Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 298 of 343
Found at i:97706571 original size:15 final size:16
Alignment explanation
Indices: 97706551--97706586 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
97706541 CGAGCCTAAA
97706551 ACATGCAAAT-TAACC
1 ACATGCAAATGTAACC
97706566 ACATGCAAATGTAACC
1 ACATGCAAATGTAACC
97706582 -CATGC
1 ACATGC
97706587 TAACTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (16 bp):
ACATGCAAATGTAACC
Found at i:97710848 original size:16 final size:16
Alignment explanation
Indices: 97710829--97710862 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
97710819 AATTTGATTT
*
97710829 AAAGGAGAGGAAAAGA
1 AAAGGAGAAGAAAAGA
97710845 AAAGGAGAAGAAAAGA
1 AAAGGAGAAGAAAAGA
97710861 AA
1 AA
97710863 TAAAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGGAGAAGAAAAGA
Found at i:97717015 original size:35 final size:37
Alignment explanation
Indices: 97716940--97717016 Score: 86
Period size: 39 Copynumber: 2.1 Consensus size: 37
97716930 TTTACACACG
*
97716940 GGATAAAATCAACCCACCCAGCCCTACACACCAAGTATAA
1 GGATAAAATCAACCCACCCAACCCTACACACC-A--ATAA
* *
97716980 GGAT-AAATCAACCCATCTAACCCTACACACC-ATAA
1 GGATAAAATCAACCCACCCAACCCTACACACCAATAA
97717015 GG
1 GG
97717017 TACCGTGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 6 0.18
39 24 0.71
40 4 0.12
ACGTcount: A:0.42, C:0.34, G:0.10, T:0.14
Consensus pattern (37 bp):
GGATAAAATCAACCCACCCAACCCTACACACCAATAA
Found at i:97717390 original size:18 final size:18
Alignment explanation
Indices: 97717367--97717406 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
97717357 TATGTAGCCT
97717367 GCCCGTGTGAGCCCACAC-
1 GCCCGTGTG-GCCCACACA
*
97717385 GCCCGTGTGGCTCACACA
1 GCCCGTGTGGCCCACACA
97717403 GCCC
1 GCCC
97717407 AAATTTGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.45, G:0.28, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGCCCACACA
Found at i:97719271 original size:68 final size:71
Alignment explanation
Indices: 97719130--97719274 Score: 181
Period size: 68 Copynumber: 2.1 Consensus size: 71
97719120 TATTAAATTT
*
97719130 TATTAAATTAATAAAATATCTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATAATT
1 TATTAAAATAATAAAATATCTATCTA-AAGATAAACATTAAATTTAATTTAATATTAAGATAATT
***
97719195 ACTTTAA
65 AAAATAA
** *
97719202 TATTAAAATAATAAAATA-CTAT-T-AAGATAAGTATTAAATTTAATTTAATATTAA-ATCTATT
1 TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGAT-AATT
97719263 AAAATAA
65 AAAATAA
97719270 TATTA
1 TATTA
97719275 TTTTTTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 2 0.03
68 41 0.63
70 1 0.02
71 4 0.06
72 17 0.26
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
TATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGATAATTA
AAATAA
Found at i:97723966 original size:18 final size:17
Alignment explanation
Indices: 97723943--97723979 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
97723933 TATCATGCAT
97723943 TTTCATATACATAATCAA
1 TTTCATATACATAAT-AA
*
97723961 TTTCATGTACATAATAA
1 TTTCATATACATAATAA
97723978 TT
1 TT
97723980 GCACAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTCATATACATAATAA
Found at i:97731701 original size:22 final size:23
Alignment explanation
Indices: 97731676--97731734 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
97731666 TTTTTTGTTG
*
97731676 TTTTGTTACTATTTTC-TCACTA
1 TTTTGTTACTATTTTCACCACTA
* *
97731698 TTTTGCTACTA-TTTCACCATTA
1 TTTTGTTACTATTTTCACCACTA
*
97731720 TGTTGTTACTATTTT
1 TTTTGTTACTATTTT
97731735 GTTGTTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 23 0.77
23 3 0.10
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTGTTACTATTTTCACCACTA
Found at i:97732663 original size:15 final size:15
Alignment explanation
Indices: 97732645--97732674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97732635 AAATTTTAAA
97732645 AATTTTAAAAGGGCC
1 AATTTTAAAAGGGCC
*
97732660 AATTTTTAAAGGGCC
1 AATTTTAAAAGGGCC
97732675 GGGGCTCTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (15 bp):
AATTTTAAAAGGGCC
Found at i:97734151 original size:41 final size:41
Alignment explanation
Indices: 97734063--97734223 Score: 227
Period size: 41 Copynumber: 3.9 Consensus size: 41
97734053 TTGTAAAACA
* ** *
97734063 CAGAGCAATAGCGGCATTTTTTGTTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGC-GCTTTTGGTAAAACGCCGCTAAAGAC
97734105 C-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
*
97734145 CAGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTATAA-AC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA-AAGAC
* *
97734186 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
97734224 AGTTATATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
40 26 0.24
41 80 0.73
42 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:97734813 original size:24 final size:24
Alignment explanation
Indices: 97734786--97734834 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
97734776 CATATATTTA
97734786 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
97734810 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
97734834 T
1 T
97734835 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:97735316 original size:20 final size:19
Alignment explanation
Indices: 97735302--97735344 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 19
97735292 AAAAATCTTC
97735302 AAAAA-AAAATTAAAATTT
1 AAAAATAAAATTAAAATTT
97735320 AAAAAT--AA--AAAATTT
1 AAAAATAAAATTAAAATTT
97735335 AAAAATAAAA
1 AAAAATAAAA
97735345 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 13 0.59
17 4 0.18
18 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATAAAATTAAAATTT
Found at i:97735323 original size:14 final size:14
Alignment explanation
Indices: 97735306--97735379 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
97735296 ATCTTCAAAA
97735306 AAAAATTAAAATTT
1 AAAAATTAAAATTT
*
97735320 AAAAATAAAAAATTT
1 AAAAAT-TAAAATTT
**
97735335 AAAAA-TAAAAAAT
1 AAAAATTAAAATTT
* **
97735348 AAAAAATAAAAAAT
1 AAAAATTAAAATTT
97735362 AAAAACTTAAATATTT
1 AAAAA-TTAAA-ATTT
97735378 AA
1 AA
97735380 TATTTAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 10 0.20
14 19 0.39
15 16 0.33
16 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATTAAAATTT
Found at i:97735329 original size:22 final size:22
Alignment explanation
Indices: 97735304--97735366 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
97735294 AAATCTTCAA
* *
97735304 AAAAAAATTAAAATTTAAAAAT
1 AAAAAAATTAAAAATAAAAAAT
*
97735326 AAAAAATTTAAAAATAAAAAAT
1 AAAAAAATTAAAAATAAAAAAT
*
97735348 -AAAAAATAAAAAATAAAAA
1 AAAAAAATTAAAAATAAAAA
97735367 CTTAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAATTAAAAATAAAAAAT
Found at i:97735345 original size:7 final size:7
Alignment explanation
Indices: 97735305--97735366 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
97735295 AATCTTCAAA
97735305 AAAAAAT
1 AAAAAAT
* *
97735312 TAAAATT
1 AAAAAAT
*
97735319 TAAAAAT
1 AAAAAAT
97735326 AAAAAATT
1 AAAAAA-T
*
97735334 TAAAAAT
1 AAAAAAT
97735341 AAAAAAT
1 AAAAAAT
97735348 AAAAAAT
1 AAAAAAT
97735355 AAAAAAT
1 AAAAAAT
97735362 AAAAA
1 AAAAA
97735367 CTTAAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAAAT
Found at i:97737418 original size:21 final size:21
Alignment explanation
Indices: 97737373--97737418 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
97737363 CATTTCAATG
*
97737373 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
97737394 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
97737415 TGTT
1 TGTT
97737419 GTCAGCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:97740144 original size:44 final size:43
Alignment explanation
Indices: 97740013--97740223 Score: 289
Period size: 43 Copynumber: 4.9 Consensus size: 43
97740003 CGCTTTTCTC
* * *
97740013 AAAAA-CGCCGTTAAAGGTCGTGATCTTTAGCGGCGTTTGTAA
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
* * * * *
97740055 AAAAGGCGCCGTTAAATGTGATGGTCTTTAGCGGTGTTTGTAA
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
* *
97740098 AAAAAGCGCTGCTAAAGGTGATGGTCTTTAGCGGCGTTTGTAA
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
*
97740141 AAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
1 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
* *
97740184 AAAAGAGCACCGCTAAAGGTCATGGTCTTTAGTGGCGTTT
1 AAAA-AGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
97740224 TTTTGCGGCG
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 4 0.03
43 114 0.76
44 32 0.21
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAA
Found at i:97747740 original size:21 final size:20
Alignment explanation
Indices: 97747710--97747775 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
97747700 GTGCAAAACT
97747710 AAAAAAATTTAAAATTTATA
1 AAAAAAATTTAAAATTTATA
* *
97747730 AAAAAACATTTATAA-TTATT
1 AAAAAA-ATTTAAAATTTATA
*
97747750 AAAAAAATTCTAAAATATTTTA
1 AAAAAAATT-TAAAAT-TTATA
97747772 AAAA
1 AAAA
97747776 TTAAAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 3 0.08
20 20 0.54
21 7 0.19
22 7 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAAATTTAAAATTTATA
Found at i:97747782 original size:17 final size:16
Alignment explanation
Indices: 97747760--97747814 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
97747750 AAAAAAATTC
97747760 TAAAATATTTTAAAAAT
1 TAAAATA-TTTAAAAAT
**
97747777 TAAAATATACAAAAAT
1 TAAAATATTTAAAAAT
97747793 TCAAAATAATTT-AAAAT
1 T-AAAAT-ATTTAAAAAT
97747810 TAAAA
1 TAAAA
97747815 AATGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 12 0.38
17 18 0.56
18 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATTTAAAAAT
Found at i:97747945 original size:11 final size:10
Alignment explanation
Indices: 97747920--97747957 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
97747910 TAAAATATAT
97747920 TAAAAATGT-A
1 TAAAAAT-TCA
97747930 TAAAAATTCA
1 TAAAAATTCA
97747940 TAAAAATTCA
1 TAAAAATTCA
97747950 TAAAAATT
1 TAAAAATT
97747958 TAAAATGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 1 0.04
10 26 0.96
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAATTCA
Found at i:97747982 original size:37 final size:39
Alignment explanation
Indices: 97747904--97747986 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 39
97747894 ATAAAAATAG
* *
97747904 AAATTATAAAATATATTAAAAATGTATAAAAATTCATAA
1 AAATTATAAAATATATTAAAAATGTAAAAAAACTCATAA
97747943 AAATTCATAAAA-AT-TT-AAAATGTGAAAAAAACTCA-AA
1 AAATT-ATAAAATATATTAAAAATGT-AAAAAAACTCATAA
97747980 AAATTAT
1 AAATTAT
97747987 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 2 0.05
37 14 0.35
38 11 0.28
39 7 0.17
40 6 0.15
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (39 bp):
AAATTATAAAATATATTAAAAATGTAAAAAAACTCATAA
Found at i:97748019 original size:18 final size:19
Alignment explanation
Indices: 97747981--97748023 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
97747971 AAACTCAAAA
*
97747981 AATTATTTATATTTTTAAT
1 AATTATTTAAATTTTTAAT
97748000 AATTATTTAAATTTTT-AT
1 AATTATTTAAATTTTTAAT
97748018 AATTAT
1 AATTAT
97748024 AGAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTATTTAAATTTTTAAT
Found at i:97748032 original size:19 final size:20
Alignment explanation
Indices: 97747989--97748034 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
97747979 AAAATTATTT
**
97747989 ATATTTTTAATAATTATTTA
1 ATATTTTTAATAATTATAGA
97748009 A-ATTTTT-ATAATTATAGA
1 ATATTTTTAATAATTATAGA
97748027 ATATTTTT
1 ATATTTTT
97748035 TCCATATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.43
19 12 0.52
20 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTTTTAATAATTATAGA
Found at i:97749423 original size:22 final size:23
Alignment explanation
Indices: 97749382--97749427 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
97749372 TCAAACTTAT
*
97749382 TTTTTAAATAATAATAAAATTTA
1 TTTTTAAAAAATAATAAAATTTA
*
97749405 TTTTTAAAAAATTAT-AAATTTA
1 TTTTTAAAAAATAATAAAATTTA
97749427 T
1 T
97749428 AAAACATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTTAAAAAATAATAAAATTTA
Found at i:97749458 original size:18 final size:18
Alignment explanation
Indices: 97749409--97749459 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
97749399 AATTTATTTT
*
97749409 TAAAAA-ATTATAAATTTA
1 TAAAAATATTA-AAATTCA
97749427 TAAAACATTATTAAAATTCA
1 TAAAA-A-TATTAAAATTCA
97749447 TAAAAATATTAAA
1 TAAAAATATTAAA
97749460 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 12 0.41
19 2 0.07
20 11 0.38
21 4 0.14
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAATATTAAAATTCA
Found at i:97750394 original size:18 final size:18
Alignment explanation
Indices: 97750371--97750408 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
97750361 AATATATATT
97750371 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
97750389 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
97750407 AA
1 AA
97750409 TAATAAAAAT
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:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:97750401 original size:13 final size:13
Alignment explanation
Indices: 97750385--97750409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97750375 CAAGTACCCA
97750385 ACCCAACCCAATT
1 ACCCAACCCAATT
97750398 ACCCAACCCAAT
1 ACCCAACCCAAT
97750410 AATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:97750475 original size:7 final size:6
Alignment explanation
Indices: 97750434--97750474 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
97750424 ATAATTTAAT
*
97750434 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
97750475 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:97750475 original size:20 final size:20
Alignment explanation
Indices: 97750437--97750476 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
97750427 ATTTAATAAA
**
97750437 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
97750457 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
97750477 ATATAATTTT
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:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:97750508 original size:9 final size:9
Alignment explanation
Indices: 97750494--97750536 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
97750484 TTTATACAAA
97750494 TAATTCGGT
1 TAATTCGGT
*
97750503 TAATTCAGT
1 TAATTCGGT
*
97750512 TAATTTGGT
1 TAATTCGGT
97750521 TAATTCGGT
1 TAATTCGGT
97750530 TAATTCG
1 TAATTCG
97750537 ATATATTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:97750521 original size:18 final size:18
Alignment explanation
Indices: 97750494--97750561 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
97750484 TTTATACAAA
*
97750494 TAATTCGGTTAATTCAGT
1 TAATTTGGTTAATTCAGT
*
97750512 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCAGT
* *
97750530 TAA-TTCGATATATTCAGT
1 TAATTTGGTTA-ATTCAGT
* *
97750548 TATTTTGATTAATT
1 TAATTTGGTTAATT
97750562 TTATACTTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.13
18 30 0.77
19 4 0.10
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (18 bp):
TAATTTGGTTAATTCAGT
Found at i:97750549 original size:27 final size:27
Alignment explanation
Indices: 97750494--97750549 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
97750484 TTTATACAAA
* **
97750494 TAATTCGGTTAATTCAGTTAATTTGGT
1 TAATTCGGTTAATTCAGATAATTCAGT
97750521 TAATTCGGTTAATTC-GATATATTCAGT
1 TAATTCGGTTAATTCAGATA-ATTCAGT
97750548 TA
1 TA
97750550 TTTTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGATAATTCAGT
Found at i:97751961 original size:54 final size:54
Alignment explanation
Indices: 97751902--97752117 Score: 209
Period size: 54 Copynumber: 4.1 Consensus size: 54
97751892 TCTTATACGG
* * * *
97751902 ATCACATATCACACTGATGCCATATCCCAGATATAGTCTTATACAG-TAGCACAT-
1 ATCACATATCAC-C-GATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATA
*
97751956 AT--C--A-CACCGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATA
1 ATCACATATCACCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATA
* * * * * * *
97752004 ATCACATCTCTCCGATGCCATAGCCTAGCTATGGTTTTATACGGAAATCACATG
1 ATCACATATCACCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATA
* *
97752058 ATCACATCA-CACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-
1 ATCACAT-ATCACCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATA
97752111 ATCACAT
1 ATCACAT
97752118 GTTGCCATGG
Statistics
Matches: 139, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
47 36 0.26
48 3 0.02
49 3 0.02
50 2 0.01
52 1 0.01
53 37 0.27
54 57 0.41
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (54 bp):
ATCACATATCACCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATA
Found at i:97751971 original size:47 final size:46
Alignment explanation
Indices: 97751856--97752116 Score: 189
Period size: 47 Copynumber: 5.2 Consensus size: 46
97751846 TGCACATAGT
* * ** * *
97751856 CACATATTACACACCGAAGCCATAACCCAGCCATGGTCTTATACGGAT
1 CACATA-T-CACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
* * *
97751904 CACATATCACACTGATGCCATATCCCAGATATAGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
97751951 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAG
* * * * *
97751998 CACATAATCACATCTCTCCGATGCCATAGCCTAGCTATGGTTTTATACGGAAAT
1 CACAT-ATCACA-----CCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
* * *
97752052 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CAC---AT---ATCACACCGATGCCATATCCCAGATATGGTCTTATAC-G-AAG
97752106 CACATATCACA
1 CACATATCACA
97752117 TGTTGCCATG
Statistics
Matches: 180, Mismatches: 20, Indels: 26
0.80 0.09 0.12
Matches are distributed among these distances:
46 29 0.16
47 51 0.28
48 18 0.10
51 2 0.01
53 29 0.16
54 43 0.24
57 2 0.01
59 6 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAG
Found at i:97751985 original size:93 final size:95
Alignment explanation
Indices: 97751856--97752125 Score: 249
Period size: 107 Copynumber: 2.7 Consensus size: 95
97751846 TGCACATAGT
* *
97751856 CACATATTACACACCGAAGCCATAACCCAGCCATGGTCTTATACGG-ATCACATATCACACTGAT
1 CACATA-T-CACACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATATCACACTGAT
* *
97751920 GCCATATCCCAGATATAGTCTTATACAG-TAG
64 GCCATAGCCCAGATATAGTCTTATACAGAAAG
* * *
97751951 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTC
1 CACATATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACAT-ATCACA---CT-
* * * * * *
97752016 CGATGCCATAGCCTAGCTATGGTTTTATACGGAAAT
61 -GATGCCATAGCCCAGATATAGTCTTATACAGAAAG
*
97752052 CACATGATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCACA
1 CAC---AT---ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGG-AATCACATATCACA
*
97752117 -TGTTGCCAT
59 CTGATGCCAT
97752126 GGTCCAACCA
Statistics
Matches: 143, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
93 33 0.23
94 7 0.05
95 12 0.08
98 2 0.01
100 25 0.17
101 11 0.08
103 1 0.01
104 2 0.01
107 43 0.30
108 7 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (95 bp):
CACATATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATATCACACTGATGC
CATAGCCCAGATATAGTCTTATACAGAAAG
Found at i:97752037 original size:53 final size:53
Alignment explanation
Indices: 97751956--97752117 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 53
97751946 AGTAGCACAT
* * *
97751956 ATCACACCGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-ATCAC
* * * *
97752009 ATCTCTCCGATGCCATAGCCTAGCTATGGTTTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-ATCAC
97752063 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
97752116 AT
1 AT
97752118 GTTGCCATGG
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 40 0.42
54 56 0.58
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
Found at i:97756035 original size:26 final size:26
Alignment explanation
Indices: 97756006--97756132 Score: 98
Period size: 26 Copynumber: 4.9 Consensus size: 26
97755996 AACAGGCATT
* *
97756006 GAGCTGGTGGTTATGTAGTAGGCCTC
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* *
97756032 GAGCCGGTACG-TATTTAGCAGGCCTC
1 GAGCTGGT-GGTTATTTAGCAGGCCTC
* *
97756058 GAGTTAGTGGTTATTTAGCAGGCCTC
1 GAGCTGGTGGTTATTTAGCAGGCCTC
* * * *
97756084 GAG-TCAGTGTTTATTTAGCAAGCCTT
1 GAGCT-GGTGGTTATTTAGCAGGCCTC
* *
97756110 GAG-TCGGTGTTTATTTAGTAGGC
1 GAGCT-GGTGGTTATTTAGCAGGC
97756133 TTTGATTCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.02
26 81 0.96
27 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (26 bp):
GAGCTGGTGGTTATTTAGCAGGCCTC
Found at i:97756099 original size:52 final size:52
Alignment explanation
Indices: 97756012--97756158 Score: 143
Period size: 52 Copynumber: 2.8 Consensus size: 52
97756002 CATTGAGCTG
* * * * * * *
97756012 GTGGTTATGTAGTAGGCCTCGAGCCGGTACG-TATTTAGCAGGCCTCGAGTTA
1 GTGGTTATTTAGCAGGCCTCGAGTCAGT-GGTTATTTAGCAAGCCTCGAGTCA
* * *
97756064 GTGGTTATTTAGCAGGCCTCGAGTCAGTGTTTATTTAGCAAGCCTTGAGTCG
1 GTGGTTATTTAGCAGGCCTCGAGTCAGTGGTTATTTAGCAAGCCTCGAGTCA
* * * * *
97756116 GTGTTTATTTAGTAGGCTTTGATTCAGTGGTTATTTAGCAAGC
1 GTGGTTATTTAGCAGGCCTCGAGTCAGTGGTTATTTAGCAAGC
97756159 TTTGAGCCGA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (52 bp):
GTGGTTATTTAGCAGGCCTCGAGTCAGTGGTTATTTAGCAAGCCTCGAGTCA
Found at i:97756137 original size:26 final size:26
Alignment explanation
Indices: 97756043--97756164 Score: 127
Period size: 26 Copynumber: 4.7 Consensus size: 26
97756033 AGCCGGTACG
* * * *
97756043 TATTTAGCAGGCCTCGAGTTAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
* *
97756069 TATTTAGCAGGCCTCGAGTCAGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
97756095 TATTTAGCAAGCCTTGAGTCGGTGTT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
* * * * *
97756121 TATTTAGTAGGCTTTGATTCAGTGGT
1 TATTTAGCAAGCCTTGAGTCAGTGTT
*
97756147 TATTTAGCAAGCTTTGAG
1 TATTTAGCAAGCCTTGAG
97756165 CCGATGTACA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (26 bp):
TATTTAGCAAGCCTTGAGTCAGTGTT
Found at i:97757334 original size:29 final size:29
Alignment explanation
Indices: 97757302--97757390 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
97757292 ATAGGCTGTC
* *
97757302 ACATGGTTGTGTGCCACACATAGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
** * *
97757331 ACATGACCGTGTGCCACATACGGTCTCCT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
* *
97757360 ACATGGTCGTGTGCAACACACGGTCT-CT
1 ACATGGTCGTGTGCCACACACAGTCTCCT
97757388 ACA
1 ACA
97757391 CAGTCATGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (29 bp):
ACATGGTCGTGTGCCACACACAGTCTCCT
Found at i:97764697 original size:48 final size:48
Alignment explanation
Indices: 97764620--97764756 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 48
97764610 GGGAGTCTCA
* * * ** *
97764620 CACCCTAAGTGCCAATATCATAGCCCGAAGCCAAATTAATGTAACTTG
1 CACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATACAACTCG
* * *
97764668 CACCCGAAGTACCAATACCATGGCTCGAAGCCAAATCAATACAACTCG
1 CACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATACAACTCG
* *
97764716 CACCTGAAGTGCCAATATCATGGCCCGAAGCAAAATCAATA
1 CACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATA
97764757 TATTCCCTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.18
Consensus pattern (48 bp):
CACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATACAACTCG
Found at i:97765349 original size:21 final size:20
Alignment explanation
Indices: 97765319--97765357 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
97765309 CCAAACTTGT
97765319 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
97765339 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
97765358 CAAAATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:97777278 original size:17 final size:17
Alignment explanation
Indices: 97777246--97777279 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97777236 CACAGATATC
*
97777246 CTACTCATGAGACCTAT
1 CTACTCATAAGACCTAT
*
97777263 CTACTCATAAGGCCTAT
1 CTACTCATAAGACCTAT
97777280 AAGAAAAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
CTACTCATAAGACCTAT
Found at i:97778371 original size:8 final size:8
Alignment explanation
Indices: 97778358--97778387 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
97778348 GAATTTAGAA
97778358 GAATTGGT
1 GAATTGGT
97778366 GAATTGGT
1 GAATTGGT
97778374 GAATTTGGT
1 GAA-TTGGT
97778383 GAATT
1 GAATT
97778388 AAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:97779681 original size:35 final size:35
Alignment explanation
Indices: 97779642--97779711 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
97779632 ATTATCAAAT
*
97779642 CCATAATGAGTT-AAGAAATGTAGGTATGGCATTTC
1 CCATAACGAGTTGAA-AAATGTAGGTATGGCATTTC
* * *
97779677 CCATACCGAGTTGTAAAATGTAGGTATGGTATTTC
1 CCATAACGAGTTGAAAAATGTAGGTATGGCATTTC
97779712 AATGAGGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (35 bp):
CCATAACGAGTTGAAAAATGTAGGTATGGCATTTC
Found at i:97792571 original size:26 final size:25
Alignment explanation
Indices: 97792523--97792578 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
97792513 TATTTAAGTT
* * *
97792523 TTTAAAATATTTTATGTATATTAAC
1 TTTAAAATAATTTATATAAATTAAC
97792548 TTTACAAATAATTTATATAAATT-A-
1 TTTA-AAATAATTTATATAAATTAAC
97792572 TTTAAAA
1 TTTAAAA
97792579 GGTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 4 0.15
25 5 0.19
26 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTAAAATAATTTATATAAATTAAC
Found at i:97795167 original size:13 final size:13
Alignment explanation
Indices: 97795149--97795174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97795139 TGCGTGCCTC
97795149 GGGTTATTTTTAT
1 GGGTTATTTTTAT
97795162 GGGTTATTTTTAT
1 GGGTTATTTTTAT
97795175 TCTTCATATT
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:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
GGGTTATTTTTAT
Found at i:97813874 original size:18 final size:18
Alignment explanation
Indices: 97813834--97813866 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97813824 GTTAATAGAA
97813834 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
97813852 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
97813867 TGTCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:97814844 original size:27 final size:27
Alignment explanation
Indices: 97814814--97814868 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
97814804 AAATTATCAC
*
97814814 TAAGGATTTAAATAAATAAAAAATTTA
1 TAAGGATTTAAATAAATAAAAAAATTA
97814841 TAAGGATTTAAATAAATAAAAAAATTA
1 TAAGGATTTAAATAAATAAAAAAATTA
97814868 T
1 T
97814869 TCTTTTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
TAAGGATTTAAATAAATAAAAAAATTA
Found at i:97817752 original size:15 final size:15
Alignment explanation
Indices: 97817732--97817784 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
97817722 CCATTTCTTC
97817732 TTCTTCTAGCTAGAG
1 TTCTTCTAGCTAGAG
** ****
97817747 TTCTTCTATTTCTTC
1 TTCTTCTAGCTAGAG
97817762 TTCTTCTAGCTAGAG
1 TTCTTCTAGCTAGAG
97817777 TTCTTCTA
1 TTCTTCTA
97817785 TTTAGTTGGT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.11, T:0.51
Consensus pattern (15 bp):
TTCTTCTAGCTAGAG
Found at i:97817760 original size:30 final size:30
Alignment explanation
Indices: 97817724--97817787 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
97817714 GGGTATCTCC
97817724 ATTTCTTCTTCTTCTAGCTAGAGTTCTTCT
1 ATTTCTTCTTCTTCTAGCTAGAGTTCTTCT
97817754 ATTTCTTCTTCTTCTAGCTAGAGTTCTTCT
1 ATTTCTTCTTCTTCTAGCTAGAGTTCTTCT
97817784 ATTT
1 ATTT
97817788 AGTTGGTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.14, C:0.22, G:0.09, T:0.55
Consensus pattern (30 bp):
ATTTCTTCTTCTTCTAGCTAGAGTTCTTCT
Found at i:97817951 original size:31 final size:29
Alignment explanation
Indices: 97817913--97817975 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
97817903 CTCGAATGAT
97817913 TGATTTGTCACTTTTCGTAAACG-TTAGTGAC
1 TGATTTGTCACTTTT-G-AAA-GTTTAGTGAC
97817944 TGATTTGTCACTTTTGAAAGTTTAGTGAC
1 TGATTTGTCACTTTTGAAAGTTTAGTGAC
97817973 TGA
1 TGA
97817976 AATGTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 1 0.03
29 14 0.45
30 1 0.03
31 15 0.48
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (29 bp):
TGATTTGTCACTTTTGAAAGTTTAGTGAC
Found at i:97832805 original size:30 final size:31
Alignment explanation
Indices: 97832764--97832821 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
97832754 GTCTATATTT
* *
97832764 TTATAATTTTTAA-AGAATTAAATTAAATTA
1 TTATAATTTTTAAGAGAAATAAAATAAATTA
*
97832794 TTATTATTTTTAAGAGAAATAAAATAAA
1 TTATAATTTTTAAGAGAAATAAAATAAA
97832822 ATTTTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
TTATAATTTTTAAGAGAAATAAAATAAATTA
Found at i:97834921 original size:28 final size:28
Alignment explanation
Indices: 97834889--97834946 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
97834879 ATTCAATATT
97834889 GAAGAAGATCCGCTTCTGAAATGAATCC
1 GAAGAAGATCCGCTTCTGAAATGAATCC
97834917 GAAGAAGATCCGCTTCTGAAATGAATCC
1 GAAGAAGATCCGCTTCTGAAATGAATCC
97834945 GA
1 GA
97834947 TGGCATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (28 bp):
GAAGAAGATCCGCTTCTGAAATGAATCC
Found at i:97835399 original size:28 final size:28
Alignment explanation
Indices: 97835367--97835422 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
97835357 AATATCAGAG
*
97835367 TATTACAAAACTATTTGAATAAATCTAA
1 TATTACAAAACTAATTGAATAAATCTAA
97835395 TATTACAAAACTAATTGAATAAATCTAA
1 TATTACAAAACTAATTGAATAAATCTAA
97835423 CTCCTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (28 bp):
TATTACAAAACTAATTGAATAAATCTAA
Found at i:97836096 original size:17 final size:17
Alignment explanation
Indices: 97836071--97836104 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97836061 AATAAATAAT
*
97836071 TTAATAATTATAAAATA
1 TTAAAAATTATAAAATA
*
97836088 TTAAAAATTATATAATA
1 TTAAAAATTATAAAATA
97836105 AAATAACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATTATAAAATA
Found at i:97836298 original size:25 final size:25
Alignment explanation
Indices: 97836251--97836301 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
97836241 AGACTCTTTC
* * *
97836251 TTTTTAAAAGGTTTATGATCAAATT
1 TTTTTAAAAGGTTGAGGACCAAATT
97836276 TTTTTAAAAGGTTGAGGACCAAATT
1 TTTTTAAAAGGTTGAGGACCAAATT
97836301 T
1 T
97836302 GGCTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTTTAAAAGGTTGAGGACCAAATT
Found at i:97844921 original size:9 final size:9
Alignment explanation
Indices: 97844907--97844936 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
97844897 TTACTAATTT
97844907 AAAATTTTA
1 AAAATTTTA
97844916 AAAATTTTA
1 AAAATTTTA
*
97844925 AAAAATTTA
1 AAAATTTTA
97844934 AAA
1 AAA
97844937 GGTCTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTTTA
Found at i:97845867 original size:16 final size:16
Alignment explanation
Indices: 97845843--97845909 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
97845833 GGTTCACTGG
* *
97845843 AATGGAATAGGGTTGT
1 AATGAAATAGAGTTGT
97845859 AATGAAATAGAGTTGT
1 AATGAAATAGAGTTGT
* *
97845875 AATGAAATAAAGCTGT
1 AATGAAATAGAGTTGT
*
97845891 AATGGAATAGAGTTGT
1 AATGAAATAGAGTTGT
97845907 AAT
1 AAT
97845910 CACTAATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.42, C:0.01, G:0.27, T:0.30
Consensus pattern (16 bp):
AATGAAATAGAGTTGT
Found at i:97845954 original size:46 final size:44
Alignment explanation
Indices: 97845888--97845979 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 44
97845878 GAAATAAAGC
* **
97845888 TGTAATGGAATAGAGTTGTAATCACTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATACAACTGTAAT-ACT-ATTC-ATGTGTTTGGTTGAA
* *
97845934 TGTAATGGAATACAACTGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATACAACTGTAATACTATTCATGTGTTTGGTTGAA
97845978 TG
1 TG
97845980 GAATAGACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 2 0.05
46 19 0.47
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (44 bp):
TGTAATGGAATACAACTGTAATACTATTCATGTGTTTGGTTGAA
Found at i:97849833 original size:25 final size:20
Alignment explanation
Indices: 97849779--97849828 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
97849769 AATAGAAGAG
97849779 ATTTTATTTTGGAAGACTCT
1 ATTTTATTTTGGAAGACTCT
97849799 ATTTTATTTTGGAAGACTCT
1 ATTTTATTTTGGAAGACTCT
97849819 ATTTTATTTT
1 ATTTTATTTT
97849829 ATTTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (20 bp):
ATTTTATTTTGGAAGACTCT
Found at i:97849856 original size:15 final size:15
Alignment explanation
Indices: 97849838--97849867 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97849828 TATTTTATTT
*
97849838 ATATTAGGATAATTA
1 ATATTAAGATAATTA
97849853 ATATTAAGATAATTA
1 ATATTAAGATAATTA
97849868 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:97849912 original size:10 final size:10
Alignment explanation
Indices: 97849893--97849924 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
97849883 TTTTAGGATT
97849893 TTAT-TTTAA
1 TTATCTTTAA
97849902 TTATCTTTAA
1 TTATCTTTAA
97849912 TTATCTTTAA
1 TTATCTTTAA
97849922 TTA
1 TTA
97849925 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:97856278 original size:23 final size:23
Alignment explanation
Indices: 97856247--97856290 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
97856237 GCAACCCAAT
97856247 CTTTATTTT-TATTTATTATTTTC
1 CTTTATTTTCT-TTTATTATTTTC
*
97856270 CTTTCTTTTCTTTTATTATTT
1 CTTTATTTTCTTTTATTATTT
97856291 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (23 bp):
CTTTATTTTCTTTTATTATTTTC
Found at i:97857464 original size:118 final size:118
Alignment explanation
Indices: 97857256--97857468 Score: 356
Period size: 118 Copynumber: 1.8 Consensus size: 118
97857246 TGTTTTCCAT
* * * *
97857256 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATT
97857321 CTACTTTGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTTGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
**
97857374 GGTTATGAGTATGGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATT
97857439 CTA-TTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTT-GCGTCAAAAGGTTGTGTGACGTG
97857469 TTGGGTAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 3 0.03
118 85 0.97
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCATGACTGACTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATT
CTACTTTGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:97861964 original size:43 final size:44
Alignment explanation
Indices: 97861917--97862022 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 44
97861907 TTGATGTCAT
* * *
97861917 TGTCCCAGACAAGGTCTTACT-CGAAATCA-TATAACGATGCCAA
1 TGTCCCAGACATGGTCTTACTACGAAATCACAAT-ACAATGCCAA
*
97861960 TGTCCCAGACATGGTCTTA-TACGTAATCACAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACTACGAAATCACAATACAATGCCAA
* *
97862003 TGTGCCAAACATGGTCTTAC
1 TGTCCCAGACATGGTCTTAC
97862023 ATGTAATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACTACGAAATCACAATACAATGCCAA
Found at i:97862223 original size:35 final size:35
Alignment explanation
Indices: 97862154--97862223 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
97862144 ACATTCGTAG
**
97862154 CAATTCAATGATAATGAAACATATATAATTCAATT
1 CAATTCAATGATAATGAAACATATATAACACAATT
* *
97862189 CAATTCAATGATAAAT-AAGCATTTATAACACAATT
1 CAATTCAATGAT-AATGAAACATATATAACACAATT
97862224 TAAATACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
CAATTCAATGATAATGAAACATATATAACACAATT
Found at i:97870477 original size:21 final size:23
Alignment explanation
Indices: 97870442--97870483 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
97870432 CGCATTTGAT
97870442 TTTAATCTTACTTTATTTTATAG
1 TTTAATCTTACTTTATTTTATAG
97870465 TTTAAT-TTA-TTTATTTTAT
1 TTTAATCTTACTTTATTTTAT
97870484 TATGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAATCTTACTTTATTTTATAG
Found at i:97870588 original size:24 final size:24
Alignment explanation
Indices: 97870547--97870596 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
97870537 TCTTTTATAT
* * * *
97870547 TTTATTTTTCTTTGTATTTATTTA
1 TTTATTTATATTTATATTCATTTA
97870571 TTTATTTATATTTATATTCATTTA
1 TTTATTTATATTTATATTCATTTA
97870595 TT
1 TT
97870597 GGTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTTATATTTATATTCATTTA
Found at i:97870788 original size:12 final size:13
Alignment explanation
Indices: 97870752--97870789 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
97870742 TATACAAACT
97870752 ATTTTATTTATT-
1 ATTTTATTTATTC
97870764 ATTTTATTTATTC
1 ATTTTATTTATTC
97870777 A-TTTATTTATTC
1 ATTTTATTTATTC
97870789 A
1 A
97870790 ACCTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTATTTATTC
Found at i:97871081 original size:23 final size:22
Alignment explanation
Indices: 97871039--97871081 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
97871029 CGCACACCTA
97871039 CAAATAGACAAGAAAACAACAG
1 CAAATAGACAAGAAAACAACAG
97871061 CAAATAGAAACAA-AAAACAAC
1 CAAATAG--ACAAGAAAACAAC
97871082 GGAATAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.67, C:0.19, G:0.09, T:0.05
Consensus pattern (22 bp):
CAAATAGACAAGAAAACAACAG
Found at i:97871257 original size:26 final size:26
Alignment explanation
Indices: 97871228--97871284 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
97871218 TGACTTTTAG
97871228 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
97871254 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
97871280 TCTTT
1 TCTTT
97871285 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:97872139 original size:21 final size:20
Alignment explanation
Indices: 97872113--97872151 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
97872103 TCACGTTTTC
*
97872113 TTTTTTGTTTTTATTTGTTAT
1 TTTTTTG-TCTTATTTGTTAT
97872134 TTTTTTGTCTTATTTGTT
1 TTTTTTGTCTTATTTGTT
97872152 TTATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.08, C:0.03, G:0.10, T:0.79
Consensus pattern (20 bp):
TTTTTTGTCTTATTTGTTAT
Found at i:97874144 original size:3 final size:3
Alignment explanation
Indices: 97874126--97874166 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
97874116 TGTACTTTTA
*
97874126 TAT T-T TAT TAT CAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97874167 TTCCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:97874151 original size:17 final size:17
Alignment explanation
Indices: 97874126--97874165 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
97874116 TGTACTTTTA
*
97874126 TATTTTATTATCATTAT
1 TATTATATTATCATTAT
*
97874143 TATTATATTATTATTAT
1 TATTATATTATCATTAT
97874160 TATTAT
1 TATTAT
97874166 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATATTATCATTAT
Found at i:97875426 original size:104 final size:104
Alignment explanation
Indices: 97875246--97875453 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
97875236 TCTTCGCATA
97875246 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
1 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
97875311 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
66 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
*
97875350 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTTGCGAGG
1 TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
97875415 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
66 TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
97875454 ACGTCCATAC
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (104 bp):
TTGCATCGCATAATTGGTCAATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTGCTTCGCGAGG
TCTTCACCACCGTAGAGGATAGCGGGTTGCTTTCAGGAT
Found at i:97878002 original size:19 final size:19
Alignment explanation
Indices: 97877978--97878024 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
97877968 ATGCCTTTTT
*
97877978 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
97877997 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
97878016 TATGCATTA
1 TTTGCATTA
97878025 AATATCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:97882376 original size:40 final size:40
Alignment explanation
Indices: 97882319--97882513 Score: 252
Period size: 40 Copynumber: 4.9 Consensus size: 40
97882309 ATATTTGATG
* * *
97882319 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
* *
97882359 TATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * **
97882399 TGTATCCGGACTT-CAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
97882438 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
** *
97882478 TGTATCCGAACTT-AAGATCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGG
97882514 TACTATATCC
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
39 57 0.42
40 78 0.58
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:97882429 original size:39 final size:39
Alignment explanation
Indices: 97882319--97882547 Score: 244
Period size: 39 Copynumber: 5.8 Consensus size: 39
97882309 ATATTTGATG
* * * * *
97882319 TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTAGAAT
1 TGTATCCGGACTT-AAGATCCGCAGGCT-TCGTGCTGGAAT
* * * *
97882359 TATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAAT
1 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAAT
* *
97882399 TGTATCCGGACTTCAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAT
* *
97882438 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAAT
* * *
97882478 TGTATCCGAACTTAAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAT
* * *
97882517 TATATCCAGACTTAAGGTCCGCAGGCTTCGT
1 TGTATCCGGACTTAAGATCCGCAGGCTTCGT
97882548 ACTAGTACTA
Statistics
Matches: 163, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 85 0.52
40 78 0.48
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAT
Found at i:97882444 original size:79 final size:79
Alignment explanation
Indices: 97882350--97882523 Score: 276
Period size: 79 Copynumber: 2.2 Consensus size: 79
97882340 GTAGGCTATA
* * *
97882350 TGCTAGAATTATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTGTATCCGGACTTCAG
1 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTGTATCCGAACTTAAG
*
97882415 GTCCGCAGGCTTCG
66 ATCCGCAGGCTTCG
* *
97882429 TGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAG
1 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTGTATCCGAACTTAAG
97882494 ATCCGCAGGCTTCG
66 ATCCGCAGGCTTCG
* *
97882508 TGCTGGTACTATATCC
1 TGCTGGAATTATATCC
97882524 AGACTTAAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (79 bp):
TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTGTATCCGAACTTAAG
ATCCGCAGGCTTCG
Found at i:97882531 original size:79 final size:79
Alignment explanation
Indices: 97882350--97882547 Score: 272
Period size: 79 Copynumber: 2.5 Consensus size: 79
97882340 GTAGGCTATA
* * * * *
97882350 TGCTAGAATTATATCCGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTGTATCCGGACTTCAG
1 TGCTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAG
*
97882415 GTCCGCAGGCTTCG
66 ATCCGCAGGCTTCG
* *
97882429 TGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAG
1 TGCTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAG
97882494 ATCCGCAGGCTTCG
66 ATCCGCAGGCTTCG
* * * **
97882508 TGCTGGTACTATATCCAGACTT-AAGGTCCGCAGGCTTCGT
1 TGCTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGT
97882548 ACTAGTACTA
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 16 0.15
79 90 0.85
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (79 bp):
TGCTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAG
ATCCGCAGGCTTCG
Found at i:97882556 original size:39 final size:39
Alignment explanation
Indices: 97882378--97882575 Score: 191
Period size: 39 Copynumber: 5.1 Consensus size: 39
97882368 GCTTAAAGAC
* * * * *
97882378 CCGCAGACTTCGTGCTGGAATTGTATCCGGACTTCAGGT
1 CCGCAGGCTTCGTGCTGGAACTATATCCAGACTTAAGGT
* * * * **
97882417 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTTCGTGCTGGAACTATATCCAGACTT-AAGGT
* * *
97882457 CCGCAGGCTTCGTGCTGGAATTGTATCC-GAACTTAAGAT
1 CCGCAGGCTTCGTGCTGGAACTATATCCAG-ACTTAAGGT
*
97882496 CCGCAGGCTTCGTGCTGGTACTATATCCAGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAACTATATCCAGACTTAAGGT
* * * * *
97882535 CCGCAGGCTTCGTACTAGTACTATATCCAGGCTTAAAGT
1 CCGCAGGCTTCGTGCTGGAACTATATCCAGACTTAAGGT
97882574 CC
1 CC
97882576 CGTAGACTTT
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 107 0.76
40 34 0.24
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAACTATATCCAGACTTAAGGT
Found at i:97890447 original size:45 final size:45
Alignment explanation
Indices: 97890382--97890560 Score: 184
Period size: 45 Copynumber: 3.8 Consensus size: 45
97890372 AGTTATAATG
*
97890382 GCAAATCTTATCTT-CTTGAAGTTGCAGT-GAAGCAGATTGAAAATA
1 GCAAATCTTAT-TTCCCTGAAGTTGCAGTGGAA-CAGATTGAAAATA
*
97890427 GCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATTA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT---G--A-AAA-TA
* * * * *
97890479 -TAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
*
97890523 TCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
97890561 AAGGCTACAA
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
44 4 0.04
45 64 0.57
46 4 0.04
48 2 0.02
50 1 0.01
51 35 0.31
52 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (45 bp):
GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAAATA
Found at i:97890507 original size:51 final size:49
Alignment explanation
Indices: 97890384--97890597 Score: 171
Period size: 45 Copynumber: 4.4 Consensus size: 49
97890374 TTATAATGGC
* * *
97890384 AAATCTTATCTTCTTGAAGTTGCAGT-GAAGCAGATT--G-A-AAA-TAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAGCACAAATTA-T
* *
97890429 AAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAG-CACAAATTAT
* * *
97890480 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT--G-A-AGA-TAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGCACAAATTAT
* *
97890524 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTAC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAA-GC-ACAAATTAT
* * *
97890576 AAATCTGACCTCCCTAAAGTTG
1 AAATCTTATCTCCCTGAAGTTG
97890598 TAGAGAAACA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
44 3 0.02
45 63 0.47
46 4 0.03
48 3 0.02
50 2 0.01
51 55 0.41
52 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (49 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGCACAAATTAT
Found at i:97890512 original size:96 final size:96
Alignment explanation
Indices: 97890383--97890648 Score: 318
Period size: 96 Copynumber: 2.8 Consensus size: 96
97890373 GTTATAATGG
* * *
97890383 CAAATCTTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
*
97890448 TTGTAGTGGAACAGATTAAAGCCACAAATTA
66 TTGCAGTGGAACAGATTAAAGCCACAAATTA
* * * *
97890479 TAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATATCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
* *
97890544 TTGCAGTGGAACAGATTAAGGCTACAAATTA
66 TTGCAGTGGAACAGATTAAAGCCACAAATTA
* * * ** * * * ** * * *
97890575 CAAATCTGACCTCCCTAAAGTTGTAGAGAAACAGATCGAAGTTA-CAAATCATATCTCCTTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
97890639 TTGCAGTGGA
66 TTGCAGTGGA
97890649 GTAGGTTGAA
Statistics
Matches: 146, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 27 0.18
96 119 0.82
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (96 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
TTGCAGTGGAACAGATTAAAGCCACAAATTA
Found at i:97890660 original size:44 final size:44
Alignment explanation
Indices: 97890607--97890747 Score: 158
Period size: 44 Copynumber: 3.2 Consensus size: 44
97890597 GTAGAGAAAC
*
97890607 AGATCGAAGTTACAAATC-ATATCTCCTTGAAGTTGCAGTGGAGT
1 AGATTGAAGTTACAAATCTA-ATCTCCTTGAAGTTGCAGTGGAGT
* * * * * *
97890651 AGGTTGAAGTTCCAAATTTCATCTCCTTGAAGTTGCAATGGAGC
1 AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
* * * * *
97890695 AGATTAAAGTTACAAGTCTAATCTCCCTGAAGTTACAGTGAAGT
1 AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
97890739 AGATTGAAG
1 AGATTGAAG
97890748 CATCAATTCC
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
AGATTGAAGTTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGT
Found at i:97891403 original size:28 final size:28
Alignment explanation
Indices: 97891348--97891402 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
97891338 TTTTTATTTT
*
97891348 TTTAATAAAAGCATAAAACAAAATAAAA
1 TTTAAAAAAAGCATAAAACAAAATAAAA
*
97891376 TTTAAAAAAAGCATAAAA-AAATTAAAA
1 TTTAAAAAAAGCATAAAACAAAATAAAA
97891403 AAGGGAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (28 bp):
TTTAAAAAAAGCATAAAACAAAATAAAA
Found at i:97892079 original size:21 final size:22
Alignment explanation
Indices: 97892043--97892083 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
97892033 ATTTTAATCC
*
97892043 TTTACTTTACTTTATTTTATTG
1 TTTAATTTACTTTATTTTATTG
97892065 TTTAATTTA-TTTATTTTAT
1 TTTAATTTACTTTATTTTAT
97892084 AATGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTAATTTACTTTATTTTATTG
Found at i:97892212 original size:17 final size:17
Alignment explanation
Indices: 97892192--97892225 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
97892182 ACATTTATTG
97892192 GTTTTTTT-TATTTTTCT
1 GTTTTTTTCT-TTTTTCT
97892209 GTTTTTTTCTTTTTTCT
1 GTTTTTTTCTTTTTTCT
97892226 TCTCACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (17 bp):
GTTTTTTTCTTTTTTCT
Found at i:97892238 original size:3 final size:3
Alignment explanation
Indices: 97892232--97892282 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
97892222 TTCTTCTCAC
*
97892232 TAT TAT TA- TAT TAT T-T TAT CTAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
97892276 TAT TAT T
1 TAT TAT T
97892283 TGTTTATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:97892395 original size:12 final size:13
Alignment explanation
Indices: 97892378--97892414 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
97892368 AAACAAACTG
97892378 TTTTATTTATT-A
1 TTTTATTTATTCA
97892390 TTTTATTTATTCA
1 TTTTATTTATTCA
*
97892403 -TTTATTTCTTCA
1 TTTTATTTATTCA
97892415 ACTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTATTCA
Found at i:97892490 original size:3 final size:3
Alignment explanation
Indices: 97892468--97892519 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
97892458 TGTACTTTTA
* *
97892468 TAT T-T TAT TAT CAT TGT TAT TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
97892513 TAT TAT T
1 TAT TAT T
97892520 TTCCTCTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:97896326 original size:144 final size:144
Alignment explanation
Indices: 97896058--97896359 Score: 496
Period size: 144 Copynumber: 2.1 Consensus size: 144
97896048 CATGGAAGTT
*
97896058 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* * **
97896123 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
97896188 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* *
97896202 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* * * * *
97896267 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAACACGGAAAGCGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
97896332 TTCCTATCTCACTG
131 TTCCTATCTCACTG
97896346 GGGATAGAACCAGA
1 GGGATAGAACCAGA
97896360 GAGATAATTA
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
144 146 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:97896404 original size:144 final size:144
Alignment explanation
Indices: 97896058--97896410 Score: 397
Period size: 144 Copynumber: 2.5 Consensus size: 144
97896048 CATGGAAGTT
* * * * ** * * *
97896058 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* * **
97896123 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
97896188 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* * * * * *
97896202 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* * * * *
97896267 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAACACGGAAAGCGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
97896332 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* * * * *
97896346 GGGATAGAACCAGAGAGATAATTACCAT-ACAGAT-AGAGATATAT-CATGTTACTTAAGTTTCC
1 GGGATAGAACCAGAAAGACAATTACAATCA-AGATCA-AGAT-TATCCAAGTTACTCAAGTTTCC
97896408 TAT
63 TAT
97896411 ACATGTTGGG
Statistics
Matches: 183, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
143 2 0.01
144 179 0.98
145 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAACACGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:97898085 original size:14 final size:14
Alignment explanation
Indices: 97898066--97898093 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
97898056 GGTGTACTTG
97898066 AATATGACAAGTCT
1 AATATGACAAGTCT
97898080 AATATGACAAGTCT
1 AATATGACAAGTCT
97898094 TCGTCGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AATATGACAAGTCT
Found at i:97898245 original size:20 final size:20
Alignment explanation
Indices: 97898194--97898245 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
97898184 TATAAGTGAG
97898194 TAAAA-TAATTAAATATTAA
1 TAAAATTAATTAAATATTAA
* * *
97898213 TAAATTTATTTAATTA-TAA
1 TAAAATTAATTAAATATTAA
97898232 TTAAAATTAATTAA
1 -TAAAATTAATTAA
97898246 CTTTTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATTAATTAAATATTAA
Found at i:97900783 original size:25 final size:24
Alignment explanation
Indices: 97900755--97900811 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
97900745 TATTTGAAGA
*
97900755 CTGTCTTTTTGACACGAGTTTTTGT
1 CTGTCTTTTTGACACGAGGTTTT-T
*
97900780 CTGTCCTTTTGACACGAGGTTTTT
1 CTGTCTTTTTGACACGAGGTTTTT
97900804 CTGT-TTTT
1 CTGTCTTTT
97900812 GTTCTTGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 5 0.17
25 21 0.72
ACGTcount: A:0.11, C:0.18, G:0.19, T:0.53
Consensus pattern (24 bp):
CTGTCTTTTTGACACGAGGTTTTT
Found at i:97907090 original size:19 final size:20
Alignment explanation
Indices: 97907040--97907090 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
97907030 GTTGAGTGAG
*
97907040 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
97907061 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
97907080 AGGTTAATTAG
1 AGGTTAATTAG
97907091 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:97907395 original size:16 final size:17
Alignment explanation
Indices: 97907367--97907410 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
97907357 CACGAATAGC
97907367 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
97907387 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
97907404 AGGGAAA
1 AGGGAAA
97907411 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:97912529 original size:7 final size:7
Alignment explanation
Indices: 97912518--97912551 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
97912508 AATACAAAAT
97912518 ACAGATA
1 ACAGATA
*
97912525 TCAGATA
1 ACAGATA
97912532 ACAGATA
1 ACAGATA
97912539 ACAGATA
1 ACAGATA
97912546 TACAGA
1 -ACAGA
97912552 AATAACATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.18
Consensus pattern (7 bp):
ACAGATA
Found at i:97912537 original size:14 final size:15
Alignment explanation
Indices: 97912516--97912551 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
97912506 CAAATACAAA
*
97912516 ATACAGATATCAGAT
1 ATACAGATAACAGAT
97912531 A-ACAGATAACAGAT
1 ATACAGATAACAGAT
97912545 ATACAGA
1 ATACAGA
97912552 AATAACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (15 bp):
ATACAGATAACAGAT
Found at i:97914507 original size:11 final size:11
Alignment explanation
Indices: 97914493--97914531 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
97914483 GTTTTCTCTT
97914493 TATTTTGCTAC
1 TATTTTGCTAC
* *
97914504 TATTTTACTAT
1 TATTTTGCTAC
*
97914515 TATGTTGCTAC
1 TATTTTGCTAC
97914526 TATTTT
1 TATTTT
97914532 ATTGTTATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.59
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:97914534 original size:19 final size:21
Alignment explanation
Indices: 97914492--97914533 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
97914482 TGTTTTCTCT
*
97914492 TTATTTTGCTACTATTTTACTA
1 TTATGTTGCTACTATTTTA-TA
97914514 TTATGTTGCTACTATTTTAT
1 TTATGTTGCTACTATTTTAT
97914534 TGTTATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATGTTGCTACTATTTTATA
Found at i:97914605 original size:30 final size:30
Alignment explanation
Indices: 97914569--97914633 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
97914559 ACTTATTTTA
*
97914569 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
*
97914599 TTGTTAATTTTGTTATTATTTTAGAGGAAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
97914629 TTGTT
1 TTGTT
97914634 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGAAT
Found at i:97921096 original size:16 final size:16
Alignment explanation
Indices: 97921075--97921106 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97921065 GCACCACTTG
*
97921075 AATTGTTTGCCATTAA
1 AATTGTCTGCCATTAA
97921091 AATTGTCTGCCATTAA
1 AATTGTCTGCCATTAA
97921107 TCATAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
AATTGTCTGCCATTAA
Found at i:97928156 original size:144 final size:144
Alignment explanation
Indices: 97927896--97928197 Score: 525
Period size: 144 Copynumber: 2.1 Consensus size: 144
97927886 CATGGAAGTT
*
97927896 GGGATTGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCTCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCTCAAGTTAGTCAAGTTTCCTAT
* *
97927961 GGAATCAGGGATGGCACCAGTGAGATTATTGTCCGATAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAATCAGGGATGACACCAGTGAGATTATTGTCCGAAAACTGCAAGTCGAAAAGAGATTTGAGCA
* *
97928026 TTCCTATCTCAGTG
131 TCCCTATCTCACTG
* *
97928040 GGGATAGAACCAGAAAGCCCATTAAAATTAAGCACAAGATTG-TCCAAGTTGGTCAAGTTTCCTA
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCT-CAAGTTAGTCAAGTTTCCTA
97928104 TGGAATCAGGGATGACACCAGTGAGATTATTGTCCGAAAACTGCAAGTCGAAAAGAGATTTGAGC
65 TGGAATCAGGGATGACACCAGTGAGATTATTGTCCGAAAACTGCAAGTCGAAAAGAGATTTGAGC
97928169 ATCCCTATCTCACTG
130 ATCCCTATCTCACTG
97928184 GGGATAGAACCAGA
1 GGGATAGAACCAGA
97928198 GAGATTATTA
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
143 1 0.01
144 149 0.99
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCTCAAGTTAGTCAAGTTTCCTAT
GGAATCAGGGATGACACCAGTGAGATTATTGTCCGAAAACTGCAAGTCGAAAAGAGATTTGAGCA
TCCCTATCTCACTG
Found at i:97929451 original size:10 final size:11
Alignment explanation
Indices: 97929402--97929452 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 11
97929392 AAAATTTATC
97929402 TAAATTTATTTT
1 TAAA-TTATTTT
97929414 TATGAATTTATTTT
1 TA--AA-TTATTTT
97929428 TATAATTATTTT
1 TA-AATTATTTT
97929440 TAAATT-TTTT
1 TAAATTATTTT
97929450 TAA
1 TAA
97929453 TGAGATGCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 11 0.31
13 2 0.06
14 12 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TAAATTATTTT
Found at i:97929987 original size:17 final size:17
Alignment explanation
Indices: 97929962--97929999 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
97929952 TAACTATTAC
*
97929962 ATTAATAATAAAAAAAT
1 ATTATTAATAAAAAAAT
*
97929979 ATTATTAATAAATAAAT
1 ATTATTAATAAAAAAAT
97929996 -TTAT
1 ATTAT
97930000 ACATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTATTAATAAAAAAAT
Found at i:97930037 original size:17 final size:17
Alignment explanation
Indices: 97930015--97930049 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
97930005 AAATATTAAA
97930015 TTATTAATATT-AAATTT
1 TTATTAAT-TTAAAATTT
97930032 TTATTAATTTAAAATTT
1 TTATTAATTTAAAATTT
97930049 T
1 T
97930050 GATATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTAATTTAAAATTT
Found at i:97930049 original size:16 final size:17
Alignment explanation
Indices: 97930015--97930049 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
97930005 AAATATTAAA
*
97930015 TTATTAATATTAAATTT
1 TTATTAATATTAAAATT
97930032 TTATTAAT-TTAAAATT
1 TTATTAATATTAAAATT
97930048 TT
1 TT
97930050 GATATTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTAATATTAAAATT
Found at i:97934777 original size:21 final size:20
Alignment explanation
Indices: 97934722--97934783 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
97934712 GTGGCTGGAG
97934722 GACACGCCTGTGTGATTGAGA
1 GACACGCC-GTGTGATTGAGA
* * *
97934743 TACATAGCCATGTGATTGAGA
1 GACA-CGCCGTGTGATTGAGA
*
97934764 GACACGCTCGTGTGACTGAG
1 GACACGC-CGTGTGATTGAG
97934784 GTACCCGGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.84
22 3 0.09
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (20 bp):
GACACGCCGTGTGATTGAGA
Found at i:97936260 original size:115 final size:115
Alignment explanation
Indices: 97936058--97936292 Score: 443
Period size: 115 Copynumber: 2.0 Consensus size: 115
97936048 GGTTGTAAGT
97936058 TGACGGGGAATACACCCGTAACGTTCGACGCAGTATATGACATTCACACAAACTACACAATTAAT
1 TGACGGGGAATACACCCGTAACGTTCGACGCAGTATATGACATTCACACAAACTACACAATTAAT
*
97936123 AACATGGTTATAGTGACATGAGTAAAATAACATAAATAAAGTAAATTACA
66 AACATGGTTATAATGACATGAGTAAAATAACATAAATAAAGTAAATTACA
* *
97936173 TGACGGGGAATACACCCGTAACGTTCGACGCAGTATATGACATTCACACGAACTGCACAATTAAT
1 TGACGGGGAATACACCCGTAACGTTCGACGCAGTATATGACATTCACACAAACTACACAATTAAT
97936238 AACATGGTTATAATGACATGAGTAAAATAACATAAATAAAGTAAATTACA
66 AACATGGTTATAATGACATGAGTAAAATAACATAAATAAAGTAAATTACA
97936288 TGACG
1 TGACG
97936293 TGAATATAAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (115 bp):
TGACGGGGAATACACCCGTAACGTTCGACGCAGTATATGACATTCACACAAACTACACAATTAAT
AACATGGTTATAATGACATGAGTAAAATAACATAAATAAAGTAAATTACA
Found at i:97940177 original size:3 final size:3
Alignment explanation
Indices: 97940169--97940562 Score: 143
Period size: 3 Copynumber: 130.0 Consensus size: 3
97940159 TTAATTTTAA
* * * * *
97940169 TAT TAT TAT TGT TAT TAT TAG TAT TAT TTT TAA TAT TAT TTT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** ** *
97940216 CAT TAT TAC TAT T-T TCAAT TTT TGC TAT CGT TAT TAT TAGCC TAT TAT
1 TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TA--T TAT TAT
* * * * * *
97940264 TAT TCAAA TGT TAT TAT T-T TCTT TAT TAT TAT TAT TAT TGT TAA CAT
1 TAT T--AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* *
97940311 GTCAT TAT TAT TAT TGT TATT TAT T-T ATCT TAT CTAT T-T CTAT TAT
1 -T-AT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT -TAT TAT -TAT TAT
* * * * * *
97940357 TAG TGT TAT T-T CAT TAT TAT T-T TA- TGT TAC TAT TA- CAT TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * *
97940399 TAT TAT TAT TATT TAT TTT TAT TAT TCT TTT TAT TAA TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
97940445 TAC TAT TAT TAT TTT TACT T-T TACT T-T TA- TAC TAT AAT TA- TAT
1 TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * *
97940488 TTT CTCT TAT GAT CAT CAT TAT TCT TAT TAT TAT T-T CT-T TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
97940533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
97940563 ACTTTCTTTT
Statistics
Matches: 285, Mismatches: 73, Indels: 66
0.67 0.17 0.16
Matches are distributed among these distances:
2 22 0.08
3 232 0.81
4 23 0.08
5 8 0.03
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:97943538 original size:14 final size:14
Alignment explanation
Indices: 97943519--97943551 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
97943509 CATCTTTGTT
97943519 GTGACAGCCCTAAA
1 GTGACAGCCCTAAA
97943533 GTGACAGCCCTAAA
1 GTGACAGCCCTAAA
97943547 GTGAC
1 GTGAC
97943552 CCTAGTCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.15
Consensus pattern (14 bp):
GTGACAGCCCTAAA
Found at i:97945326 original size:79 final size:80
Alignment explanation
Indices: 97945126--97945345 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 80
97945116 TATTTGGATG
* *
97945126 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGG
* *
97945188 CATTTGTGTGGGCTACT
64 CATTTGTGCGAGCTACT
* * *
97945205 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGGC
*
97945269 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGCTACT
* * *
97945285 ATAACCGGGCT-AGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGG
97945346 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 16 0.13
79 73 0.59
80 34 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGCTACT
Found at i:97945345 original size:39 final size:40
Alignment explanation
Indices: 97945126--97945312 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
97945116 TATTTGGATG
* * *
97945126 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
97945166 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGTGGGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
97945205 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
97945245 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
97945285 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
97945313 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 49 0.37
40 84 0.63
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:97961669 original size:42 final size:42
Alignment explanation
Indices: 97961620--97961730 Score: 213
Period size: 42 Copynumber: 2.6 Consensus size: 42
97961610 TGTATGCATT
97961620 TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
*
97961662 TTAGCATTTTAACAGTTAATGGATGATAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
97961704 TTAGCATTTTAATAGTTAATGGATGAT
1 TTAGCATTTTAATAGTTAATGGATGAT
97961731 GGGCATGGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (42 bp):
TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
Found at i:97968772 original size:42 final size:42
Alignment explanation
Indices: 97968723--97968833 Score: 213
Period size: 42 Copynumber: 2.6 Consensus size: 42
97968713 TGTACGCATT
*
97968723 TTAGCATTTTAATAGTTAATGGATGATAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATAACGGATGATGGGCA
97968765 TTAGCATTTTAATAGTTAATGGATGATAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATAACGGATGATGGGCA
97968807 TTAGCATTTTAATAGTTAATGGATGAT
1 TTAGCATTTTAATAGTTAATGGATGAT
97968834 GGGCATGGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (42 bp):
TTAGCATTTTAATAGTTAATGGATGATAACGGATGATGGGCA
Found at i:97976089 original size:41 final size:41
Alignment explanation
Indices: 97975981--97976349 Score: 222
Period size: 45 Copynumber: 8.6 Consensus size: 41
97975971 AGTTAAAGCC
* *
97975981 ACAAGTCTTATCTCCCTGAAGTTGCAG-AGGAGCA-AACTAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATC-AAA
*
97976022 GACAGATGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA
1 -ACA-A--ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
* * * * * *
97976067 ACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAGGTTAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
* * * *
97976108 GCCACAAGTCTTATCTCCCTGAAGTTGCAG-AGAAGCAAACTGAAG
1 ---ACAAATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGA-TCAAA
* * *
97976153 ACAGATGATCTTATCTCTCTGAAATTGTAGTAGAGCAGATCAAA
1 ACA-A--ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
* * * * * *
97976197 ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
* * * * * *
97976238 GCCACAAGTTTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGA
1 ---ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAA-A
* * **
97976284 TGGCGAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
1 --ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
* *
97976327 ACAAACCTTATCTTCCTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTT
97976350 ACGGTGGAGC
Statistics
Matches: 250, Mismatches: 58, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
41 77 0.31
42 6 0.02
43 6 0.02
44 69 0.28
45 86 0.34
46 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (41 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
Found at i:97976130 original size:44 final size:44
Alignment explanation
Indices: 97975973--97976482 Score: 251
Period size: 44 Copynumber: 11.7 Consensus size: 44
97975963 GCAACATCAG
* *
97975973 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAA
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * * *
97976017 CTAAAGACAGATGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TTAAAGCCACAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** * * *
97976062 TCAAA---ACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAGG
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
97976103 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGAAGCAAA
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * * * * * *
97976147 CTGAAGACAGATGATCTTATCTCTCTGAAATTGTAGTAGAGCAGA
1 TTAAAGCCACAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** * * *
97976192 TCAAA---ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGG
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
97976233 TTAAAGCCACAAGTTTTATCTCCCTGAAGTTACAGTGGAGTAGA
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * ** *
97976277 CTGAAGATGGC-GAA-TCTTATCTCTTTGAAGTTGCAGTAGAGCAGA
1 -TTAA-A-GCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** * * *
97976322 TCAAA---ACAAACCTTATCTTCCTGAAGTTACGGTGGAGCA-A
1 TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * *
97976362 GTTGAAA-TCACAAGTCTTATCTTCCTAAAGTTACAGTGGAGTAGA
1 -TT-AAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * * * * *
97976407 CTGAAGATGGCA-AA-TCTTATCTCCCTAAAGTTGCAATAGAGTACA
1 -TTAA-A-GCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
97976452 TTGAAGCCATTAAG-CTTATCTCCCTAAAGTT
1 TTAAAGCCA-CAAGTCTTATCTCCCTGAAGTT
97976483 TTAGTAGAGC
Statistics
Matches: 348, Mismatches: 94, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
40 3 0.01
41 81 0.23
42 10 0.03
43 2 0.01
44 130 0.37
45 113 0.32
46 5 0.01
47 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
TTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
Found at i:97976205 original size:130 final size:130
Alignment explanation
Indices: 97975972--97976413 Score: 602
Period size: 130 Copynumber: 3.4 Consensus size: 130
97975962 AGCAACATCA
*
97975972 GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTAAAGACAGATGATCTTAT
1 GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTGAAGACAGATGATCTTAT
97976037 CTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAG
66 CTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAG
*
97976102 GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGAAGCAAACTGAAGACAGATGATCTTAT
1 GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTGAAGACAGATGATCTTAT
* * * *
97976167 CTCTCTGAAATTGTAGTAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAG
66 CTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAG
* * * * * * **
97976232 GTTAAAGCCACAAGTTTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGA-TGGCGAATCTTA
1 GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTGAAGACAGATG-ATCTTA
* * * *
97976296 TCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTT-CCTGAAGTTACGGTGGAGC
65 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTAT-TTCCCTGAAGTTGCAGTGGAGT
*
97976360 AA
129 AG
* * * * * * *
97976362 GTTGAAA-TCACAAGTCTTATCTTCCTAAAGTTACAGTGGAGTAGACTGAAGA
1 GTT-AAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTGAAGA
97976414 TGGCAAATCT
Statistics
Matches: 281, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
129 2 0.01
130 275 0.98
131 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (130 bp):
GTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTGAAGACAGATGATCTTAT
CTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATTTCCCTGAAGTTGCAGTGGAGTAG
Done.