACTCGAACCACCCATGTCC
1 GGGTGATATGAACTCGAACTACCCATGTCC
*
40122950 GGGTGATATGAACTC-AAGCTATCCATGTCC
1 GGGTGATATGAACTCGAA-CTACCCATGTCC
40122980 GGGTGATATGAACT
1 GGGTGATATGAACT
40122994 ATTCTACGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
29 2 0.03
30 63 0.97
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (30 bp):
GGGTGATATGAACTCGAACTACCCATGTCC
Found at i:40125293 original size:9 final size:9
Alignment explanation
Indices: 40125276--40125312 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
40125266 TATAGTTTGA
*
40125276 TATTTGAAT
1 TATTCGAAT
40125285 TATTCGAAT
1 TATTCGAAT
*
40125294 TATTCGAGT
1 TATTCGAAT
40125303 TATTCGAAT
1 TATTCGAAT
40125312 T
1 T
40125313 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:40125387 original size:18 final size:18
Alignment explanation
Indices: 40125361--40125398 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
40125351 AAAATTTGAG
*
40125361 TTAATTCGAATAACTCGA
1 TTAACTCGAATAACTCGA
40125379 TTAACTCGAATAACTCGA
1 TTAACTCGAATAACTCGA
40125397 TT
1 TT
40125399 CGTTTAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (18 bp):
TTAACTCGAATAACTCGA
Found at i:40126896 original size:20 final size:19
Alignment explanation
Indices: 40126867--40126916 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
40126857 TAATTATAAT
40126867 ATATATTTTTAATTTTTTA
1 ATATATTTTTAATTTTTTA
*
40126886 ATTTAATTTTT-ATTTTTTA
1 ATAT-ATTTTTAATTTTTTA
40126905 ATATATTTTTAA
1 ATATATTTTTAA
40126917 ATAAAGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 15 0.56
20 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATATTTTTAATTTTTTA
Found at i:40126970 original size:19 final size:21
Alignment explanation
Indices: 40126928--40126976 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
40126918 TAAAGTCATA
40126928 TTTTTTTAACAAATAAATTCTT
1 TTTTTTTAACAAAT-AATTCTT
*
40126950 TTTTTTTAA-AAAT-ATTGTT
1 TTTTTTTAACAAATAATTCTT
40126969 TTATTTTT
1 TT-TTTTT
40126977 TCTAATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 4 0.16
22 9 0.36
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTTAACAAATAATTCTT
Found at i:40127062 original size:21 final size:22
Alignment explanation
Indices: 40127023--40127067 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
40127013 ATTATTTTTT
*
40127023 AAAATTTTAAATATAATTTAAA
1 AAAAGTTTAAATATAATTTAAA
* *
40127045 AAAAGTTTGAATATATTTTAAA
1 AAAAGTTTAAATATAATTTAAA
40127067 A
1 A
40127068 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAGTTTAAATATAATTTAAA
Found at i:40127225 original size:21 final size:22
Alignment explanation
Indices: 40127201--40127241 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
40127191 TTTTATATTA
40127201 TTAAAAAAT-ATATTTAAAATT
1 TTAAAAAATAATATTTAAAATT
40127222 TTAAAAAATAATATTTAAAA
1 TTAAAAAATAATATTTAAAA
40127242 AATATATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAAAATAATATTTAAAATT
Found at i:40127240 original size:14 final size:13
Alignment explanation
Indices: 40127201--40127254 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
40127191 TTTTATATTA
40127201 TTAAAAAATATAT
1 TTAAAAAATATAT
40127214 TT---AAA-AT-T
1 TTAAAAAATATAT
40127222 TTAAAAAATAATAT
1 TTAAAAAAT-ATAT
40127236 TTAAAAAATATAT
1 TTAAAAAATATAT
*
40127249 CTAAAA
1 TTAAAA
40127255 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 3 0.09
11 3 0.09
13 13 0.38
14 10 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAAAATATAT
Found at i:40127246 original size:35 final size:35
Alignment explanation
Indices: 40127201--40127277 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
40127191 TTTTATATTA
*
40127201 TTAAAAAATATATTTAAAATTTTAAAAAATAATAT
1 TTAAAAAATATATCTAAAATTTTAAAAAATAATAT
40127236 TTAAAAAATATATCTAAAATTTTAAAAAATAATAT
1 TTAAAAAATATATCTAAAATTTTAAAAAATAATAT
40127271 TATAAAA
1 T-TAAAA
40127278 CATTTCAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (35 bp):
TTAAAAAATATATCTAAAATTTTAAAAAATAATAT
Found at i:40127337 original size:9 final size:8
Alignment explanation
Indices: 40127318--40127400 Score: 58
Period size: 9 Copynumber: 9.5 Consensus size: 8
40127308 AACCAATAAT
40127318 AAAAAATA
1 AAAAAATA
*
40127326 AATAAAACA
1 AA-AAAATA
*
40127335 AATAAATA
1 AAAAAATA
40127343 AAATAAATA
1 AAA-AAATA
*
40127352 AGGACAAATA
1 A--AAAAATA
*
40127362 AAAAACTTA
1 AAAAA-ATA
40127371 AAAAAAGTA
1 AAAAAA-TA
*
40127380 AATAAATA
1 AAAAAATA
40127388 AAAAAATTA
1 AAAAAA-TA
40127397 AAAA
1 AAAA
40127401 GAAAGAAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
8 18 0.31
9 33 0.57
10 6 0.10
11 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (8 bp):
AAAAAATA
Found at i:40127337 original size:13 final size:13
Alignment explanation
Indices: 40127305--40127352 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
40127295 TCAAAAATTT
*
40127305 TAAAACCAAT-AA
1 TAAAACAAATAAA
40127317 T-AAA-AAATAAA
1 TAAAACAAATAAA
40127328 TAAAACAAATAAA
1 TAAAACAAATAAA
*
40127341 TAAAATAAATAA
1 TAAAACAAATAA
40127353 GGACAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 3 0.10
11 6 0.19
12 4 0.13
13 18 0.58
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAACAAATAAA
Found at i:40128666 original size:9 final size:9
Alignment explanation
Indices: 40128652--40128682 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
40128642 GTTAAACGAA
40128652 TCGAGTTAT
1 TCGAGTTAT
*
40128661 TCGAGTTAA
1 TCGAGTTAT
40128670 TCGAGTTAT
1 TCGAGTTAT
40128679 TCGA
1 TCGA
40128683 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:40128752 original size:9 final size:9
Alignment explanation
Indices: 40128735--40128771 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
40128725 TGAGTTTTCG
40128735 AATTCGAAT
1 AATTCGAAT
*
40128744 AACTCGAAT
1 AATTCGAAT
40128753 AATTCGAAT
1 AATTCGAAT
40128762 AATTCGAAT
1 AATTCGAAT
40128771 A
1 A
40128772 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:40136346 original size:35 final size:35
Alignment explanation
Indices: 40136256--40136346 Score: 128
Period size: 35 Copynumber: 2.6 Consensus size: 35
40136246 ACTCTTTGTT
* * *
40136256 TTGGTGTGTTTCGGTTGGACTAGCTCTTACGAGCA
1 TTGGTGTGTTTTGGTTGGATTAGCTCTAACGAGCA
* **
40136291 TTGGTGTGTTTTAGAGGGATTAGCTCTAACGAGCA
1 TTGGTGTGTTTTGGTTGGATTAGCTCTAACGAGCA
40136326 TTGGTGTGTTTTGGTTGGATT
1 TTGGTGTGTTTTGGTTGGATT
40136347 GTCGATGTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTTGGTTGGATTAGCTCTAACGAGCA
Found at i:40142177 original size:20 final size:22
Alignment explanation
Indices: 40142144--40142183 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
40142134 ATTTAATCCC
*
40142144 TCTACCTTTTAAATT-TATAAA
1 TCTACCTTTCAAATTATATAAA
40142165 TCTA-CTTTCAAATTATATA
1 TCTACCTTTCAAATTATATA
40142184 TAACTACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTACCTTTCAAATTATATAAA
Found at i:40142183 original size:21 final size:21
Alignment explanation
Indices: 40142144--40142191 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
40142134 ATTTAATCCC
*
40142144 TCTACCTTTTAAATTTATA-AA
1 TCTA-CTTTCAAATTTATATAA
40142165 TCTACTTTCAAATTATATATAA
1 TCTACTTTCAAATT-TATATAA
40142187 -CTACT
1 TCTACT
40142192 AATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
TCTACTTTCAAATTTATATAA
Found at i:40142275 original size:29 final size:29
Alignment explanation
Indices: 40142231--40142286 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
40142221 TAACTATTTG
*
40142231 AACTAATTAATTATATTATAAAAATATTA
1 AACTAATTAATAATATTATAAAAATATTA
40142260 AACTAATTAATAATATTATAAAAATAT
1 AACTAATTAATAATATTATAAAAATAT
40142287 AAAAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
AACTAATTAATAATATTATAAAAATATTA
Found at i:40142303 original size:29 final size:29
Alignment explanation
Indices: 40142235--40142300 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
40142225 TATTTGAACT
* * *
40142235 AATTAATTATATTATAAAAATATTAAACT
1 AATTAATAATATTATAAAAATATAAAACA
40142264 AATTAATAATATTATAAAAATATAAAAACCA
1 AATTAATAATATTATAAAAATAT-AAAA-CA
40142295 AATTAA
1 AATTAA
40142301 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 22 0.69
30 3 0.09
31 7 0.22
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (29 bp):
AATTAATAATATTATAAAAATATAAAACA
Found at i:40142322 original size:24 final size:24
Alignment explanation
Indices: 40142277--40142326 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
40142267 TAATAATATT
*
40142277 ATAAAAATATAAAAACCAAATTAA
1 ATAAAAATATAAAAACAAAATTAA
*
40142301 ATAAAAA-ATAAAAATAATAATTAA
1 ATAAAAATATAAAAACAA-AATTAA
40142325 AT
1 AT
40142327 CTCAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
ATAAAAATATAAAAACAAAATTAA
Found at i:40142803 original size:19 final size:19
Alignment explanation
Indices: 40142750--40142812 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
40142740 AAAAATAATA
* **
40142750 AAAATTGTAAAAAAAAATT
1 AAAATTGTAAAAATATTTT
40142769 AAATATTGTTAAAAATATTTT
1 AAA-ATTG-TAAAAATATTTT
40142790 AAAATTGTAAAAAT-TTATT
1 AAAATTGTAAAAATATT-TT
40142809 AAAA
1 AAAA
40142813 ATAATAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.05
19 16 0.42
20 8 0.21
21 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAATTGTAAAAATATTTT
Found at i:40142812 original size:10 final size:10
Alignment explanation
Indices: 40142731--40142874 Score: 53
Period size: 10 Copynumber: 14.3 Consensus size: 10
40142721 TAAAAATTTT
*
40142731 AAATTATCAA
1 AAATTATTAA
* *
40142741 AAAATAATAA
1 AAATTATTAA
* *
40142751 AAATTGTAAA
1 AAATTATTAA
**
40142761 AAAAAATTAA
1 AAATTATTAA
* *
40142771 ATATTGTTAA
1 AAATTATTAA
*
40142781 AAA-TATTTTA
1 AAATTA-TTAA
*
40142791 AAATT-GTAA
1 AAATTATTAA
40142800 AAATTTATTAA
1 AAA-TTATTAA
* *
40142811 AAATAATAAA
1 AAATTATTAA
*
40142821 AAATTATT-T
1 AAATTATTAA
*
40142830 AAATTTTTAGAA
1 AAATTATT--AA
*
40142842 AAATTATTCA
1 AAATTATTAA
**
40142852 AAACCA-TAA
1 AAATTATTAA
40142861 ATAATTATTAA
1 A-AATTATTAA
40142872 AAA
1 AAA
40142875 GTTGTAAATA
Statistics
Matches: 90, Mismatches: 35, Indels: 18
0.63 0.24 0.13
Matches are distributed among these distances:
9 16 0.18
10 56 0.62
11 11 0.12
12 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:40142813 original size:20 final size:20
Alignment explanation
Indices: 40142739--40142888 Score: 99
Period size: 20 Copynumber: 7.5 Consensus size: 20
40142729 TTAAATTATC
*
40142739 AAAAAA-TAATAAAAATTGT
1 AAAAAATTATTAAAAATTGT
** *
40142758 AAAAAAAAATTAAATATTGTT
1 AAAAAATTATTAAAAATTG-T
40142779 AAAAATATT-TT-AAAATTGT
1 AAAAA-ATTATTAAAAATTGT
* **
40142798 AAAAATTTATTAAAAATAAT
1 AAAAAATTATTAAAAATTGT
* * *
40142818 AAAAAATTATTTAAATTTTT
1 AAAAAATTATTAAAAATTGT
* ***
40142838 AGAAAAATTATTCAAAACCAT
1 A-AAAAATTATTAAAAATTGT
*
40142859 AAATAATTATTAAAAAGTTGT
1 AAAAAATTATTAAAAA-TTGT
*
40142880 AAATAATTA
1 AAAAAATTA
40142889 ACAAATCAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
18 2 0.02
19 14 0.14
20 50 0.50
21 33 0.33
22 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTGT
Found at i:40142829 original size:41 final size:40
Alignment explanation
Indices: 40142779--40142887 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 40
40142769 AAATATTGTT
*
40142779 AAAAA-TATTTTAAAATTGTAAAAATTTATTAAAAATAATA
1 AAAAATTA-TTTAAAATTGTAAAAATTTATTAAAAACAATA
* * * * *
40142819 AAAAATTATTTAAATTTTTAGAAAAATTATTCAAAACCATA
1 AAAAATTATTTAAAATTGTA-AAAATTTATTAAAAACAATA
* *
40142860 AATAATTATTAAAAAGTTGTAAATAATT
1 AAAAATTATTTAAAA-TTGTAAA-AATT
40142888 AACAAATCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
40 15 0.28
41 32 0.59
42 7 0.13
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (40 bp):
AAAAATTATTTAAAATTGTAAAAATTTATTAAAAACAATA
Found at i:40147736 original size:19 final size:19
Alignment explanation
Indices: 40147709--40147747 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40147699 TATTTTTCTC
40147709 AAAAATTATAAAATTATTT
1 AAAAATTATAAAATTATTT
* *
40147728 AAAATTTATGAAATTATTT
1 AAAAATTATAAAATTATTT
40147747 A
1 A
40147748 TTAAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAAATTATAAAATTATTT
Found at i:40147898 original size:19 final size:19
Alignment explanation
Indices: 40147876--40147952 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
40147866 AAGTTTTAAT
40147876 AAATTTTTTTACAATTTTA
1 AAATTTTTTTACAATTTTA
* *
40147895 AAATATTTTAACAATATTTA
1 AAATTTTTTTACAAT-TTTA
**
40147915 ATAATTTTTTATA-TTTTTTA
1 A-AATTTTTT-TACAATTTTA
*
40147935 ATATTTTTTTACAATTTT
1 AAATTTTTTTACAATTTT
40147953 TATATTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
18 2 0.04
19 24 0.53
20 10 0.22
21 8 0.18
22 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
AAATTTTTTTACAATTTTA
Found at i:40147925 original size:11 final size:11
Alignment explanation
Indices: 40147869--40148011 Score: 56
Period size: 10 Copynumber: 13.6 Consensus size: 11
40147859 GTTTTATAAG
40147869 TTTTAATAAATT
1 TTTTAAT-AATT
* *
40147881 TTTTTACAA--
1 TTTTAATAATT
*
40147890 TTTTAA-AATA
1 TTTTAATAATT
*
40147900 TTTTAACAA-T
1 TTTTAATAATT
*
40147910 ATTTAATAATT
1 TTTTAATAATT
40147921 TTTT-AT-ATT
1 TTTTAATAATT
40147930 TTTTAAT-ATT
1 TTTTAATAATT
* *
40147940 TTTTTACAA-T
1 TTTTAATAATT
*
40147950 TTTT-ATATTT
1 TTTTAATAATT
40147960 ATTTTAAT-ATT
1 -TTTTAATAATT
* **
40147971 CTTTAACGA-T
1 TTTTAATAATT
40147981 TTTTAATAAATT
1 TTTTAAT-AATT
* *
40147993 CTTTTTACAATT
1 -TTTTAATAATT
40148005 TTTTAAT
1 TTTTAAT
40148012 TTGGTCAACG
Statistics
Matches: 97, Mismatches: 21, Indels: 27
0.67 0.14 0.19
Matches are distributed among these distances:
8 2 0.02
9 14 0.14
10 42 0.43
11 22 0.23
12 12 0.12
13 5 0.05
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:40147953 original size:20 final size:20
Alignment explanation
Indices: 40147878--40147965 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
40147868 GTTTTAATAA
*
40147878 ATTTTTTTACAA-TTTTAAA
1 ATTTTTTTACAATTTTTAAT
* * *
40147897 ATATTTTAACAATATTTAAT
1 ATTTTTTTACAATTTTTAAT
* * *
40147917 AATTTTTTATATTTTTTAAT
1 ATTTTTTTACAATTTTTAAT
40147937 ATTTTTTTACAATTTTT-AT
1 ATTTTTTTACAATTTTTAAT
40147956 ATTTATTTTA
1 ATTT-TTTTA
40147966 ATATTCTTTA
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
19 16 0.30
20 38 0.70
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTTACAATTTTTAAT
Found at i:40147968 original size:31 final size:29
Alignment explanation
Indices: 40147911--40147985 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 29
40147901 TTTAACAATA
* *
40147911 TTTAATAATTTTTTATATTTTTTAATATTT
1 TTTAACAA-TTTTTATATTTTTTAATATTC
*
40147941 TTTTACAATTTTTATATTTATTTTAATATTC
1 TTTAACAATTTTTATA-TT-TTTTAATATTC
*
40147972 TTTAACGATTTTTA
1 TTTAACAATTTTTA
40147986 ATAAATTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 8 0.21
30 8 0.21
31 22 0.58
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTAACAATTTTTATATTTTTTAATATTC
Found at i:40148700 original size:18 final size:17
Alignment explanation
Indices: 40148679--40148731 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
40148669 GTTATGGATT
40148679 TGGGTTCGGGTTCGGGTC
1 TGGG-TCGGGTTCGGGTC
* *
40148697 TGGGTCTGGATCTGGGTC
1 TGGGTCGGGTTC-GGGTC
40148715 TGGGTCGGGTTCCGGGT
1 TGGGTCGGGTT-CGGGT
40148732 ATGGTTATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.21
18 22 0.76
19 1 0.03
ACGTcount: A:0.02, C:0.17, G:0.49, T:0.32
Consensus pattern (17 bp):
TGGGTCGGGTTCGGGTC
Found at i:40148701 original size:6 final size:6
Alignment explanation
Indices: 40148692--40148724 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
40148682 GTTCGGGTTC
*
40148692 GGGTCT GGGTCT GGATCT GGGTCT GGGTC- GGGT
1 GGGTCT GGGTCT GGGTCT GGGTCT GGGTCT GGGT
40148725 TCCGGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.03, C:0.15, G:0.52, T:0.30
Consensus pattern (6 bp):
GGGTCT
Found at i:40164843 original size:31 final size:33
Alignment explanation
Indices: 40164788--40164858 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
40164778 TAAACTTATG
*
40164788 ATATATATACATGGGCTTTATTTTATATATA-GT
1 ATATATATACATGGGCTTTATTTTA-ATATACAT
40164821 ATATATATTA-ATGGG-TTT-TTTTAATATACAT
1 ATATATA-TACATGGGCTTTATTTTAATATACAT
40164852 ATATATA
1 ATATATA
40164859 AGCGTGTGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 13 0.37
32 3 0.09
33 12 0.34
34 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (33 bp):
ATATATATACATGGGCTTTATTTTAATATACAT
Found at i:40165320 original size:18 final size:18
Alignment explanation
Indices: 40165299--40165354 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
40165289 TATATTGTTA
*
40165299 TGGTGAACTGTGTTAATT
1 TGGTGAACTGTATTAATT
** *
40165317 TGGTGATTTGTATTAATA
1 TGGTGAACTGTATTAATT
**
40165335 TGGAAAACTGTATTAATT
1 TGGTGAACTGTATTAATT
40165353 TG
1 TG
40165355 TCAAACCGTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.45
Consensus pattern (18 bp):
TGGTGAACTGTATTAATT
Found at i:40166032 original size:17 final size:17
Alignment explanation
Indices: 40166012--40166079 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 17
40166002 TTATTTTGCG
40166012 TGAATTGTTATTTGGTA
1 TGAATTGTTATTTGGTA
* **
40166029 TGAATTGATATTTCATA
1 TGAATTGTTATTTGGTA
* * * *
40166046 TGAACTATTATTTTGCA
1 TGAATTGTTATTTGGTA
* *
40166063 TGAGTTGTCATTTGGTA
1 TGAATTGTTATTTGGTA
40166080 AGAACTATTA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (17 bp):
TGAATTGTTATTTGGTA
Found at i:40166057 original size:51 final size:51
Alignment explanation
Indices: 40166002--40166101 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
40165992 GCATGAAATG
* * * *
40166002 TTATTTTGCGTGAATTGTTATTTGGTATGAATTGA-TATTTCATATGAACTA
1 TTATTTTGCATGAATTGTCATTTGGTAAGAACT-ATTATTTCATATGAACTA
*
40166053 TTATTTTGCATGAGTTGTCATTTGGTAAGAACTATTATTTCATATGAAC
1 TTATTTTGCATGAATTGTCATTTGGTAAGAACTATTATTTCATATGAAC
40166102 ATATGTTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (51 bp):
TTATTTTGCATGAATTGTCATTTGGTAAGAACTATTATTTCATATGAACTA
Found at i:40168437 original size:23 final size:24
Alignment explanation
Indices: 40168411--40168463 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
40168401 GATTCACCAT
40168411 AAAGGCAACATA-A-AATATGCCAC
1 AAAGGC-ACATACAGAATATGCCAC
*
40168434 AAAGGCACTTACAGAATATGCCAC
1 AAAGGCACATACAGAATATGCCAC
40168458 AAAGGC
1 AAAGGC
40168464 TTCATAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 7 0.26
24 16 0.59
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (24 bp):
AAAGGCACATACAGAATATGCCAC
Found at i:40172563 original size:11 final size:11
Alignment explanation
Indices: 40172532--40172560 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
40172522 CTTAATCACT
40172532 TTAATATTATA
1 TTAATATTATA
40172543 TTAATATTATA
1 TTAATATTATA
40172554 -TAATATT
1 TTAATATT
40172561 TATCTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAATATTATA
Found at i:40172658 original size:59 final size:58
Alignment explanation
Indices: 40172541--40172723 Score: 141
Period size: 59 Copynumber: 3.2 Consensus size: 58
40172531 TTTAATATTA
* * * * *
40172541 TATTAATATTATATAATATTTATCTTGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAAATAATATAATATTTATCTTGATAAATATAAGATTAAATTAAATAATAAATC
* * *
40172599 TTATTAAAATAATATAATGTTTATCTTG-TAAAT-TAAGTTTAATATTAAGATAATCAATC
1 -TATTAAAATAATATAATATTTATCTTGATAAATATAAGATTAA-ATTAA-ATAATAAATC
* * * * * *
40172658 TATTAAGATAAAATACTA-TTA---AGATAAGTATTAA-ATTAAATT-AATATTAAA-C
1 TATTAAAATAATATAATATTTATCTTGATAAATA-TAAGATTAAATTAAATAATAAATC
40172710 TATTAAAATAATAT
1 TATTAAAATAATAT
40172724 TATTAAGATA
Statistics
Matches: 100, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
52 13 0.13
53 6 0.06
54 2 0.02
55 7 0.07
56 4 0.04
57 13 0.13
58 23 0.23
59 32 0.32
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (58 bp):
TATTAAAATAATATAATATTTATCTTGATAAATATAAGATTAAATTAAATAATAAATC
Found at i:40172678 original size:16 final size:16
Alignment explanation
Indices: 40172641--40172684 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
40172631 TTAAGTTTAA
40172641 TATTAAGATAATCAATC
1 TATTAAGATAA-CAATC
40172658 TATTAAGATAA-AATAC
1 TATTAAGATAACAAT-C
40172674 TATTAAGATAA
1 TATTAAGATAA
40172685 GTATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.46
17 11 0.42
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (16 bp):
TATTAAGATAACAATC
Found at i:40178443 original size:23 final size:23
Alignment explanation
Indices: 40178414--40178460 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
40178404 GTAAGAATGC
40178414 TAATAAGATGACTAGGAGACATA
1 TAATAAGATGACTAGGAGACATA
* *
40178437 TAATAAGATGAGTATGAGACATA
1 TAATAAGATGACTAGGAGACATA
40178460 T
1 T
40178461 TTGAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (23 bp):
TAATAAGATGACTAGGAGACATA
Found at i:40180567 original size:20 final size:18
Alignment explanation
Indices: 40180517--40180568 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
40180507 CTACAAGATA
40180517 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
40180534 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
40180554 AATATTAAATTAATA
1 AATATTAAATTAATA
40180569 AAAATACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:40183710 original size:67 final size:71
Alignment explanation
Indices: 40183615--40183760 Score: 237
Period size: 73 Copynumber: 2.1 Consensus size: 71
40183605 GATAAGACAT
*
40183615 TTTCTAGAAATAGAATCTGTGTTTAATTCC-T-TATATATAT-T-CAATATATCCAAACAAGATA
1 TTTCTAGAAATAGAATCCGTGTTTAATTCCTTATATATATATATCCAATATATCCAAACAAGATA
40183676 TACAAA
66 TACAAA
40183682 TTTCTAGAAATAGAATCCGTGTTTAATTCCTTATATATATATATATCCAATATATCCAAACAAGA
1 TTTCTAGAAATAGAATCCGTGTTTAATTCC-T-TATATATATATATCCAATATATCCAAACAAGA
40183747 TATACAAA
64 TATACAAA
40183755 TTTCTA
1 TTTCTA
40183761 ATAGATCAGA
Statistics
Matches: 72, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
67 29 0.40
70 1 0.01
71 9 0.12
72 1 0.01
73 32 0.44
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (71 bp):
TTTCTAGAAATAGAATCCGTGTTTAATTCCTTATATATATATATCCAATATATCCAAACAAGATA
TACAAA
Found at i:40191435 original size:21 final size:21
Alignment explanation
Indices: 40191409--40191450 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
40191399 GTCGCTTAAA
*
40191409 TTTTGACGGATCCATATTGCC
1 TTTTGACGGATCCACATTGCC
* *
40191430 TTTTGATGGATTCACATTGCC
1 TTTTGACGGATCCACATTGCC
40191451 ATCAATTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TTTTGACGGATCCACATTGCC
Found at i:40194421 original size:26 final size:26
Alignment explanation
Indices: 40194385--40194446 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
40194375 ACATATTTTT
*
40194385 TCAAAATTTTACCAA-GGTCAAAATCG
1 TCAAAATTTTACCAAGGGT-AAAATCA
40194411 TCAAAATTTTACCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGTAAAATCA
40194437 TCAAAATTTT
1 TCAAAATTTT
40194447 GTTGGGGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGTAAAATCA
Found at i:40203594 original size:24 final size:24
Alignment explanation
Indices: 40203555--40203624 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
40203545 AATACCAACC
*
40203555 TTTTCATT-ACTATCCTTTTTGACA
1 TTTTCATTGA-TATCCTTTTCGACA
* *
40203579 TTTTCATTGATTTCCTTTTCGACC
1 TTTTCATTGATATCCTTTTCGACA
40203603 TTTTCATTGATATCCTTTTCGA
1 TTTTCATTGATATCCTTTTCGA
40203625 ATAACGTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.54
Consensus pattern (24 bp):
TTTTCATTGATATCCTTTTCGACA
Found at i:40203675 original size:40 final size:39
Alignment explanation
Indices: 40203591--40203729 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 39
40203581 TTCATTGATT
*
40203591 TCCTTTTCGACCTTTTCATTGATATCCTTTTCGAATAAC
1 TCCTTTTCAACCTTTTCATTGATATCCTTTTCGAATAAC
* *
40203630 GTCCTTTTTAACCTTTTCATTTGATATCCTTTTTGGACAT-A-
1 -TCCTTTTCAACCTTTTCA-TTGATATCC-TTTTCGA-ATAAC
** * * *
40203671 TCCTTTTCAATATTTTCAAGTGTTATCCCTTTC-AAGTAACC
1 TCCTTTTCAACCTTTTC-ATTGATATCCTTTTCGAA-TAA-C
*
40203712 TCCTTTTCAAACTTTTCA
1 TCCTTTTCAACCTTTTCA
40203730 AGTATTCAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 4 0.05
40 38 0.48
41 25 0.32
42 7 0.09
43 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (39 bp):
TCCTTTTCAACCTTTTCATTGATATCCTTTTCGAATAAC
Found at i:40205839 original size:14 final size:15
Alignment explanation
Indices: 40205800--40205840 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
40205790 AATGACAACT
40205800 AATTAATTTTACATAA
1 AATTAATTTTA-ATAA
*
40205816 AAATAA-TTTAAT-A
1 AATTAATTTTAATAA
40205829 AATTAATTTTAA
1 AATTAATTTTAA
40205841 AGTTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 4 0.18
16 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAATTTTAATAA
Found at i:40205859 original size:23 final size:23
Alignment explanation
Indices: 40205819--40205877 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
40205809 TACATAAAAA
40205819 TAATTTAATAAATTAATTTTAAAGT
1 TAATTT-ATAAATTAA-TTTAAAGT
*
40205844 TAATTTAT-AATTAATTTAAATT
1 TAATTTATAAATTAATTTAAAGT
40205866 TGAATTTA-AAAT
1 T-AATTTATAAAT
40205878 ATTTAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 2 0.06
25 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TAATTTATAAATTAATTTAAAGT
Found at i:40217636 original size:7 final size:8
Alignment explanation
Indices: 40217618--40217676 Score: 56
Period size: 8 Copynumber: 8.0 Consensus size: 8
40217608 GACTCGAAAG
40217618 AAAAATCA
1 AAAAATCA
40217626 AAAAATCA
1 AAAAATCA
40217634 AAAAAT-A
1 AAAAATCA
*
40217641 ATAAA--A
1 AAAAATCA
*
40217647 AATAAT-A
1 AAAAATCA
40217654 AAAAA-CA
1 AAAAATCA
*
40217661 AAAAATTA
1 AAAAATCA
40217669 AAAAATCA
1 AAAAATCA
40217677 TAAGAGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 4 0.10
7 16 0.38
8 22 0.52
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATCA
Found at i:40217646 original size:10 final size:10
Alignment explanation
Indices: 40217633--40217658 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
40217623 TCAAAAAATC
40217633 AAAAAATAAT
1 AAAAAATAAT
40217643 AAAAAATAAT
1 AAAAAATAAT
40217653 AAAAAA
1 AAAAAA
40217659 CAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:40217679 original size:28 final size:28
Alignment explanation
Indices: 40217625--40217679 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 28
40217615 AAGAAAAATC
40217625 AAAAAATCAAAAAATAATAAAAAATAAT
1 AAAAAATCAAAAAATAATAAAAAATAAT
*
40217653 AAAAAA-CAAAAAAT--TAAAAAATCAT
1 AAAAAATCAAAAAATAATAAAAAATAAT
40217678 AA
1 AA
40217680 GAGAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
27 8 0.31
28 6 0.23
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (28 bp):
AAAAAATCAAAAAATAATAAAAAATAAT
Found at i:40217699 original size:35 final size:35
Alignment explanation
Indices: 40217615--40217701 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
40217605 TCAGACTCGA
*
40217615 AAGAAAAATCAAAAAATCAAAAAATAATAAAAAAT
1 AAGAAAAAACAAAAAATCAAAAAATAATAAAAAAT
* * *
40217650 AATAAAAAACAAAAAATTAAAAAATCATAAGAGAAA-
1 AAGAAAAAACAAAAAATCAAAAAATAATAA-A-AAAT
40217686 AAGAAAGAAA-AAAAAA
1 AAGAAA-AAACAAAAAA
40217702 GAAAAGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 26 0.59
36 12 0.27
37 6 0.14
ACGTcount: A:0.78, C:0.05, G:0.06, T:0.11
Consensus pattern (35 bp):
AAGAAAAAACAAAAAATCAAAAAATAATAAAAAAT
Found at i:40217711 original size:11 final size:10
Alignment explanation
Indices: 40217681--40217718 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
40217671 AAATCATAAG
*
40217681 AGAAAAAGAA
1 AGAAAAAAAA
40217691 AGAAAAAAAA
1 AGAAAAAAAA
40217701 AGAAAAGAAAA
1 AGAAAA-AAAA
40217712 AGAAAAA
1 AGAAAAA
40217719 GGAGAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:40219823 original size:46 final size:46
Alignment explanation
Indices: 40219764--40219991 Score: 366
Period size: 46 Copynumber: 5.0 Consensus size: 46
40219754 AATGAAGTTA
*
40219764 CAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
40219810 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
* * *
40219856 CAGATCTTGTCTTCCTATATTTGGCAACGGAAGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
* * *
40219902 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAAGAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
* * *
40219948 CAGATCTTGTCTTTCTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
40219992 GGTGAATCTT
Statistics
Matches: 169, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAG
Found at i:40220134 original size:132 final size:132
Alignment explanation
Indices: 40219981--40220275 Score: 414
Period size: 132 Copynumber: 2.2 Consensus size: 132
40219971 GCAGCAGAGT
* * *
40219981 AGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTTAAACCATTAGTCCT
* * * * * * *
40220046 ATCACTCTAAGCAGTAGTGGAGTAGGTTGAA-GATTGCAGATTTTGTCA-CCCTAAGCAGTAGTG
66 ATCACCCTAAGCAGTAGTGGAATA-GATCAATGACTGCAGATTCTGT-ATCCCTAAACAGTAGTG
*
40220109 GAGC
129 GAAC
40220113 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTTAAACCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTTAAACCATTAGTCCT
*
40220178 ATCACCCTAAGCAGTAGTGGAATAGATCAATGACTGTAGATTCTGTATCCCTAAACAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAATAGATCAATGACTGCAGATTCTGTATCCCTAAACAGTAGTGGA
40220243 AC
131 AC
* * * *
40220245 AGATCAAAGACGGTGAATTTTACCTTCCCAA
1 AGATCGAAGATGGTGAATCTTATCTTCCCAA
40220276 GATACTAGGG
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
131 5 0.03
132 140 0.97
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (132 bp):
AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTTAAACCATTAGTCCT
ATCACCCTAAGCAGTAGTGGAATAGATCAATGACTGCAGATTCTGTATCCCTAAACAGTAGTGGA
AC
Found at i:40220616 original size:22 final size:22
Alignment explanation
Indices: 40220590--40220631 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
40220580 CCTCAGCTAC
40220590 CCAAACACAACCAAACCCAAAT
1 CCAAACACAACCAAACCCAAAT
* *
40220612 CCAAACAGAACCAGACCCAA
1 CCAAACACAACCAAACCCAA
40220632 CTAGCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.40, G:0.05, T:0.02
Consensus pattern (22 bp):
CCAAACACAACCAAACCCAAAT
Done.