Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 81 of 226
Found at i:25681432 original size:96 final size:96
Alignment explanation
Indices: 25681258--25681433 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
25681248 GCTACGATGC
** **
25681258 TACTGATGGCTTTGTGCCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCGTT
1 TACTGATGAATTTGTGCCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCACT
* * *
25681323 ACTGATGGGTTTGTGTCGATCATATTACCGT
66 ACTAAAGGCTTTGTGTCGATCATATTACCGT
* * * * *
25681354 TACTGATGAATTTGTGCGAATCATATTACCGTTACTGAT-GGTTGTGTGCCGATTATATCACTAC
1 TACTGATGAATTTGTGCCAATCATATTACCGTTACTAATAGCTT-TGTGCCGATCATATCACCAC
25681418 TACTAAAGGCTTTGTG
65 TACTAAAGGCTTTGTG
25681434 CCAATGATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 3 0.04
96 64 0.96
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (96 bp):
TACTGATGAATTTGTGCCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCACT
ACTAAAGGCTTTGTGTCGATCATATTACCGT
Found at i:25681482 original size:22 final size:22
Alignment explanation
Indices: 25681452--25681498 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25681442 ATTATTGTAC
* * *
25681452 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
25681474 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
25681496 TTA
1 TTA
25681499 CGGCTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:25686629 original size:13 final size:13
Alignment explanation
Indices: 25686607--25686636 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25686597 ATTGGACTAA
25686607 TGGC-TTATCGAT
1 TGGCATTATCGAT
25686619 TGGCATTATCGAT
1 TGGCATTATCGAT
25686632 TGGCA
1 TGGCA
25686637 GTATGAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (13 bp):
TGGCATTATCGAT
Found at i:25686956 original size:9 final size:9
Alignment explanation
Indices: 25686939--25686974 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25686929 GTTAAACGAA
25686939 TCGAGTTAT
1 TCGAGTTAT
*
25686948 TCTAGTTAT
1 TCGAGTTAT
*
25686957 TCGAGTTAA
1 TCGAGTTAT
25686966 TCGAGTTAT
1 TCGAGTTAT
25686975 CCGAATCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:25687461 original size:20 final size:20
Alignment explanation
Indices: 25687436--25687473 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25687426 CCCTCAAACT
25687436 TTTATTCCCAAAACTTTTTA
1 TTTATTCCCAAAACTTTTTA
*
25687456 TTTATTCCCTAAACTTTT
1 TTTATTCCCAAAACTTTT
25687474 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATTCCCAAAACTTTTTA
Found at i:25695457 original size:21 final size:21
Alignment explanation
Indices: 25695399--25695508 Score: 105
Period size: 23 Copynumber: 5.1 Consensus size: 21
25695389 CCTGATCAGT
* *
25695399 ATACGACACAT-AAGCGCCTG
1 ATACGACACATAAAGTGTCTG
* ** *
25695419 AAACGACACACGAGGTGTCTG
1 ATACGACACATAAAGTGTCTG
*
25695440 ATAAGACACATAAAGTGTCTGAG
1 ATACGACACATAAAGTGTCT--G
25695463 ATACGACACATAAAGTGTCTG
1 ATACGACACATAAAGTGTCTG
*
25695484 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGTCTG
25695507 AT
1 AT
25695509 CGGCAAAGCC
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
20 9 0.12
21 24 0.33
23 40 0.55
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGTCTG
Found at i:25695508 original size:23 final size:24
Alignment explanation
Indices: 25695438--25695508 Score: 110
Period size: 23 Copynumber: 3.0 Consensus size: 24
25695428 ACGAGGTGTC
*
25695438 TGATAAGACACATAAAGTGTCTGA
1 TGATACGACACATAAAGTGTCTGA
25695462 -GATACGACACATAAAGTGTCTGA
1 TGATACGACACATAAAGTGTCTGA
*
25695485 TG-TACGACACATAAAGTGCCTGA
1 TGATACGACACATAAAGTGTCTGA
25695508 T
1 T
25695509 CGGCAAAGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (24 bp):
TGATACGACACATAAAGTGTCTGA
Found at i:25695835 original size:16 final size:17
Alignment explanation
Indices: 25695814--25695845 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25695804 TAATAATAAT
25695814 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
25695830 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
25695846 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:25696535 original size:17 final size:17
Alignment explanation
Indices: 25696513--25696547 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25696503 GAATGGTCTC
*
25696513 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
25696530 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
25696547 T
1 T
25696548 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:25704056 original size:23 final size:21
Alignment explanation
Indices: 25703986--25704095 Score: 107
Period size: 23 Copynumber: 5.1 Consensus size: 21
25703976 CTTGATCAGT
*
25703986 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGTCTG
* ** *
25704006 AAACGACACACGAGGTGTCTG
1 ATACGACACATAAAGTGTCTG
25704027 ATACGACACATAAAGTGTCTAAG
1 ATACGACACATAAAGTGTCT--G
25704050 ATACGACACATAAAGT-TCCTG
1 ATACGACACATAAAGTGT-CTG
*
25704071 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGTCTG
25704094 AT
1 AT
25704096 CGGCAAAGCC
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.12
21 26 0.35
22 1 0.01
23 38 0.51
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (21 bp):
ATACGACACATAAAGTGTCTG
Found at i:25704422 original size:16 final size:17
Alignment explanation
Indices: 25704401--25704432 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25704391 TAATAATAAT
25704401 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
25704417 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
25704433 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:25705120 original size:17 final size:17
Alignment explanation
Indices: 25705098--25705132 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25705088 GAATGGTCTC
*
25705098 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
25705115 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
25705132 T
1 T
25705133 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:25705328 original size:28 final size:29
Alignment explanation
Indices: 25705305--25705375 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
25705295 TATTTATTTC
25705305 ATATAA-TATAATATCTTAACTTTAATTA
1 ATATAATTATAATATCTTAACTTTAATTA
* *
25705333 ATATAATTTATAATATTTTAA--TTAAATA
1 ATATAA-TTATAATATCTTAACTTTAATTA
**
25705361 ATATTTTTATAATAT
1 ATATAATTATAATAT
25705376 AAATCAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.24
28 16 0.43
30 12 0.32
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATAATTATAATATCTTAACTTTAATTA
Found at i:25705347 original size:30 final size:27
Alignment explanation
Indices: 25705311--25705375 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
25705301 TTTCATATAA
*
25705311 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
25705341 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
25705368 TATAATAT
1 TATAATAT
25705376 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:25705377 original size:16 final size:17
Alignment explanation
Indices: 25705341--25705377 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
25705331 TAATATAATT
25705341 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
25705358 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
25705373 TATAA
1 TATAA
25705378 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:25708693 original size:36 final size:37
Alignment explanation
Indices: 25708646--25708718 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
25708636 GTCTCCAAAT
* * *
25708646 TCACATTTCAATTC-AATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
*
25708682 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
25708719 GTCAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.44
Consensus pattern (37 bp):
TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
Found at i:25709446 original size:13 final size:13
Alignment explanation
Indices: 25709424--25709463 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25709414 ACTCTAGTTT
25709424 TTCCTTTCTTTTC
1 TTCCTTTCTTTTC
*
25709437 TTCTTTTC-TTTC
1 TTCCTTTCTTTTC
25709449 TTTCCTTTCTTTTC
1 -TTCCTTTCTTTTC
25709463 T
1 T
25709464 CCCTGTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCCTTTCTTTTC
Found at i:25709451 original size:9 final size:9
Alignment explanation
Indices: 25709422--25709463 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
25709412 AAACTCTAGT
25709422 TTTTCCTTTC
1 TTTT-CTTTC
25709432 TTTTC-TTC
1 TTTTCTTTC
25709440 TTTTCTTTC
1 TTTTCTTTC
*
25709449 TTTCCTTTC
1 TTTTCTTTC
25709458 TTTTCT
1 TTTTCT
25709464 CCCTGTTTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
9 17 0.59
10 4 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:25709671 original size:24 final size:24
Alignment explanation
Indices: 25709626--25709671 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
25709616 TACACATTTA
* * *
25709626 ATTATTATTACCATACACTTGTCT
1 ATTATCATCACCATACAATTGTCT
*
25709650 ATTATCATCACCATCCAATTGT
1 ATTATCATCACCATACAATTGT
25709672 TCTTAATTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTATCATCACCATACAATTGTCT
Found at i:25709851 original size:31 final size:28
Alignment explanation
Indices: 25709815--25709901 Score: 75
Period size: 31 Copynumber: 3.0 Consensus size: 28
25709805 TACATTTGTC
*
25709815 ATAATTCAATTTATCTATTAATATAATATTT
1 ATAATT-AATTTATATATTAATAT-A-ATTT
* * * *
25709846 ATAATTTAATTAATTTAATAATATACTTT
1 ATAA-TTAATTTATATATTAATATAATTT
* *
25709875 ATAATTAATTTATATATTTATAAAATT
1 ATAATTAATTTATATATTAATATAATT
25709902 AATTCATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 17 0.38
29 7 0.16
30 1 0.02
31 18 0.40
32 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATTAATTTATATATTAATATAATTT
Found at i:25709894 original size:19 final size:19
Alignment explanation
Indices: 25709815--25709897 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 19
25709805 TACATTTGTC
*
25709815 ATAATTCAATTTATCTATTAAT
1 ATAATT-AATTTATATATT--T
25709837 ATAA-T-ATTTATA-ATTT
1 ATAATTAATTTATATATTT
*
25709853 AATTAATTTAA-TAATATACTTT
1 -A-TAA-TTAATTTATATA-TTT
25709875 ATAATTAATTTATATATTT
1 ATAATTAATTTATATATTT
25709894 ATAA
1 ATAA
25709898 AATTAATTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 19
0.69 0.04 0.26
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 6 0.12
19 17 0.34
20 14 0.28
21 4 0.08
22 7 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATTAATTTATATATTT
Found at i:25717985 original size:184 final size:184
Alignment explanation
Indices: 25717676--25718044 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
25717666 TGATCAACCG
25717676 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
1 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
25717741 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCGTTCAACAAAACAAAG
66 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCGTTCAACAAAACAAAG
25717806 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
131 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
25717860 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
1 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
* *
25717925 ACTCTTTTCTTCGAACATTTGGTTTCTTATGTTTTCCTAACCTTAGACTGTTCAACAAAACAAAG
66 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCGTTCAACAAAACAAAG
25717990 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
131 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
25718044 G
1 G
25718045 GGTACAAGTG
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 183 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (184 bp):
GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCGTTCAACAAAACAAAG
TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
Found at i:25722549 original size:11 final size:11
Alignment explanation
Indices: 25722527--25722588 Score: 90
Period size: 11 Copynumber: 5.6 Consensus size: 11
25722517 AACTAATCCT
25722527 CTCTCAAATTTC
1 CTCTC-AATTTC
25722539 CTCTCAATTTC
1 CTCTCAATTTC
25722550 CTCTCAATTTC
1 CTCTCAATTTC
* *
25722561 CTTTCAATTTT
1 CTCTCAATTTC
25722572 CTCTCAATTTC
1 CTCTCAATTTC
25722583 CT-TCAA
1 CTCTCAA
25722589 AAATCTCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.09
11 37 0.80
12 5 0.11
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:25722595 original size:21 final size:22
Alignment explanation
Indices: 25722550--25722596 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
25722540 TCTCAATTTC
***
25722550 CTCTCAATTTCCTTTCAATTTT
1 CTCTCAATTTCCTTTCAAAAAT
25722572 CTCTCAATTTCC-TTCAAAAAT
1 CTCTCAATTTCCTTTCAAAAAT
25722593 CTCT
1 CTCT
25722597 TAAATCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (22 bp):
CTCTCAATTTCCTTTCAAAAAT
Found at i:25724489 original size:18 final size:18
Alignment explanation
Indices: 25724462--25724501 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
25724452 GAGGTGCGTT
*
25724462 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
25724480 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
25724498 TCCT
1 TCCT
25724502 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:25724781 original size:21 final size:21
Alignment explanation
Indices: 25724757--25724805 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
25724747 AGATGCCGTA
* *
25724757 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
25724778 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
25724799 CCGGAAG
1 CCGGAAG
25724806 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:25724959 original size:25 final size:25
Alignment explanation
Indices: 25724930--25725046 Score: 122
Period size: 25 Copynumber: 4.9 Consensus size: 25
25724920 TATTTTGATA
25724930 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
25724955 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
25724980 TT-TTTTA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
25724998 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
25725024 TTATTTGATGTCATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
25725047 ATTTTTGAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 7 0.09
21 3 0.04
23 3 0.04
24 7 0.09
25 49 0.66
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:25724998 original size:69 final size:69
Alignment explanation
Indices: 25724920--25725052 Score: 257
Period size: 69 Copynumber: 1.9 Consensus size: 69
25724910 ATATTTTAAA
25724920 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTT
25724985 TAGT
66 TAGT
*
25724989 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTCATAAAATAGAAATTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTT
25725053 GAATATTTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTT
TAGT
Found at i:25725063 original size:9 final size:9
Alignment explanation
Indices: 25725049--25725081 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25725039 AAATAGAAAT
25725049 TTTTGAATA
1 TTTTGAATA
25725058 TTTTGAATAA
1 TTTTGAAT-A
25725068 TTTT-AATA
1 TTTTGAATA
25725076 TTTTGA
1 TTTTGA
25725082 TCTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (9 bp):
TTTTGAATA
Found at i:25725142 original size:23 final size:23
Alignment explanation
Indices: 25725116--25725904 Score: 784
Period size: 23 Copynumber: 35.2 Consensus size: 23
25725106 ATTAATACCC
25725116 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725139 TTAAATTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725162 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
25725183 TTAACATAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725206 TTAAATTAAAAACCCTAA-CT-C
1 TTAACTTAAAAACCCTAACCTAA
*
25725227 TTAGCTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725250 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
25725271 TTAACTTAAAAACACTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
25725294 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725317 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
25725338 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
25725361 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
25725384 TTAAATTAAAAACCCTAACC--A
1 TTAACTTAAAAACCCTAACCTAA
25725405 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
25725428 TTAAATTTAAAAACCCTAACCTAA
1 TT-AACTTAAAAACCCTAACCTAA
*
25725452 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
25725475 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAACTTAAAAA--C---CCTAACCTAA
* *
25725503 TTAAATTAAAAACCCTAAACC--C
1 TTAACTTAAAAACCCT-AACCTAA
*
25725525 TTAACTTAAAATCCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
25725548 TTTAA-TTAAAAACCCTAAACCT--
1 -TTAACTTAAAAACCCT-AACCTAA
* *
25725570 TTAACTTAAAAACCCTAAACT-C
1 TTAACTTAAAAACCCTAACCTAA
25725592 TTAACTTAAAAA-CCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725614 TTAAATTTAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * *
25725637 TTAAATTTAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
25725658 TTAACTTAAAAACCCTAACCTTA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725681 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
25725702 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
25725725 TTTAA-TT-AAAACCCTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
25725748 --AACTTAAAAACCCTAACC-CG
1 TTAACTTAAAAACCCTAACCTAA
***
25725768 TT-ACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
* *
25725790 TTAACTTAAAAACCTTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
* *
25725811 TTAACTTAAAAACACTAAACC--C
1 TTAACTTAAAAACCCT-AACCTAA
*
25725833 TTAACTTAAAAACTCTAA-CT-A
1 TTAACTTAAAAACCCTAACCTAA
* *
25725854 TTAACTTTAAAACCCTAAACTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
25725877 TTTAA-TTAAAAATCCTAAACTAAA
1 -TTAACTTAAAAACCCTAACCT-AA
25725901 TTAA
1 TTAA
25725905 TAATTTTACA
Statistics
Matches: 664, Mismatches: 57, Indels: 90
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.01
21 201 0.30
22 92 0.14
23 294 0.44
24 48 0.07
25 1 0.00
26 1 0.00
28 22 0.03
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:25725204 original size:44 final size:43
Alignment explanation
Indices: 25725116--25725894 Score: 586
Period size: 44 Copynumber: 17.4 Consensus size: 43
25725106 ATTAATACCC
* *
25725116 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
*
25725162 TTAAATTAAAAACCCTAACCCTTAACATAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCATTAA-ATAAAAACCCTAACCTAA
**
25725206 TTAAATTAAAAACCCTAACTC-TTAGCTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAAC-CATTA-AATAAAAACCCTAACCTAA
* * *
25725250 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACACTAACCTAA
1 TTAAATTAAAAACCCTAACCATTAA-ATAAAAACCCTAACCTAA
*
25725294 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
*
25725338 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
*
25725384 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCATTAA-ATAAAAACCCTAACCTAA
25725428 TTAAATTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAA-TTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
*
25725475 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAA--C---CCTAACC--ATTAAA-TAAAAACCCT-AACCTAA
* * *
25725525 TTAACTTAAAATCCCTAACCTAATTTAATTAAAAACCCTAAACCT--
1 TTAAATTAAAAACCCTAACC--A-TTAAATAAAAACCCT-AACCTAA
* *
25725570 TTAACTTAAAAACCCTAAACTC-TTAACTTAAAAA-CCTAACCTAA
1 TTAAATTAAAAACCCT-AAC-CATTAA-ATAAAAACCCTAACCTAA
* * *
25725614 TTAAATTTAAAACCCTAACCTAATTAAATTTAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
* *
25725658 TTAACTTAAAAACCCTAACCTTATTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACC--ATTAAA-TAAAAACCCTAACCTAA
* * *
25725702 TTAACTTAAAAACCCTAACCTAATTTAATTAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCTAACC--ATTAAATAAAAACCCT-AA-CCTAA
* * ** ***
25725748 --AACTTAAAAACCCTAACCCGTTACTTAAAAACCCTAACCCCC
1 TTAAATTAAAAACCCTAA-CCATTAAATAAAAACCCTAACCTAA
* * * * * *
25725790 TTAACTTAAAAACCTTAACCCTTAACTTAAAAACACTAAACC--C
1 TTAAATTAAAAACCCTAACCATTAA-ATAAAAACCCT-AACCTAA
* * * * * *
25725833 TTAACTTAAAAACTCTAACTATTAACTTTAAAACCCTAAACTAA
1 TTAAATTAAAAACCCTAACCATTAA-ATAAAAACCCTAACCTAA
* *
25725877 TTTAATTAAAAATCCTAA
1 TTAAATTAAAAACCCTAA
25725895 ACTAAATTAA
Statistics
Matches: 632, Mismatches: 57, Indels: 90
0.81 0.07 0.12
Matches are distributed among these distances:
41 2 0.00
42 11 0.02
43 68 0.11
44 331 0.52
45 74 0.12
46 76 0.12
47 28 0.04
48 2 0.00
50 10 0.02
51 26 0.04
52 4 0.01
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (43 bp):
TTAAATTAAAAACCCTAACCATTAAATAAAAACCCTAACCTAA
Found at i:25725224 original size:67 final size:67
Alignment explanation
Indices: 25725116--25725904 Score: 689
Period size: 67 Copynumber: 11.7 Consensus size: 67
25725106 ATTAATACCC
* *
25725116 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
25725181 CC
66 CA
* **
25725183 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAA-CT-CTTAGCTTAAAAACCCTAAC
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
25725246 CTAA
66 C--A
* * *
25725250 TTAA-ATTAAAAACCCTAACC--CTTAACTTAAAAACACTAACCTAATTAAATTAAAAACCCTAA
1 TTAACA-TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
25725312 CCTAA
65 CC--A
* *
25725317 TTAA-ATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 TTAACA-TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
25725379 CCTAA
65 CC--A
*
25725384 TTAA-ATTAAAAACCCTAACC--ATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTA
1 TTAACA-TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA-TTAAAAACCCTA
25725446 ACCTAA
64 ACC--A
25725452 TTAA-ATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAAC
1 TTAACA-TAAAAACCCTAACCTAATTAAATTAAAAA--C---CCTAACCTAATTAAATTAAAAAC
*
25725516 CCTAAACCC
60 CCT-AACCA
* * * *
25725525 TTAACTTAAAATCCCTAACCTAATTTAATTAAAAACCCTAAACCT--TTAACTTAAAAACCCTAA
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTAAATTAAAAACCCT-A
25725588 ACTC-
64 AC-CA
* * *
25725592 TTAACTTAAAAA-CCTAACCTAATTAAATTTAAAACCCTAACCTAATTAAATTTAAAACCCTAAC
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
25725656 CC
66 CA
* * * *
25725658 TTAACTTAAAAACCCTAACCTTATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAAC
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
25725721 CTAA
66 C--A
* * * ** *
25725725 TTTA-ATTAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACC-CGTT-ACTTAAAAACCCTA
1 TTAACATAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
25725784 ACCCCC
64 A--CCA
* * * * * * * *
25725790 TTAACTTAAAAACCTTAACC--CTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACTCTAA
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAA
*
25725851 CTA
65 CCA
* * * * * *
25725854 TTAACTTTAAAACCCTAAACTAATTTAATTAAAAATCCTAAACTAAATTAA
1 TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT-AATTAA
25725905 TAATTTTACA
Statistics
Matches: 627, Mismatches: 57, Indels: 75
0.83 0.08 0.10
Matches are distributed among these distances:
64 20 0.03
65 113 0.18
66 93 0.15
67 272 0.43
68 49 0.08
69 5 0.01
70 12 0.02
71 1 0.00
72 1 0.00
73 31 0.05
74 11 0.02
75 19 0.03
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (67 bp):
TTAACATAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
CA
Found at i:25726044 original size:115 final size:115
Alignment explanation
Indices: 25725899--25726140 Score: 423
Period size: 115 Copynumber: 2.1 Consensus size: 115
25725889 TCCTAAACTA
*
25725899 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
*
25725964 AATAATTTTATATAATTTGATAAATTT-ACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGA-AAATTTCACTAACCATTAATACAATTTATC
* *
25726014 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCGGTACTAACAATT
1 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
*
25726079 AATAATTTTATATAATTTGAAATTTTCACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGAAAATTTCACTAACCATTAATACAATTTATC
25726129 AATTAATAATTT
1 AATTAATAATTT
25726141 CACAAACTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
114 5 0.04
115 116 0.96
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (115 bp):
AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
AATAATTTTATATAATTTGAAAATTTCACTAACCATTAATACAATTTATC
Found at i:25729397 original size:125 final size:125
Alignment explanation
Indices: 25729153--25729509 Score: 601
Period size: 124 Copynumber: 2.9 Consensus size: 125
25729143 AAAAATGCAT
25729153 CCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGA-TTTATACTA
1 CCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
*
25729217 TTTGCTCAGAAACGTCAAAAAAATTTATTTCTTCCATGACCTACTGTAGCAAAAGCGCGC
66 TTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCTACTGTAGCAAAAGCGCGC
*
25729277 CCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
1 CCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
* *
25729342 TTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCTGCTGTAGCAAAAGCGCGT
66 TTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCTACTGTAGCAAAAGCGCGC
*
25729402 CCACGAGGGCGCGA-TTTCACATATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
1 CCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
* *** *
25729466 TTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
66 TTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGACCTA
25729510 AAAACCCTAA
Statistics
Matches: 219, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
124 120 0.55
125 99 0.45
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (125 bp):
CCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTA
TTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCTACTGTAGCAAAAGCGCGC
Found at i:25732597 original size:19 final size:19
Alignment explanation
Indices: 25732575--25732625 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
25732565 AAAATTAAAA
*
25732575 TAAAAAAATAAAAACT-CTT
1 TAAAAAAATAAAAA-TGATT
*
25732594 TAAAATAA-AAAAATGATT
1 TAAAAAAATAAAAATGATT
*
25732612 TAAAAATATAAAAA
1 TAAAAAAATAAAAA
25732626 ATTCAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 12 0.46
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAAATAAAAATGATT
Found at i:25736168 original size:21 final size:21
Alignment explanation
Indices: 25736144--25736185 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25736134 AACACAATAG
25736144 ATAAAGATAGAAACATAAACA
1 ATAAAGATAGAAACATAAACA
25736165 ATAAAGATAGAAACATAAACA
1 ATAAAGATAGAAACATAAACA
25736186 TTCATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (21 bp):
ATAAAGATAGAAACATAAACA
Found at i:25737838 original size:15 final size:15
Alignment explanation
Indices: 25737818--25737848 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25737808 TTCAGCAGAT
25737818 AATTTGCATAGCATC
1 AATTTGCATAGCATC
25737833 AATTTGCATAGCATC
1 AATTTGCATAGCATC
25737848 A
1 A
25737849 TTCATGGGGC
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):
AATTTGCATAGCATC
Found at i:25738571 original size:2 final size:2
Alignment explanation
Indices: 25738564--25738589 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25738554 CACATGCAAA
25738564 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
25738590 CCTGCTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25741048 original size:21 final size:22
Alignment explanation
Indices: 25741023--25741067 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
25741013 TTTGGGTCGT
*
25741023 TTTAGATTGTATTAGTG-TTGG
1 TTTAGATTGTATTAGGGTTTGG
* *
25741044 TTTAGGTTGTTTTAGGGTTTGG
1 TTTAGATTGTATTAGGGTTTGG
25741066 TT
1 TT
25741068 CAATTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (22 bp):
TTTAGATTGTATTAGGGTTTGG
Found at i:25743885 original size:23 final size:23
Alignment explanation
Indices: 25743855--25743910 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
25743845 ATATTGTAGG
** *
25743855 TTGTTTCACTGTTGTTTTTAGTA
1 TTGTTTCACTGCCGTTTTTAATA
*
25743878 TTGTTTCACTGCCGTTTTTAATG
1 TTGTTTCACTGCCGTTTTTAATA
25743901 TTGTTTCACT
1 TTGTTTCACT
25743911 ACTGCTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.57
Consensus pattern (23 bp):
TTGTTTCACTGCCGTTTTTAATA
Found at i:25759568 original size:25 final size:25
Alignment explanation
Indices: 25759482--25759577 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
25759472 ATACACCACA
* * **
25759482 GCTCTCACGAGCTTCCCGTTATTTA
1 GCTCTCACGAGCTTCTCGATATTCG
* ** *
25759507 GCTCTTATAAGCATCTCGATATTCG
1 GCTCTCACGAGCTTCTCGATATTCG
*
25759532 GCTCTCACGAGCTTCTCGATATTTG
1 GCTCTCACGAGCTTCTCGATATTCG
** *
25759557 GCTCTCTTGAGCTTCCCGATA
1 GCTCTCACGAGCTTCTCGATA
25759578 AATGGCTCGC
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (25 bp):
GCTCTCACGAGCTTCTCGATATTCG
Found at i:25759583 original size:25 final size:25
Alignment explanation
Indices: 25759531--25759649 Score: 76
Period size: 25 Copynumber: 4.8 Consensus size: 25
25759521 CTCGATATTC
* * **
25759531 GGCTCTCACGAGCTTCTCGATATTT
1 GGCTCTCAAGAGCTTCCCGATAAAT
**
25759556 GGCTCTCTTGAGCTTCCCGATAAAT
1 GGCTCTCAAGAGCTTCCCGATAAAT
* * *
25759581 GGCTCGCAAGAGCTTCCCGTTATAT
1 GGCTCTCAAGAGCTTCCCGATAAAT
** * * * *
25759606 AACTCACATGAGCTTCCCGTTATAT
1 GGCTCTCAAGAGCTTCCCGATAAAT
* **
25759631 AGCTCAGAAGAGCTTCCCG
1 GGCTCTCAAGAGCTTCCCG
25759650 TTTACATGCT
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
GGCTCTCAAGAGCTTCCCGATAAAT
Found at i:25759585 original size:50 final size:50
Alignment explanation
Indices: 25759482--25759599 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 50
25759472 ATACACCACA
* * *
25759482 GCTCTCACGAGCTTCCCGTTATTTAGCTCTTATAAGCATCTCGATATTCG
1 GCTCTCACGAGCTTCCCGATATTTAGCTCTTATAAGCATCCCGATAATCG
* * * *
25759532 GCTCTCACGAGCTTCTCGATATTTGGCTCTCT-TGAGCTTCCCGATAAAT-G
1 GCTCTCACGAGCTTCCCGATATTTAGCTCT-TATAAGCATCCCGAT-AATCG
* *
25759582 GCTCGCAAGAGCTTCCCG
1 GCTCTCACGAGCTTCCCG
25759600 TTATATAACT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 53 0.95
51 3 0.05
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (50 bp):
GCTCTCACGAGCTTCCCGATATTTAGCTCTTATAAGCATCCCGATAATCG
Found at i:25759660 original size:25 final size:25
Alignment explanation
Indices: 25759565--25759651 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
25759555 TGGCTCTCTT
* * * *
25759565 GAGCTTCCCGATAAATGGCTCGCAA
1 GAGCTTCCCGTTATATAGCTCACAA
* *
25759590 GAGCTTCCCGTTATATAACTCACAT
1 GAGCTTCCCGTTATATAGCTCACAA
*
25759615 GAGCTTCCCGTTATATAGCTCAGAA
1 GAGCTTCCCGTTATATAGCTCACAA
25759640 GAGCTTCCCGTT
1 GAGCTTCCCGTT
25759652 TACATGCTCG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCACAA
Found at i:25759668 original size:25 final size:25
Alignment explanation
Indices: 25759564--25759660 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 25
25759554 TTGGCTCTCT
* * *
25759564 TGAGCTTCCCGATAAATGGCTC-GCA
1 TGAGCTTCCCGTTACATAGCTCAG-A
* * * *
25759589 AGAGCTTCCCGTTATATAACTCACA
1 TGAGCTTCCCGTTACATAGCTCAGA
*
25759614 TGAGCTTCCCGTTATATAGCTCAGA
1 TGAGCTTCCCGTTACATAGCTCAGA
*
25759639 AGAGCTTCCCGTTTACAT-GCTC
1 TGAGCTTCCCG-TTACATAGCTC
25759661 GGTTGAGCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 54 0.92
26 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (25 bp):
TGAGCTTCCCGTTACATAGCTCAGA
Found at i:25763886 original size:15 final size:15
Alignment explanation
Indices: 25763866--25763895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25763856 TACTTTTTTC
*
25763866 ATTTAATAGCTCGTT
1 ATTTAATAGCACGTT
25763881 ATTTAATAGCACGTT
1 ATTTAATAGCACGTT
25763896 TGATGCATGA
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:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (15 bp):
ATTTAATAGCACGTT
Found at i:25769873 original size:73 final size:72
Alignment explanation
Indices: 25769794--25769971 Score: 162
Period size: 73 Copynumber: 2.4 Consensus size: 72
25769784 TGTATACCAA
* * *
25769794 GAAGCTCATAAGAGCCTTAATCAGGAAGCTCATGTGAGTCAATAACGGGTAA-CTCTAAAGAGCC
1 GAAGCTCAAAAGAGCCTTAATCAGGAAGCTCAAGCGAG-CAATAACGGG-AAGCTCTAAAGAGCC
*
25769858 ATTAATCGG
64 ATTAATCAG
*** * * * * * *
25769867 GAAGCTCCGGATAGCCATATAT-TGGAAAGCTCAAGCGAGCCATATCGGGAAGCTCTAGAGAGCC
1 GAAGCTCAAAAGAGCCTTA-ATCAGG-AAGCTCAAGCGAGCAATAACGGGAAGCTCTAAAGAGCC
25769931 ATTAATCAG
64 ATTAATCAG
*
25769940 GAAGCTCACAAAGAGCCTTTAATCGGGAAGCT
1 GAAGCTCA-AAAGAGCC-TTAATCAGGAAGCT
25769972 TACGAAGAGC
Statistics
Matches: 81, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
72 2 0.02
73 50 0.62
74 25 0.31
75 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (72 bp):
GAAGCTCAAAAGAGCCTTAATCAGGAAGCTCAAGCGAGCAATAACGGGAAGCTCTAAAGAGCCAT
TAATCAG
Found at i:25769882 original size:25 final size:25
Alignment explanation
Indices: 25769852--25769971 Score: 111
Period size: 25 Copynumber: 4.8 Consensus size: 25
25769842 GTAACTCTAA
*
25769852 AGAGCCATTAATCGGGAAGCTCCGG
1 AGAGCCATTAATCGGGAAGCTCCAG
* * * *
25769877 ATAGCCA-TATATTGGAAAGCTCAAG
1 AGAGCCATTA-ATCGGGAAGCTCCAG
* *
25769902 CGAGCCA-T-ATCGGGAAGCTCTAG
1 AGAGCCATTAATCGGGAAGCTCCAG
* *
25769925 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTC-CAG
*
25769951 AGAGCCTTTAATCGGGAAGCT
1 AGAGCCATTAATCGGGAAGCT
25769972 TACGAAGAGC
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
23 18 0.24
24 3 0.04
25 34 0.45
26 20 0.27
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCGGGAAGCTCCAG
Found at i:25769919 original size:23 final size:25
Alignment explanation
Indices: 25769893--25769971 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 25
25769883 ATATATTGGA
* *
25769893 AAGCTCAAGCGAGCCA-T-ATCGGG
1 AAGCTCAAGAGAGCCATTAATCAGG
*
25769916 AAGCTCTAGAGAGCCATTAATCAGG
1 AAGCTCAAGAGAGCCATTAATCAGG
* * *
25769941 AAGCTCACAAAGAGCCTTTAATCGGG
1 AAGCTCA-AGAGAGCCATTAATCAGG
25769967 AAGCT
1 AAGCT
25769972 TACGAAGAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 14 0.30
24 1 0.02
25 11 0.24
26 20 0.43
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCAAGAGAGCCATTAATCAGG
Found at i:25769990 original size:26 final size:27
Alignment explanation
Indices: 25769910--25769993 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 27
25769900 AGCGAGCCAT
25769910 ATCGGGAAGCTCTA-G-AGAGCCAT-TA
1 ATCGGGAAGCT-TACGAAGAGCCATATA
* * * *
25769935 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTTACGAAGAGCCATATA
25769961 ATCGGGAAGCTTACGAAGAGCCATAT-
1 ATCGGGAAGCTTACGAAGAGCCATATA
25769987 ATCGGGA
1 ATCGGGA
25769994 TGCTCATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.02
25 11 0.23
26 34 0.71
27 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (27 bp):
ATCGGGAAGCTTACGAAGAGCCATATA
Found at i:25770431 original size:5 final size:5
Alignment explanation
Indices: 25770402--25770440 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
25770392 GAATTTAATA
* *
25770402 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
25770441 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:25770563 original size:22 final size:22
Alignment explanation
Indices: 25770535--25770581 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
25770525 AATTTAATCC
*
25770535 TTATTCCAAGCCTAGATTATTT
1 TTATTCCAAGCCTAGATGATTT
25770557 TTATTCCAAGCCTAGATGATTT
1 TTATTCCAAGCCTAGATGATTT
25770579 TTA
1 TTA
25770582 CATATAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.45
Consensus pattern (22 bp):
TTATTCCAAGCCTAGATGATTT
Found at i:25771931 original size:45 final size:44
Alignment explanation
Indices: 25771876--25771962 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
25771866 TTAAAACTGT
*
25771876 AATTTAAAATGTTCAAATTTATTAATAAACAATATCATGTTTTA
1 AATTTAAAATGTTCAAAATTATTAATAAACAATATCATGTTTTA
25771920 AATTATAAAATGTTCAAAATTATTAATAAACAATATCATGTTT
1 AATT-TAAAATGTTCAAAATTATTAATAAACAATATCATGTTT
25771963 AGGAGCATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 4 0.10
45 37 0.90
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (44 bp):
AATTTAAAATGTTCAAAATTATTAATAAACAATATCATGTTTTA
Found at i:25775876 original size:20 final size:20
Alignment explanation
Indices: 25775838--25775877 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25775828 TAATATATGA
* *
25775838 GTGTATACATGCCTGCATAT
1 GTGTATACATGCATACATAT
*
25775858 GTGTATGCATGCATACATAT
1 GTGTATACATGCATACATAT
25775878 CCACAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (20 bp):
GTGTATACATGCATACATAT
Found at i:25776321 original size:21 final size:21
Alignment explanation
Indices: 25776297--25776340 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
25776287 ATACTGATGC
*
25776297 AACCTTTATCCCATTCAGACA
1 AACCTTTATCCCATTCAAACA
*
25776318 AACCTTTATTCCATTCAAACA
1 AACCTTTATCCCATTCAAACA
25776339 AA
1 AA
25776341 TGTCTAGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.30, G:0.02, T:0.30
Consensus pattern (21 bp):
AACCTTTATCCCATTCAAACA
Found at i:25780815 original size:110 final size:110
Alignment explanation
Indices: 25780622--25780841 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
25780612 CCGCCAACAG
25780622 TAGATAATCTTCCCAACTACCCAAAAATCTATTACACAACCCCGAAACATATCCTCCAGGATCTG
1 TAGATAATCTTCCCAACTACCCAAAAATCTATTACACAACCCCGAAACATATCCTCCAGGATCTG
*
25780687 AATAACTCGCTCAGACTGTTCATCTGTCTGAGGATGATACGCAGT
66 AATAACTCGCTCAGACTGTTCATATGTCTGAGGATGATACGCAGT
25780732 TAGATAATCTTCCCAACTACCCAAAAATCTATTACACAACCCCGAAACATATCCTCCAGGATCTG
1 TAGATAATCTTCCCAACTACCCAAAAATCTATTACACAACCCCGAAACATATCCTCCAGGATCTG
25780797 AATAACTCGCTCAGACTGTTCATATGTCTGAGGATGATACGCAGT
66 AATAACTCGCTCAGACTGTTCATATGTCTGAGGATGATACGCAGT
25780842 ACTGAAATCA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (110 bp):
TAGATAATCTTCCCAACTACCCAAAAATCTATTACACAACCCCGAAACATATCCTCCAGGATCTG
AATAACTCGCTCAGACTGTTCATATGTCTGAGGATGATACGCAGT
Found at i:25782162 original size:38 final size:41
Alignment explanation
Indices: 25782092--25782168 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 41
25782082 AAAAATAAAA
*
25782092 ATAAAAGTATCAAAAATTATTTTTTTTCAAATT-AAAAATC
1 ATAAAAGTATCAAAAATTATTTTTTTTAAAATTGAAAAATC
25782132 ATAAAAGT-TCAAAAA-TATTTTTTTTAAAATTGAAAAA
1 ATAAAAGTATCAAAAATTATTTTTTTTAAAATTGAAAAA
25782169 AATAAGAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 15 0.43
39 12 0.34
40 8 0.23
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (41 bp):
ATAAAAGTATCAAAAATTATTTTTTTTAAAATTGAAAAATC
Found at i:25786120 original size:17 final size:18
Alignment explanation
Indices: 25786080--25786122 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
25786070 TAAAAGTTGA
*
25786080 ATTTTCAATTTATTTTATT
1 ATTTT-AATTTATTTCATT
*
25786099 TTTTTAATTT-TTTCATT
1 ATTTTAATTTATTTCATT
25786116 ATTTTAA
1 ATTTTAA
25786123 AGTTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTAATTTATTTCATT
Found at i:25794027 original size:11 final size:11
Alignment explanation
Indices: 25794002--25794034 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25793992 TCAATTATTT
25794002 TCTCAA-TTCC
1 TCTCAATTTCC
*
25794012 TCTCAATTTGC
1 TCTCAATTTCC
25794023 TCTCAATTTCC
1 TCTCAATTTCC
25794034 T
1 T
25794035 TCCAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.18, C:0.33, G:0.03, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:25794071 original size:51 final size:51
Alignment explanation
Indices: 25794012--25794111 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
25794002 TCTCAATTCC
25794012 TCTCAATTTGCTCTCAATTTCCT-TCCAAATTTCT-TTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTT-AAATCCATATTTAA
* *
25794063 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTTAAATCCATATTT
25794112 TTAATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 42 0.93
52 3 0.07
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.47
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTTAAATCCATATTTAA
Found at i:25794430 original size:18 final size:18
Alignment explanation
Indices: 25794396--25794446 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
25794386 AGGGGTGTGC
25794396 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTT--AACCGAA
*
25794416 AAAATTCGGTTAACCGAC
1 AAAATTCGGTTAACCGAA
**
25794434 CGAATTCGGTTAA
1 AAAATTCGGTTAA
25794447 TCGGTCGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
AAAATTCGGTTAACCGAA
Found at i:25794653 original size:13 final size:13
Alignment explanation
Indices: 25794635--25794661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25794625 CCTCCAGGCT
25794635 CTAAGCCCAAGAA
1 CTAAGCCCAAGAA
25794648 CTAAGCCCAAGAA
1 CTAAGCCCAAGAA
25794661 C
1 C
25794662 AATTCATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.33, G:0.15, T:0.07
Consensus pattern (13 bp):
CTAAGCCCAAGAA
Found at i:25794676 original size:7 final size:7
Alignment explanation
Indices: 25794664--25794722 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
25794654 CCAAGAACAA
25794664 TTCATGT
1 TTCATGT
25794671 TTCATGT
1 TTCATGT
25794678 TTCATGT
1 TTCATGT
*
25794685 TTCACGAT
1 TTCATG-T
25794693 TTCATGT
1 TTCATGT
**
25794700 TTCATAC
1 TTCATGT
*
25794707 TGCATGT
1 TTCATGT
25794714 TTCATGT
1 TTCATGT
25794721 TT
1 TT
25794723 TCTTCTGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (7 bp):
TTCATGT
Found at i:25795013 original size:37 final size:37
Alignment explanation
Indices: 25794963--25795035 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
25794953 TTTATGTGTT
* *
25794963 AAAGACTTATGTAATGTTTTTAGTTATGTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
*
25795000 AAAGACTTATGTAATTTTTTTAATTATATAGTGATT
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATT
25795036 TAAATCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
Found at i:25795063 original size:9 final size:9
Alignment explanation
Indices: 25795035--25795100 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
25795025 ATATAGTGAT
25795035 TTAAATCGG
1 TTAAATCGG
* *
25795044 TTAAGTTGG
1 TTAAATCGG
25795053 TTAAATCGG
1 TTAAATCGG
25795062 TTAAATCGG
1 TTAAATCGG
25795071 TT-AATCGG
1 TTAAATCGG
*
25795079 TTAAATAGG
1 TTAAATCGG
25795088 TTAAATCGG
1 TTAAATCGG
25795097 TTAA
1 TTAA
25795101 TTTTTAACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
8 8 0.16
9 42 0.84
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (9 bp):
TTAAATCGG
Found at i:25796175 original size:7 final size:7
Alignment explanation
Indices: 25796163--25796215 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
25796153 TAGTTGATTG
*
25796163 GTATTTA
1 GTATTAA
*
25796170 GTATTTA
1 GTATTAA
*
25796177 GTATTTA
1 GTATTAA
25796184 GTATTAA
1 GTATTAA
25796191 GTATTAA
1 GTATTAA
25796198 GTATTAA
1 GTATTAA
*
25796205 GTATTAT
1 GTATTAA
25796212 GTAT
1 GTAT
25796216 ATAACTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (7 bp):
GTATTAA
Found at i:25797344 original size:7 final size:7
Alignment explanation
Indices: 25797324--25797363 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
25797314 ATTTATTAAA
25797324 AATTTAT
1 AATTTAT
25797331 AAATTTAT
1 -AATTTAT
25797339 AATTTAT
1 AATTTAT
25797346 AA-TTA-
1 AATTTAT
25797351 AATTTAT
1 AATTTAT
25797358 AATTTA
1 AATTTA
25797364 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:25797421 original size:15 final size:15
Alignment explanation
Indices: 25797401--25797487 Score: 73
Period size: 15 Copynumber: 6.2 Consensus size: 15
25797391 CCCTAACCCT
25797401 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
25797416 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
*
25797428 AACCATTAACTTAAA
1 AACCCTTAACTTAAA
25797443 AACCC-TAACCTT---
1 AACCCTTAA-CTTAAA
25797455 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
25797470 AATCCTTAACTTAAA
1 AACCCTTAACTTAAA
25797485 AAC
1 AAC
25797488 ACCAAAACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
12 14 0.25
13 6 0.11
14 6 0.11
15 30 0.54
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:25797424 original size:27 final size:27
Alignment explanation
Indices: 25797389--25797471 Score: 148
Period size: 27 Copynumber: 3.1 Consensus size: 27
25797379 CAAAAACCCT
25797389 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
*
25797416 AACCCTAACCCTAACCATTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
*
25797443 AACCCTAACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
25797470 AA
1 AA
25797472 TCCTTAACTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (27 bp):
AACCCTAACCCTAACCCTTAACTTAAA
Found at i:25797582 original size:15 final size:15
Alignment explanation
Indices: 25797562--25797594 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
25797552 CCATAACCCT
25797562 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
25797577 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
25797592 AAC
1 AAC
25797595 ACCAAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:25797587 original size:107 final size:104
Alignment explanation
Indices: 25797416--25797643 Score: 302
Period size: 107 Copynumber: 2.1 Consensus size: 104
25797406 TTAACTTAAA
*
25797416 AACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAATCCTTAACT
1 AACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAACCCTTAACT
*
25797481 TAAAAACACCAAAA-C-AT-TAACAAAAACCCTAGCCCT
66 TAAAAACACCAAAACCTATCTAACAAAAACCCTAACCCT
*
25797517 AGCCCTAACCCTAACTC-TTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAAAACC
1 AACCCTAACCCTAAC-CATTAACTTAAAAACCCTAACC-T-----TAACCCTTAACTTAAAAACC
*
25797581 CTTAACTTAAAAACACCAAAACCTTAATGCTAATAAAAACCCTAACCCT
59 CTTAACTTAAAAACACCAAAACC-T-AT-CTAACAAAAACCCTAACCCT
25797630 AACCCTAACCCTAA
1 AACCCTAACCCTAA
25797644 TCTGATATAA
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
101 34 0.31
102 2 0.02
107 40 0.37
108 1 0.01
111 2 0.02
113 30 0.28
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.21
Consensus pattern (104 bp):
AACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAACCCTTAACT
TAAAAACACCAAAACCTATCTAACAAAAACCCTAACCCT
Found at i:25797624 original size:101 final size:96
Alignment explanation
Indices: 25797412--25797633 Score: 241
Period size: 101 Copynumber: 2.2 Consensus size: 96
25797402 ACCCTTAACT
*
25797412 TAAAAACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAATCCTT
1 TAAAAACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAACCCTT
25797477 AACTTAAAAACACCAAAACATTAACAAAAACCC
66 AACTTAAAAACACCAAAACATTAACAAAAA--C
** *
25797510 TAGCCCTAGCCCTAACCCTAACTC-TTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTT
1 TA---AAAACCCTAACCCTAAC-CATTAACTTAAAAACCCTAACC-T-----TAACCCTTAACTT
* ****
25797574 AAAAACCCTTAACTTAAAAACACCAAAACCTTAATGCTAA-
56 AAAAACCCTTAACTTAAAAACACCAAAACATTAACAAAAAC
25797614 TAAAAACCCTAACCCTAACC
1 TAAAAACCCTAACCCTAACC
25797634 CTAACCCTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
98 2 0.02
100 1 0.01
101 48 0.47
102 2 0.02
104 2 0.02
107 47 0.46
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (96 bp):
TAAAAACCCTAACCCTAACCATTAACTTAAAAACCCTAACCTTAACCCTTAACTTAAAAACCCTT
AACTTAAAAACACCAAAACATTAACAAAAAC
Found at i:25797627 original size:6 final size:6
Alignment explanation
Indices: 25797618--25797643 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25797608 TGCTAATAAA
25797618 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
25797644 TCTGATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:25797782 original size:77 final size:76
Alignment explanation
Indices: 25797692--25797849 Score: 237
Period size: 77 Copynumber: 2.1 Consensus size: 76
25797682 ATTAACAATG
* * *
25797692 AATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAATAAT
1 AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTAC-AAAAAAT-ATAAT
*
25797757 TTGATATAA-TTT
64 TTGATAAAATTTT
* *
25797769 AATAATTTTACTAACAAAATGCTAGATTTTACAAAATGTTTTGATTGGTACAAAAAATATAATTT
1 AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATATAATTT
25797834 GATAAAATTTT
66 GATAAAATTTT
25797845 AATAA
1 AATAA
25797850 CAATTAATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 13 0.18
76 13 0.18
77 48 0.65
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (76 bp):
AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATATAATTT
GATAAAATTTT
Found at i:25797858 original size:16 final size:16
Alignment explanation
Indices: 25797839--25797879 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
25797829 AATTTGATAA
25797839 AATTTTAATAACAATT
1 AATTTTAATAACAATT
25797855 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
25797871 AGTTTTAAT
1 AATTTTAAT
25797880 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:25797881 original size:22 final size:23
Alignment explanation
Indices: 25797853--25797902 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
25797843 TTAATAACAA
* *
25797853 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
25797875 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
25797898 TTAAT
1 TTAAT
25797903 AACCCAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:25802662 original size:47 final size:47
Alignment explanation
Indices: 25802593--25802689 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
25802583 TCATCCGAGA
25802593 AAGGGGTTACTAGTCAATAAGGTTCATTAAGACAAGAACCCGGAGTG
1 AAGGGGTTACTAGTCAATAAGGTTCATTAAGACAAGAACCCGGAGTG
25802640 AAGGGGTTACTAGTCAATAAGGTTCATTAAGACAAGAACCCGGAGTG
1 AAGGGGTTACTAGTCAATAAGGTTCATTAAGACAAGAACCCGGAGTG
25802687 AAG
1 AAG
25802690 CAAGGTACCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (47 bp):
AAGGGGTTACTAGTCAATAAGGTTCATTAAGACAAGAACCCGGAGTG
Found at i:25805694 original size:43 final size:43
Alignment explanation
Indices: 25805645--25805782 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
25805635 GCGAAGCAGA
*
25805645 TTGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
1 TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
* * * * *** * *
25805688 TTGAAGATAACAGATCTTGTCTTCCT-GCACCGACAGTGAAGTAGA
1 TTGAAGACAACAG-CCTTGCCTCCCTCG-GTTG-CAGTGGAGTAGG
* *
25805733 TCGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGG
1 TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
25805776 TTGAAGA
1 TTGAAGA
25805783 TAGCAGATCT
Statistics
Matches: 69, Mismatches: 22, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 27 0.39
44 20 0.29
45 22 0.32
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (43 bp):
TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
Found at i:25805731 original size:45 final size:45
Alignment explanation
Indices: 25805676--25805846 Score: 125
Period size: 45 Copynumber: 3.9 Consensus size: 45
25805666 CCCTCGGTTG
* * * * *
25805676 CAGTGGAGTAGGTTGAAGATAACAGATCTTGTCTTCCTGCACCGA
1 CAGTGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTGCAACGA
* * * ***
25805721 CAGTGAAGTAGATCGAAGACAACAG-CCTTGCCTCCCT-CGGTTG-
1 CAGTGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTGC-AACGA
* * * * *
25805764 CAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCAACGA
1 CAGTGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTGCAACGA
* * * *
25805809 CAGCGAAGTAGATCGAAGATACCAG-CCTTGCCTCCCTG
1 CAGTGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTG
25805847 ACCAGCAGTG
Statistics
Matches: 93, Mismatches: 29, Indels: 9
0.71 0.22 0.07
Matches are distributed among these distances:
43 20 0.22
44 32 0.34
45 41 0.44
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (45 bp):
CAGTGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTGCAACGA
Found at i:25805839 original size:44 final size:44
Alignment explanation
Indices: 25805615--25805846 Score: 148
Period size: 44 Copynumber: 5.3 Consensus size: 44
25805605 GATAGTAGAT
* * * * * *
25805615 CTTGCCTTCCTGCATCAACAGCGAAGCAGATTGAAGACACCAGC
1 CTTGCCTCCCTGCATCGACAGTGAAGTAGATTGAAGATAACAGC
* * * * *
25805659 CTTGCCTCCCT-CGGTTG-CAGTGGAGTAGGTTGAAGATAACAGAT
1 CTTGCCTCCCTGC-ATCGACAGTGAAGTAGATTGAAGATAACAG-C
* * * * *
25805703 CTTGTCTTCCTGCACCGACAGTGAAGTAGATCGAAGACAACAGC
1 CTTGCCTCCCTGCATCGACAGTGAAGTAGATTGAAGATAACAGC
* * * * * * *
25805747 CTTGCCTCCCT-CGGTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTGC-ATCGACAGTGAAGTAGATTGAAGATAACAG-C
* * * * *
25805791 CTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGATACCAGC
1 CTTGCCTCCCTGCATCGACAGTGAAGTAGATTGAAGATAACAGC
25805835 CTTGCCTCCCTG
1 CTTGCCTCCCTG
25805847 ACCAGCAGTG
Statistics
Matches: 135, Mismatches: 45, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
43 40 0.30
44 53 0.39
45 42 0.31
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGCATCGACAGTGAAGTAGATTGAAGATAACAGC
Found at i:25805871 original size:88 final size:88
Alignment explanation
Indices: 25805601--25805845 Score: 382
Period size: 88 Copynumber: 2.8 Consensus size: 88
25805591 AACAGATCAG
* * * * *
25805601 TGAAGATAGTAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
25805666 CCCTCGGTTGCAGTGGAGTAGGT
66 CCCTCGGTTGCAGTGGAGTAGGT
* * * * *
25805689 TGAAGATAACAGATCTTGTCTTCCTGCACCGACAGTGAAGTAGATCGAAGACAACAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
*
25805754 CCCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGTAGGT
*
25805777 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
25805842 CCCT
66 CCCT
25805846 GACCAGCAGT
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 141 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGTAGGT
Found at i:25805897 original size:44 final size:44
Alignment explanation
Indices: 25805840--25806392 Score: 682
Period size: 44 Copynumber: 12.6 Consensus size: 44
25805830 CCAGCCTTGC
25805840 CTCCCTGACCAGCAGTGGAATAGG-CTGAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTC-GAAGATTGTAAGTCCTAT
* * * *
25805884 CTACCTGATCAGCAGTGGAATA-GACTGAAGATTGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTC-GAAGATTGTAAGTCCTAT
* * * *
25805928 CTCCCTGACTAGCAGTGGAATAGGTTGAAGATTGCAAGTTCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* *
25805972 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * *
25806016 CTCCCTGACCAGCAGTGGAATAGGTCAAAGATGGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * * *
25806060 CTCCCTGAACAGTAGTGGAATAGGTCGAAGATTGTAAGTCATAG
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
** * * *
25806104 CTCCCTGAATAGCAGTGAAATAGGTCGAAGATGGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
** * * *
25806148 CTCCCTGAAAAGTAGTGGAATAGATCGAAGATTGTAAGTCCTAG
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * *
25806192 CTCCCTGAACAGCAGTGGAATAGGTCGAAGATGGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * *
25806236 CTCCCTGAACAGCAGTAGAATAGGTCAAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
*
25806280 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* ** * *
25806324 CTCCCTGACCAGCAATGGAATAATTTGAAGATTGT-AGACCTTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCC-TAT
* *
25806368 CT-CCTGAGCAGCAGTGGAGTAGGTC
1 CTCCCTGACCAGCAGTGGAATAGGTC
25806393 AAAAATTACA
Statistics
Matches: 443, Mismatches: 63, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
43 22 0.05
44 420 0.95
45 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
Found at i:25817963 original size:16 final size:18
Alignment explanation
Indices: 25817928--25817965 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25817918 ATTCTTATTT
*
25817928 AAATAAAATATAGTAGTA
1 AAATAAAATATAGAAGTA
25817946 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
25817962 AAAT
1 AAAT
25817966 CTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:25818392 original size:15 final size:17
Alignment explanation
Indices: 25818372--25818403 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25818362 ACAAAGGAAA
25818372 AAAAT-ATT-TTTTTAT
1 AAAATAATTGTTTTTAT
25818387 AAAATAATTGTTTTTAT
1 AAAATAATTGTTTTTAT
25818404 TAATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AAAATAATTGTTTTTAT
Found at i:25823636 original size:27 final size:27
Alignment explanation
Indices: 25823567--25823639 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
25823557 GTCGGGTGGC
*
25823567 ACCTCATAGGGAGGCACCATTAAAAGT
1 ACCTCATAGGGAGGCGCCATTAAAAGT
* *
25823594 ACCTCGTAAGGAGGCGCCATTAAAAGT
1 ACCTCATAGGGAGGCGCCATTAAAAGT
*
25823621 GCCTCATAGGGAGGCGCCA
1 ACCTCATAGGGAGGCGCCA
25823640 ATGGGTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (27 bp):
ACCTCATAGGGAGGCGCCATTAAAAGT
Found at i:25823707 original size:19 final size:19
Alignment explanation
Indices: 25823644--25823914 Score: 110
Period size: 19 Copynumber: 13.3 Consensus size: 19
25823634 GCGCCAATGG
*
25823644 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
* *
25823663 GTAACTTTTTGTACGAATGTT
1 GTAA--TTTTGTATGAATATT
*
25823684 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
25823703 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
25823719 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
25823741 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
* *
25823764 ATAATGTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
25823783 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
25823806 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
25823826 GT-ATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
25823844 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
25823867 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
25823890 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
25823909 GTAATT
1 GTAATT
25823915 ATTTTATAAT
Statistics
Matches: 197, Mismatches: 24, Indels: 62
0.70 0.08 0.22
Matches are distributed among these distances:
14 2 0.01
15 6 0.03
16 4 0.02
17 7 0.04
18 5 0.03
19 65 0.33
20 17 0.09
21 21 0.11
22 8 0.04
23 45 0.23
24 3 0.02
25 4 0.02
26 2 0.01
27 8 0.04
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.55
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:25823774 original size:80 final size:80
Alignment explanation
Indices: 25823669--25823871 Score: 316
Period size: 80 Copynumber: 2.5 Consensus size: 80
25823659 TATTGTAACT
* * *
25823669 TTTTGTACGAATGTTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
*
25823734 AGTTTTTGATTAGTA
66 AGTTTTGGATTAGTA
25823749 TTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
25823814 AGTTTTGGATTAGTA
66 AGTTTTGGATTAGTA
* *
25823829 TTTTGTATGGATATTGTAATATTGTTTGTATGAATATTGTAAT
1 TTTTGTATGAATA-T-T-ATAATG-TTGTATGAATATTGTAAT
25823872 ATTGTTTGTA
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 88 0.78
81 1 0.01
82 1 0.01
83 5 0.04
84 18 0.16
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (80 bp):
TTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
AGTTTTGGATTAGTA
Found at i:25823860 original size:23 final size:23
Alignment explanation
Indices: 25823830--25823913 Score: 131
Period size: 23 Copynumber: 3.8 Consensus size: 23
25823820 GGATTAGTAT
*
25823830 TTTGTATGGATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
25823853 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
25823876 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
25823895 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
25823914 TATTTTATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
19 16 0.28
20 2 0.03
21 1 0.02
22 1 0.02
23 38 0.66
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (23 bp):
TTTGTATGAATATTGTAATATTG
Found at i:25823912 original size:42 final size:46
Alignment explanation
Indices: 25823830--25823913 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 46
25823820 GGATTAGTAT
*
25823830 TTTGTATGGATATTGTAATATTGTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
25823876 TTTGTATGAATATTGT-A-A-T-TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAAT
25823914 TATTTTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 19 0.51
43 1 0.03
44 1 0.03
45 1 0.03
46 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (46 bp):
TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
Found at i:25823988 original size:60 final size:60
Alignment explanation
Indices: 25823907--25824028 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
25823897 TGTATGAATA
* * * * *
25823907 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
25823967 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
25824027 TT
1 TT
25824029 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:25824182 original size:15 final size:16
Alignment explanation
Indices: 25824146--25824182 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
25824136 CTCATTTAAT
25824146 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
25824162 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
25824177 TTTTAT
1 TTTTAT
25824183 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:25831239 original size:6 final size:6
Alignment explanation
Indices: 25831228--25831300 Score: 56
Period size: 6 Copynumber: 11.2 Consensus size: 6
25831218 TATTTCTCCC
* * * *
25831228 TATTTT TATTTT TATTTT TATTTT CATTTT CATTTAT ATAAACTCT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTT-T -T--ATTTT TATTTT
25831280 TATTATT TATTGTT TATTTT T
1 TATT-TT TATT-TT TATTTT T
25831301 GTAAAATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
6 38 0.69
7 13 0.24
8 1 0.02
9 1 0.02
10 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (6 bp):
TATTTT
Found at i:25832453 original size:15 final size:15
Alignment explanation
Indices: 25832433--25832464 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25832423 AATTTCACTA
*
25832433 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
25832448 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
25832463 TT
1 TT
25832465 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:25833640 original size:15 final size:15
Alignment explanation
Indices: 25833622--25833651 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25833612 ATTAATTTTG
25833622 ATCAAGTAAAATTAA
1 ATCAAGTAAAATTAA
*
25833637 ATCAATTAAAATTAA
1 ATCAAGTAAAATTAA
25833652 TATGATATTT
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:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
ATCAAGTAAAATTAA
Found at i:25834091 original size:25 final size:24
Alignment explanation
Indices: 25834048--25834166 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 24
25834038 TGATTTCAGA
*
25834048 TTAATTATTTCAAAATTAATATTATT
1 TTAA-TATTT-AATATTAATATTATT
*
25834074 TTAATAGTTTAATATTAA-ATTTAGT
1 TTAATA-TTTAATATTAATA-TTATT
* *
25834099 TTAATATTT-ATCTTAATAATATT
1 TTAATATTTAATATTAATATTATT
* *
25834122 TTATTAATTTAATATTAAAGTGATTATC
1 TTAAT-ATTTAATATT-AA-T-ATTATT
*
25834150 TTAATATTAAAT-TTAAT
1 TTAATATTTAATATTAAT
25834167 TTAATGTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
23 13 0.18
24 10 0.14
25 25 0.34
26 11 0.15
27 7 0.09
28 8 0.11
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (24 bp):
TTAATATTTAATATTAATATTATT
Found at i:25836023 original size:15 final size:15
Alignment explanation
Indices: 25836003--25836033 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25835993 GATTCACAAA
25836003 CTAATTGAATGTAAT
1 CTAATTGAATGTAAT
25836018 CTAATTGAATGTAAT
1 CTAATTGAATGTAAT
25836033 C
1 C
25836034 ATAAGACCCC
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:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (15 bp):
CTAATTGAATGTAAT
Found at i:25841533 original size:10 final size:11
Alignment explanation
Indices: 25841521--25841556 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
25841511 TTATTTTTAA
*
25841521 TTTTAAAATAT
1 TTTTAAAATAC
25841532 TTTTAAAATA-
1 TTTTAAAATAC
25841542 TTTTAAAATAC
1 TTTTAAAATAC
25841553 TTTT
1 TTTT
25841557 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:25841535 original size:11 final size:11
Alignment explanation
Indices: 25841521--25841557 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
25841511 TTATTTTTAA
25841521 TTTTAAAATAT
1 TTTTAAAATAT
25841532 TTTTAAAATA-
1 TTTTAAAATAT
25841542 TTTTAAAATACT
1 TTTTAAAATA-T
25841554 TTTT
1 TTTT
25841558 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 10 0.42
12 4 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:25841543 original size:28 final size:28
Alignment explanation
Indices: 25841490--25841545 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
25841480 AATTTTAAAA
***
25841490 TAATTTTAAAATACTTTTTTTTTATTTT
1 TAATTTTAAAATACTTTTTAAATATTTT
25841518 TAATTTTAAAATA-TTTTTAAAATATTTT
1 TAATTTTAAAATACTTTTT-AAATATTTT
25841546 AAAATACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TAATTTTAAAATACTTTTTAAATATTTT
Found at i:25841546 original size:21 final size:21
Alignment explanation
Indices: 25841519--25841572 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
25841509 TTTTATTTTT
25841519 AATTTTAAAATA-TTTTTAAA
1 AATTTTAAAATACTTTTTAAA
**
25841539 ATATTTTAAAATACTTTTTTTA
1 A-ATTTTAAAATACTTTTTAAA
25841561 AATTTTAAAATA
1 AATTTTAAAATA
25841573 AATTTTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 22 0.73
22 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTAAAATACTTTTTAAA
Found at i:25841578 original size:21 final size:20
Alignment explanation
Indices: 25841514--25841579 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
25841504 TTTTTTTTTA
25841514 TTTTT-AATTTTAAAAT-AT
1 TTTTTAAATTTTAAAATAAT
* *
25841532 TTTTAAAATATTTTAAAATACTT
1 TTTT-TAA-ATTTTAAAATA-AT
25841555 TTTTTAAATTTTAAAATAAAT
1 TTTTTAAATTTTAAAAT-AAT
25841576 TTTT
1 TTTT
25841580 GGTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 4 0.11
20 1 0.03
21 25 0.66
22 3 0.08
23 5 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAAATTTTAAAATAAT
Found at i:25846099 original size:28 final size:29
Alignment explanation
Indices: 25846032--25846100 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
25846022 CGCTTAATCA
** * **
25846032 GCCTATTTCCCTAATTAATTTTAAAATCG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
**
25846061 GCCTAAAGGCCTAATTAA-TTAAAAAAAG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
25846089 GCCTATTGGCCT
1 GCCTATTGGCCT
25846101 TATTTTGCCA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (29 bp):
GCCTATTGGCCTAATTAATTTAAAAAAAG
Found at i:25846933 original size:17 final size:16
Alignment explanation
Indices: 25846899--25846932 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25846889 AATTTTAAAA
25846899 TTGTTTAAAAAACTTT
1 TTGTTTAAAAAACTTT
25846915 TTGTTTAAAAAACTTT
1 TTGTTTAAAAAACTTT
25846931 TT
1 TT
25846933 TTAAGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTGTTTAAAAAACTTT
Found at i:25849559 original size:27 final size:27
Alignment explanation
Indices: 25849529--25849727 Score: 211
Period size: 27 Copynumber: 7.1 Consensus size: 27
25849519 AGGCTATCCC
* * *
25849529 TTCATATTTCACCATAAAGGTTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* *
25849556 TTCATATTTCGCCAGAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
25849583 TTCATGA-TTCGCCACAAAGGCTTTTCT
1 TTCAT-ATTTCGCCACAAAGGCTTTTCT
*
25849610 TTCATGTTTCGCCACAAAGGCACAAAGGCTTTTCT
1 TTCATATTTCG---C-----CACAAAGGCTTTTCT
*
25849645 TTCATGTTTCGCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* *
25849672 TTTATATTTCGCCACAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
**
25849699 TTCATATTTTTCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
25849726 TT
1 TT
25849728 TATGACATGT
Statistics
Matches: 148, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
27 119 0.80
28 1 0.01
30 1 0.01
32 1 0.01
35 26 0.18
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.42
Consensus pattern (27 bp):
TTCATATTTCGCCACAAAGGCTTTTCT
Found at i:25849641 original size:35 final size:35
Alignment explanation
Indices: 25849595--25849665 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
25849585 CATGATTCGC
25849595 CACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGG
1 CACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGG
25849630 CACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGG
1 CACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGG
25849665 C
1 C
25849666 TTTTCTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (35 bp):
CACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGG
Found at i:25849673 original size:62 final size:62
Alignment explanation
Indices: 25849571--25849690 Score: 204
Period size: 62 Copynumber: 1.9 Consensus size: 62
25849561 ATTTCGCCAG
*
25849571 AAAGACTTTTCTTTCATGATTCGCCACAAAGGCTTTTCTTTCATGTTTCGCCACAAAGGCAC
1 AAAGACTTTTCTTTCATGATTCGCCACAAAGGCTTTTCTTTCATATTTCGCCACAAAGGCAC
* * *
25849633 AAAGGCTTTTCTTTCATGTTTCGCCACAAAGGCTTTTCTTTTATATTTCGCCACAAAG
1 AAAGACTTTTCTTTCATGATTCGCCACAAAGGCTTTTCTTTCATATTTCGCCACAAAG
25849691 ACTTTTCTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (62 bp):
AAAGACTTTTCTTTCATGATTCGCCACAAAGGCTTTTCTTTCATATTTCGCCACAAAGGCAC
Found at i:25849696 original size:89 final size:89
Alignment explanation
Indices: 25849544--25849719 Score: 255
Period size: 89 Copynumber: 2.0 Consensus size: 89
25849534 ATTTCACCAT
* * *
25849544 AAAGGTTTTTCTTTCATATTTCGCCAGAAAGACTTTTCTTTCATGATTCGCCACAAAGGCTTTTC
1 AAAGGCTTTTCTTTCATATTTCGCCACAAAGACTTTTCTTTCATGATTCGCCACAAAGACTTTTC
*
25849609 TTTCATGTTTCGCCACAAAGGCAC
66 TTTCATATTTCGCCACAAAGGCAC
* * *
25849633 AAAGGCTTTTCTTTCATGTTTCGCCACAAAGGCTTTTCTTTTAT-ATTTCGCCACAAAGACTTTT
1 AAAGGCTTTTCTTTCATATTTCGCCACAAAGACTTTTCTTTCATGA-TTCGCCACAAAGACTTTT
**
25849697 CTTTCATATTTTTCCACAAAGGC
65 CTTTCATATTTCGCCACAAAGGC
25849720 TTTTCTTTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 1 0.01
89 76 0.99
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.39
Consensus pattern (89 bp):
AAAGGCTTTTCTTTCATATTTCGCCACAAAGACTTTTCTTTCATGATTCGCCACAAAGACTTTTC
TTTCATATTTCGCCACAAAGGCAC
Found at i:25852109 original size:38 final size:38
Alignment explanation
Indices: 25852012--25852121 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 38
25852002 TGGTGTATTA
* * *
25852012 TATCGGGCCTTGAGCCTAGCAAGCCTCGTGTCAGTGACT
1 TATCGGG-CTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
*
25852051 TATCGGGCTTTGAGCCTAGCAGGCCTCGTGCCGGTG-TT
1 TATCGGGC-TTGAGCCTAGCAGGCCTCGTGCCGGTGACT
* *
25852089 TATCGGGCTTGATGCTTAGCAGGCTTCGTGCCG
1 TATCGGGCTTGA-GCCTAGCAGGCCTCGTGCCG
25852122 CTTTAACAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
37 4 0.06
38 28 0.44
39 31 0.49
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (38 bp):
TATCGGGCTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
Found at i:25852815 original size:54 final size:54
Alignment explanation
Indices: 25852716--25852819 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
25852706 ATTAAGTTGA
* * **
25852716 ACACGGTCTAGCACACGGCCTACGATACGATCGTGTGAGGGTATTTTGAATGTT
1 ACACGGGCTAGCACACGGCCTACGATACGATCATGTGAAAGTATTTTGAATGTT
* ** *
25852770 ACACGGGCTAGCACACGGTCTGTGATACGATCATGTGAAATTATTTTGAA
1 ACACGGGCTAGCACACGGCCTACGATACGATCATGTGAAAGTATTTTGAA
25852820 GGGTACATGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (54 bp):
ACACGGGCTAGCACACGGCCTACGATACGATCATGTGAAAGTATTTTGAATGTT
Found at i:25875399 original size:36 final size:32
Alignment explanation
Indices: 25875332--25875396 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
25875322 ATATATTAAG
25875332 CCATCAACGAAGTAGAATTAATTACTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
*
25875364 CCATCAACGAAGTAGAATTAATTATTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
25875396 C
1 C
25875397 TTTTTCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (32 bp):
CCATCAACGAAGTAGAATTAATTACTCTCTTT
Found at i:25882290 original size:66 final size:68
Alignment explanation
Indices: 25882213--25882344 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 68
25882203 GTGCTATCCA
*
25882213 AAAAGCGCCGCTAATGCTTGAC-TTTTGCGGC-GTTTCTAGAAAA-CGCCACTAATGTCTCTAAA
1 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTA-AAAAGCGCCACTAATGTCTCTAAA
25882275 GCTC
65 GCTC
* * *
25882279 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCATTTTCTAAAAAGTGCTACTAATGTCTCTAAAG
1 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTAAAAAGCGCCACTAATGTCTCTAAAG
25882344 C
66 C
25882345 GAAAAACAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 21 0.36
67 13 0.22
68 25 0.42
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (68 bp):
AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTAAAAAGCGCCACTAATGTCTCTAAAG
CTC
Found at i:25882957 original size:13 final size:13
Alignment explanation
Indices: 25882937--25882971 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25882927 AGTTCTTCAT
25882937 TACTTTTGAGAAG
1 TACTTTTGAGAAG
* *
25882950 TGCTTTTGAGAAT
1 TACTTTTGAGAAG
25882963 TACTTTTGA
1 TACTTTTGA
25882972 AGAATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (13 bp):
TACTTTTGAGAAG
Found at i:25891474 original size:13 final size:13
Alignment explanation
Indices: 25891458--25891497 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
25891448 TTTAAATCAA
25891458 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
25891471 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
25891484 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25891497 A
1 A
25891498 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25895987 original size:37 final size:37
Alignment explanation
Indices: 25895937--25896021 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
25895927 ATCAGTGACA
25895937 AGTGATAAGTGGTAG-TTCTAGCTACACTTATCTGATC
1 AGTGATAAGTGGTAGCTT-TAGCTACACTTATCTGATC
*
25895974 AGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATC
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* *
25896011 GGTGACAAGTG
1 AGTGATAAGTG
25896022 ACAAGTGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 42 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (37 bp):
AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:25896050 original size:51 final size:51
Alignment explanation
Indices: 25895974--25896083 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
25895964 TTATCTGATC
* *
25895974 AGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCGGTGACAAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
25896025 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
25896076 AGTGATAA
1 AGTGATAA
25896084 ATGTGATCCG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:25899043 original size:16 final size:17
Alignment explanation
Indices: 25899014--25899048 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
25899004 AGCATATTTG
25899014 ATAAAAATAATTTAATC
1 ATAAAAATAATTTAATC
*
25899031 ATAAAAA-ATTTTAATC
1 ATAAAAATAATTTAATC
25899047 AT
1 AT
25899049 CCAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAAATAATTTAATC
Found at i:25908172 original size:25 final size:25
Alignment explanation
Indices: 25908138--25908186 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
25908128 AGTAACATCA
*
25908138 CTCAAAGTAAATAGCATCGTCCTAT
1 CTCAAAGTAAAGAGCATCGTCCTAT
25908163 CTCAAAGTAAAGAGCATCGTCCTA
1 CTCAAAGTAAAGAGCATCGTCCTA
25908187 AGGTGATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (25 bp):
CTCAAAGTAAAGAGCATCGTCCTAT
Found at i:25913376 original size:13 final size:15
Alignment explanation
Indices: 25913348--25913388 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
25913338 AACAGGGAGA
*
25913348 AAAAGAAAGA-AAAG
1 AAAAGAAGGAGAAAG
25913362 AAAA-AAGG-GAAAG
1 AAAAGAAGGAGAAAG
25913375 AAAAGAAGGAGAAA
1 AAAAGAAGGAGAAA
25913389 TTAGGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 11 0.48
14 8 0.35
15 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAGAAGGAGAAAG
Found at i:25914304 original size:41 final size:40
Alignment explanation
Indices: 25914259--25914366 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 40
25914249 CTTCGAGTTG
* **
25914259 ATGAGACACTAGTTGTCAAATTATTACTTCGGGTATATTCA
1 ATGAGACACTAGGTGTCAAATTATTACTTC-GGTATAGGCA
* * * * *
25914300 ATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGGCG
1 ATGAGACACTAGGTGTCAAATTATTACTTCGGTATAGGCA
*
25914337 ATGAGACACTAGGTGTCAAGTTATTACTTC
1 ATGAGACACTAGGTGTCAAATTATTACTTC
25914367 AAATTATCCG
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
37 19 0.37
38 9 0.17
39 2 0.04
40 10 0.19
41 12 0.23
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
ATGAGACACTAGGTGTCAAATTATTACTTCGGTATAGGCA
Found at i:25915758 original size:14 final size:14
Alignment explanation
Indices: 25915739--25915837 Score: 55
Period size: 13 Copynumber: 7.4 Consensus size: 14
25915729 GGGTGTTACA
25915739 ATATAACTATTTCC
1 ATATAACTATTTCC
*
25915753 ATATAAC-AGATT-C
1 ATATAACTA-TTTCC
* *
25915766 ATATAACCA-TTCT
1 ATATAACTATTTCC
* * *
25915779 GTATATCTATTTAC
1 ATATAACTATTTCC
* *
25915793 TTATAACTAATT-C
1 ATATAACTATTTCC
*
25915806 ATATAACCA-TTCC
1 ATATAACTATTTCC
* *
25915819 GTATATCTATTTCC
1 ATATAACTATTTCC
25915833 ATATA
1 ATATA
25915838 GCTGATTCAT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
12 4 0.06
13 30 0.48
14 29 0.46
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATAACTATTTCC
Done.