Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 277 of 335
Found at i:83941858 original size:18 final size:17
Alignment explanation
Indices: 83941826--83941859 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83941816 TACAAAAATC
*
83941826 TTTTGTTGTATGATTTT
1 TTTTGTTATATGATTTT
83941843 TTTTGTTATGATGATTT
1 TTTTGTTAT-ATGATTT
83941860 AAAATAGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.68
Consensus pattern (17 bp):
TTTTGTTATATGATTTT
Found at i:83944334 original size:10 final size:9
Alignment explanation
Indices: 83944317--83944357 Score: 57
Period size: 10 Copynumber: 4.4 Consensus size: 9
83944307 GAATCAAAAG
83944317 TTTTTTCTT
1 TTTTTTCTT
83944326 TTCTTTTC-T
1 TT-TTTTCTT
83944335 TTTTTTCTT
1 TTTTTTCTT
83944344 TTTTTCTCTT
1 TTTTT-TCTT
83944354 TTTT
1 TTTT
83944358 GTTTTTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.17
9 11 0.38
10 13 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:83944340 original size:18 final size:18
Alignment explanation
Indices: 83944317--83944357 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
83944307 GAATCAAAAG
83944317 TTTTTTCTTTTCTTT-TCT
1 TTTTTTCTTTT-TTTCTCT
83944335 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTTTTTTTCTCT
83944353 TTTTT
1 TTTTT
83944358 GTTTTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCT
Found at i:83944342 original size:8 final size:8
Alignment explanation
Indices: 83944317--83944363 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
83944307 GAATCAAAAG
83944317 TTTTTTCTT
1 TTTTTTC-T
83944326 TTCTTTTCT
1 TT-TTTTCT
83944335 TTTTTTCT
1 TTTTTTCT
83944343 TTTTTTCT
1 TTTTTTCT
*
83944351 CTTTTTTGT
1 -TTTTTTCT
83944360 TTTT
1 TTTT
83944364 ACTTTTTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
8 18 0.51
9 12 0.34
10 5 0.14
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:83944363 original size:18 final size:16
Alignment explanation
Indices: 83944317--83944370 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
83944307 GAATCAAAAG
*
83944317 TTTTTTCTTTTCTTTTC
1 TTTTTT-TTTTTTTTTC
*
83944334 TTTTTTTCTTTTTTTC
1 TTTTTTTTTTTTTTTC
* * *
83944350 TCTTTTTTGTTTTTAC
1 TTTTTTTTTTTTTTTC
83944366 TTTTT
1 TTTTT
83944371 CCTCTTTCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTC
Found at i:83945164 original size:62 final size:62
Alignment explanation
Indices: 83945055--83945182 Score: 152
Period size: 62 Copynumber: 2.1 Consensus size: 62
83945045 GTACAGGGTT
* * *
83945055 CACATGGCCAAAGACAAGGGCATGTGCCCAGGCAGTGTAGCTCACTGTTTGTACTT-AAGAAC
1 CACACGGCCAAAGACAAGGGCATGTGCCCAGGCAGTATAACTCACTGTTTGTACTTGAA-AAC
* * * * *
83945117 CACACGGCCAAGGACACGGGCGTGTGCCTAGGTC-GTATAACTCACTGTTTGTGCTTGAAAAC
1 CACACGGCCAAAGACAAGGGCATGTGCCCAGG-CAGTATAACTCACTGTTTGTACTTGAAAAC
83945179 CACA
1 CACA
83945183 GGTCTTATGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 53 0.95
63 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (62 bp):
CACACGGCCAAAGACAAGGGCATGTGCCCAGGCAGTATAACTCACTGTTTGTACTTGAAAAC
Found at i:83947033 original size:3 final size:3
Alignment explanation
Indices: 83946950--83947095 Score: 127
Period size: 3 Copynumber: 51.3 Consensus size: 3
83946940 TTTTATTTAG
83946950 ATT ATAT ATAT ATT A-T ATT A-T ATT A-T ATT A-T ATT A-T ATT A-T
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
83946991 ATT A-T ATT A-T ATT A-T ATT A-T ATA ATT GATT ATT ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* * *
83947033 AATT GTT ATG GTT -TT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
83947077 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
83947096 AATAAATTAA
Statistics
Matches: 119, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
2 24 0.20
3 82 0.69
4 13 0.11
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:83947385 original size:32 final size:31
Alignment explanation
Indices: 83947345--83947406 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
83947335 ACAATTATAA
83947345 TATTTTATT-TAAATT-AGTAGATATTTATTAT
1 TATTTTATTAT-AATTCAG-AGATATTTATTAT
83947376 TATTATTATTATAATTCAGAGATATTTATTA
1 TATT-TTATTATAATTCAGAGATATTTATTA
83947407 ATTAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 4 0.14
32 21 0.75
33 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (31 bp):
TATTTTATTATAATTCAGAGATATTTATTAT
Found at i:83947604 original size:23 final size:23
Alignment explanation
Indices: 83947569--83947613 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
83947559 TATAAATTAA
*
83947569 ATAAAGTAAAAAAAAAAAAGAAG
1 ATAAAGCAAAAAAAAAAAAGAAG
* * *
83947592 ATAAAGCATAAAATAAATAGAA
1 ATAAAGCAAAAAAAAAAAAGAA
83947614 ACTAAACAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.13
Consensus pattern (23 bp):
ATAAAGCAAAAAAAAAAAAGAAG
Found at i:83951722 original size:25 final size:25
Alignment explanation
Indices: 83951598--83951713 Score: 187
Period size: 25 Copynumber: 4.6 Consensus size: 25
83951588 CATATATATT
* *
83951598 CGCACACATAGTGCCATAAAATTTC
1 CGCACACTTAGTGCCATACAATTTC
*
83951623 CGTACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
*
83951648 CGCACACTTAGTGCCATACAATTTT
1 CGCACACTTAGTGCCATACAATTTC
*
83951673 CGCACACTTAGTGCCATATAATTTC
1 CGCACACTTAGTGCCATACAATTTC
83951698 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
83951714 AGTCATTTCG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 84 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:83959086 original size:48 final size:49
Alignment explanation
Indices: 83958976--83959102 Score: 161
Period size: 48 Copynumber: 2.6 Consensus size: 49
83958966 TACACACCAA
* * *
83958976 TGCCATAT-ATATT-CGCACACATAGTACCATAAAATTTCCGTACATTTAG
1 TGCCATATAAT-TTCCGCACACTTAGTGCCATAAAATTTCCG-ACACTTAG
* * *
83959025 TGCCATACAATTTCCGCACACTTAGTGCCATACAATTTTC-ACACTTAG
1 TGCCATATAATTTCCGCACACTTAGTGCCATAAAATTTCCGACACTTAG
83959073 TGCCATATAATTTCCGCACACTTAGTGCCA
1 TGCCATATAATTTCCGCACACTTAGTGCCA
83959103 AGTCATTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 36 0.52
49 9 0.13
50 24 0.35
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (49 bp):
TGCCATATAATTTCCGCACACTTAGTGCCATAAAATTTCCGACACTTAG
Found at i:83959111 original size:25 final size:25
Alignment explanation
Indices: 83958989--83959102 Score: 151
Period size: 25 Copynumber: 4.6 Consensus size: 25
83958979 CATATATATT
* * *
83958989 CGCACACATAGTACCATAAAATTTC
1 CGCACACTTAGTGCCATACAATTTC
* *
83959014 CGTACATTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
83959039 CGCACACTTAGTGCCATACAATTT-
1 CGCACACTTAGTGCCATACAATTTC
* *
83959063 -TCACACTTAGTGCCATATAATTTC
1 CGCACACTTAGTGCCATACAATTTC
83959087 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
83959103 AGTCATTTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 21 0.27
25 56 0.73
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:83964813 original size:3 final size:3
Alignment explanation
Indices: 83964780--83964869 Score: 89
Period size: 3 Copynumber: 30.7 Consensus size: 3
83964770 TATATATATA
* * * **
83964780 TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
83964825 T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
83964870 AATAAATTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.11
3 58 0.81
4 6 0.08
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:83965155 original size:3 final size:3
Alignment explanation
Indices: 83965147--83965188 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
83965137 TAGTAGATAT
83965147 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83965189 AGAGATATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:83966538 original size:45 final size:45
Alignment explanation
Indices: 83966471--83966566 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
83966461 CTGACTATCA
*
83966471 TTACTGTTACCGATTCGACACTTTCTATGTCGAATACTGTTACCG
1 TTACTGTTACAGATTCGACACTTTCTATGTCGAATACTGTTACCG
* * *
83966516 TTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACCG
1 TTACTGTTACAGATTCGA-CACTTTCTATGTCGAATACTGTTACCG
83966561 TTACTG
1 TTACTG
83966567 CTACTGCTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (45 bp):
TTACTGTTACAGATTCGACACTTTCTATGTCGAATACTGTTACCG
Found at i:83966577 original size:18 final size:18
Alignment explanation
Indices: 83966550--83966584 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
83966540 GTGTGTTGAA
*
83966550 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
83966568 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
83966585 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:83969646 original size:39 final size:40
Alignment explanation
Indices: 83969455--83969619 Score: 296
Period size: 40 Copynumber: 4.2 Consensus size: 40
83969445 TTATTTGATG
* *
83969455 TGGAATTGTATCCGAGCTTAAAGACCC-CAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
83969494 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
83969534 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
83969574 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
83969614 TGGAAT
1 TGGAAT
83969620 GACATCAGTG
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 26 0.21
40 95 0.79
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:83974613 original size:20 final size:20
Alignment explanation
Indices: 83974588--83974629 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
83974578 CTAATTTCTT
*
83974588 TTATTTGTTTT-TATTTTATC
1 TTATTTATTTTCTATTTT-TC
83974608 TTATTTATTTTCTATTTTTC
1 TTATTTATTTTCTATTTTTC
83974628 TT
1 TT
83974630 TTATTCTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTTATTTTCTATTTTTC
Found at i:83981291 original size:31 final size:28
Alignment explanation
Indices: 83981256--83981395 Score: 95
Period size: 29 Copynumber: 4.7 Consensus size: 28
83981246 TTAATATAAT
83981256 ATTTGGTACCTAAATTTGATAATTTTTCCTA
1 ATTTGGTACCTAAATTT-AT--TTTTTCCTA
* **
83981287 ATTTGGAACCTAAACTTT-TTTTTGGCTCA
1 ATTTGGTACCTAAA-TTTATTTTTTCCT-A
* * *
83981316 ATTTGGTACTTGAACTTAATTTTTTTTCCTA
1 ATTTGGTACCT-AAATT--TATTTTTTCCTA
** *
83981347 ATTTGGTACCTAAACTTT-TTTTGGGCCCA
1 ATTTGGTACCTAAA-TTTATTTT-TTCCTA
83981376 ATTTGGTACCTAAATTTATT
1 ATTTGGTACCTAAATTTATT
83981396 AAACGTTATA
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
28 13 0.15
29 32 0.37
30 5 0.06
31 27 0.31
32 10 0.11
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (28 bp):
ATTTGGTACCTAAATTTATTTTTTCCTA
Found at i:83981331 original size:29 final size:28
Alignment explanation
Indices: 83981286--83981389 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 28
83981276 AATTTTTCCT
*
83981286 AATTTGGAACCTAAACTTTTTTTTGGCTC
1 AATTTGGTACCTAAACTTTTTTTTGGC-C
* * **
83981315 AATTTGGTACTTGAACTTAATTTTTTTTCC
1 AATTTGGTACCTAAACTT--TTTTTTGGCC
*
83981345 TAATTTGGTACCTAAACTTTTTTTGGGCCC
1 -AATTTGGTACCTAAACTTTTTTTTGG-CC
83981375 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
83981390 TTTATTAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 35 0.57
30 3 0.05
31 23 0.38
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTTTTTTTGGCC
Found at i:83981838 original size:57 final size:57
Alignment explanation
Indices: 83981754--83981861 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 57
83981744 GAATCAAACA
* * *
83981754 AAAAAATTAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGCCCT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
* * * * *
83981811 AAAAGATTAAGTACCAACTTAAGAAAAAGTGTTAAGTTTAGATACCAAATT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATT
83981862 AGGAAAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (57 bp):
AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
Found at i:83983696 original size:42 final size:42
Alignment explanation
Indices: 83983639--83983720 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
83983629 ATATATATAT
83983639 ATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAA
1 ATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAA
* * * * *
83983681 ATATATAGCTGAAGCTATCTTGATTTTGCACATTAAGTGC
1 ATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGC
83983721 CCATAATTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (42 bp):
ATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAA
Found at i:83986150 original size:30 final size:29
Alignment explanation
Indices: 83986056--83986157 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
83986046 TATAGTGAAT
* * *
83986056 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
83986085 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
83986113 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
83986143 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
83986158 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:83994010 original size:30 final size:29
Alignment explanation
Indices: 83993916--83994017 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
83993906 TATAGTGAAT
* * *
83993916 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
83993945 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
83993973 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
83994003 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
83994018 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:83998671 original size:3 final size:3
Alignment explanation
Indices: 83998665--83998705 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
83998655 TTTTGCCCAA
83998665 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
83998706 CTAAAACCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:83999295 original size:40 final size:40
Alignment explanation
Indices: 83999251--83999330 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
83999241 GAAATGAGGG
83999251 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
*
83999291 AAAAGGAAATAACAAAAATTGAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
83999331 TGTTTAGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.23
Consensus pattern (40 bp):
AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
Found at i:84002137 original size:21 final size:21
Alignment explanation
Indices: 84002113--84002155 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
84002103 TTTTAGGGAG
84002113 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
84002134 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
84002155 A
1 A
84002156 CATTATCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTGTACTAATAGCTTGCT
Found at i:84003656 original size:13 final size:13
Alignment explanation
Indices: 84003638--84003667 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
84003628 ACATTGCAGT
84003638 TGAAAAATGATGG
1 TGAAAAATGATGG
84003651 TGAAAAATGATGG
1 TGAAAAATGATGG
84003664 TGAA
1 TGAA
84003668 GTTTTAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (13 bp):
TGAAAAATGATGG
Found at i:84005014 original size:31 final size:31
Alignment explanation
Indices: 84004949--84005015 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
84004939 TTAATCTATA
* * * *
84004949 AAATTTGACTCTTTTTGAATAGTTGATGATC
1 AAATTTGACTCTTTTTGAAAAATTAATGACC
84004980 AAATTTGACTCTTTTT-ATAAAATTAATGACC
1 AAATTTGACTCTTTTTGA-AAAATTAATGACC
84005011 AAATT
1 AAATT
84005016 AACAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (31 bp):
AAATTTGACTCTTTTTGAAAAATTAATGACC
Found at i:84005928 original size:2 final size:2
Alignment explanation
Indices: 84005921--84005945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84005911 GAATTGTGTT
84005921 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
84005946 TTCTTGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84006361 original size:18 final size:18
Alignment explanation
Indices: 84006338--84006383 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
84006328 ACCAAAACAG
**
84006338 TAAAAAAAACTCTGAAAA
1 TAAAAAAAAAGCTGAAAA
84006356 TAAAAAAAAAGCTGAAAA
1 TAAAAAAAAAGCTGAAAA
84006374 -ACAAAAAAAA
1 TA-AAAAAAAA
84006384 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.74, C:0.09, G:0.07, T:0.11
Consensus pattern (18 bp):
TAAAAAAAAAGCTGAAAA
Found at i:84006384 original size:19 final size:18
Alignment explanation
Indices: 84006339--84006384 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
84006329 CCAAAACAGT
** *
84006339 AAAAAAAACTCTGAAAAT
1 AAAAAAAAAGCTGAAAAC
84006357 AAAAAAAAAGCTGAAAAAC
1 AAAAAAAAAGCTG-AAAAC
84006376 AAAAAAAAA
1 AAAAAAAAA
84006385 AAATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.76, C:0.09, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAGCTGAAAAC
Found at i:84006589 original size:15 final size:15
Alignment explanation
Indices: 84006532--84006594 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
84006522 ATTCAGCAGC
*
84006532 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAA-AG
*
84006548 AAGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
84006563 AAGAGAAGGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
84006581 AAGGAGAAGAAAAA
1 AAGGAGAAGAAAAA
84006595 AAGAAGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
15 19 0.49
16 7 0.18
17 2 0.05
18 5 0.13
19 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:84011073 original size:72 final size:72
Alignment explanation
Indices: 84010956--84011096 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 72
84010946 GCCCCCCGAT
* *
84010956 GAGCCCGAGAAATTGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAG-CGGAAAGTGAAT
1 GAGCCCGAGAAATAGTCATTGCCCACAAAATCCGGATGATAAGAAGTATCAGTC-GAAAGTGAAT
84011020 GCGATGAC
65 GCGATGAC
* * *
84011028 GAGCCCG-GAAAATAGTCATTGCCTACCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAAT
1 GAGCCCGAG-AAATAGTCATTGCCCACAAAATCCGGATGATAAGAAGTATCAGTCGAAAGTGAAT
84011092 GCGAT
65 GCGAT
84011097 CGCTCGGACT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 1 0.02
72 60 0.97
73 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTGCCCACAAAATCCGGATGATAAGAAGTATCAGTCGAAAGTGAATG
CGATGAC
Found at i:84013172 original size:22 final size:21
Alignment explanation
Indices: 84013147--84013188 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
84013137 TAGTACATAA
84013147 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
84013169 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
84013189 TAAAAACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:84013238 original size:15 final size:14
Alignment explanation
Indices: 84013218--84013281 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
84013208 ACCTTATTCA
84013218 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
84013233 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
84013250 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
84013263 TATTTTTT-TATAT
1 TATTTTTTCTATAT
84013276 TATTTT
1 TATTTT
84013282 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:84013341 original size:153 final size:151
Alignment explanation
Indices: 84013155--84013601 Score: 546
Period size: 153 Copynumber: 3.0 Consensus size: 151
84013145 AATGTTTTAA
* ** *
84013155 ATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAA-AACCCTGATTTTAGCACCTTATTCAT
1 ATATATTATGTAAGTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACCTTATTCGT
84013219 ATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAG
65 ATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAG
84013284 CAAAAAATGTTTCAAATGTATT
130 CAAAAAATGTTTCAAATGTATT
**
84013306 AGGTATATTATGTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTT-G-ACACTT-TG
1 A--TATATTATGTAAGTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCAC-CTTAT-
* * * * *
84013368 TCGTATTTTTTTGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATT
61 TCGTATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATT
* * *
84013433 TTAGTACATAATGTTTCAAATGTATT
126 TTAGCAAAAAATGTTTCAAATGTATT
* * *
84013459 AT-T-TCA-GT-A---TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGT
1 ATATATTATGTAAGTGTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACCTTATTCGT
*
84013517 ATTTTTTCGTATATTA-TTTTTAAAATATATTATTTTCTTATTTTA--TTTTTATATTATTTTAG
65 ATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAG
**
84013579 CAAAAAA-AATTCAAATGTATT
130 CAAAAAATGTTTCAAATGTATT
84013600 AT
1 AT
84013602 TAACTGTTTC
Statistics
Matches: 257, Mismatches: 30, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
141 14 0.05
142 19 0.07
143 4 0.02
144 55 0.21
145 21 0.08
146 3 0.01
147 1 0.00
148 2 0.01
149 2 0.01
150 1 0.00
151 2 0.01
152 3 0.01
153 118 0.46
154 12 0.05
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (151 bp):
ATATATTATGTAAGTGTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACCTTATTCGTA
TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAGC
AAAAAATGTTTCAAATGTATT
Found at i:84013561 original size:297 final size:294
Alignment explanation
Indices: 84013012--84013600 Score: 846
Period size: 297 Copynumber: 2.0 Consensus size: 294
84013002 GTTTTAAATG
*
84013012 TATTATGTAAGTATTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTCTTTCATATTT
1 TATTATGTAAGTATTTTTTATACTAATTTAATAAATAACACTGATTTTGACACTCTTTCATATTT
84013077 TTTCGTATCTTTTTTTTAAATATATTACTTTCGCATTATTTAATTTTAAAACCTTTATTTTAGTA
66 TTTCGTATCTTTTTTTTAAATATATTACTTTCGCATTATTTAATTTTAAAA-C-TTATTTTAGTA
* * *
84013142 CATAATGTTTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAAAACCCTGATTTTAG
129 CATAATGTTTCAAATATATTATTTAAGTATTTTAAATATTTTTTCAATAAAAACCCTGATTTTAG
84013207 CACCTTATTCATATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTT
194 CACCTTATTCATATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTA--TTTTT
**
84013272 ATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTA
257 ATATTATTTTAGCAAAAAA-AATTCAAATGTATTAGGTA
* * *
84013311 TATTATGTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACT-TTGTCGTATT
1 TATTATGTAAGTATTTTTTATACTAATTTAATAAATAACACTGATTTTGACACTCTT-TCATATT
* * * * * *
84013375 TTTTTGTATCTTATTTTTTAAAATATATTATTTTCGTA-T-TTTATTTCTTCATA-TTATTTTAG
65 TTTTCGTATCTT-TTTTTT-AAATATATTACTTTCGCATTATTTAATT-TTAAAACTTATTTTAG
* * ** *
84013437 TACATAATGTTTCAAATGTATTATTTCAGTATTTTTTATATTTTTTCAATAAATATCCCTGATTT
127 TACATAATGTTTCAAATATATTATTTAAGTATTTTAAATATTTTTTCAATAAA-AACCCTGATTT
* * *
84013502 TAGCACTTTATTCGTATTTTTTCGTATATTA-TTTTTAAAATATATTATTTTCTTATTTTATTTT
191 TAGCACCTTATTCATATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTT
84013566 TATATTATTTTAGCAAAAAAAATTCAAATGTATTA
256 TATATTATTTTAGCAAAAAAAATTCAAATGTATTA
84013601 TTAACTGTTT
Statistics
Matches: 262, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
294 13 0.05
295 24 0.09
297 83 0.32
298 41 0.16
299 74 0.28
300 11 0.04
301 16 0.06
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (294 bp):
TATTATGTAAGTATTTTTTATACTAATTTAATAAATAACACTGATTTTGACACTCTTTCATATTT
TTTCGTATCTTTTTTTTAAATATATTACTTTCGCATTATTTAATTTTAAAACTTATTTTAGTACA
TAATGTTTCAAATATATTATTTAAGTATTTTAAATATTTTTTCAATAAAAACCCTGATTTTAGCA
CCTTATTCATATTTTTTCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTATAT
TATTTTAGCAAAAAAAATTCAAATGTATTAGGTA
Found at i:84013603 original size:144 final size:144
Alignment explanation
Indices: 84012963--84013603 Score: 580
Period size: 144 Copynumber: 4.4 Consensus size: 144
84012953 ATAAGTAAAA
* * * * *
84012963 TATTTTCGTATATTATTTTTTATATTATTTTAGC-AAAATGTTTTAAATG---TATTATGTAAGT
1 TATTTTCCTATTTTA-TTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTATTATTTAAGT
* * * * * *
84013024 ATTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTCT-TTCATATTTTTTCGTATCT
65 GTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTTCGTATAT
84013087 T-TTTTTT-AAATATAT
128 TATTTTTTAAAATATAT
* * * * * * * *
84013102 TACTTTCGCATTATTTAATTTTAAAACCTTTATTTTAGTACATAATGTTTTAAA--TA-TATTAT
1 TATTTTC-C--TATTTTATTTTTATA---TTATTTTAGCA-AAAAAGTTTCAAATGTATTATTAT
** * *
84013164 TTAAGTGTTTTAAATATTTTTTTAATAAA-AACCCTGATTTTAGCACCTTATTCATATTTTTTCG
59 TTAAGTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCG
84013228 TATATTATTTTTTAAAATATAT
123 TATATTATTTTTTAAAATATAT
84013250 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATT
1 TATTTTCCTATTTTA--TTTTTATATTATTTTAGCAAAAAA-GTTTCAAATGTATTA--T-TA-T
** *
84013315 ATGTAAGTGTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTT-GTCGTATTTTT
59 -T-TAAGTGTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTT
* *
84013378 TTGTATCTTATTTTTTAAAATATAT
120 TCGTATATTATTTTTTAAAATATAT
* * * * *
84013403 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATG---TATTATTTCA
1 TATTTTCCTATTTTATTT-TT-ATATTATTTTAGCA-AAAAAGTTTCAAATGTATTATTATTTAA
* *
84013465 GTATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTCGTATA
63 GTGTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCGTATA
84013530 TTA-TTTTTAAAATATAT
127 TTATTTTTTAAAATATAT
* **
84013547 TATTTTCTTATTTTATTTTTATATTATTTTAGCAAAAAAAATTCAAATGTATTATTA
1 TATTTTCCTATTTTATTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTATTA
84013604 ACTGTTTCTT
Statistics
Matches: 411, Mismatches: 53, Indels: 71
0.77 0.10 0.13
Matches are distributed among these distances:
139 6 0.01
141 17 0.04
142 18 0.04
143 9 0.02
144 99 0.24
145 41 0.10
146 62 0.15
147 19 0.05
148 15 0.04
149 1 0.00
150 4 0.01
151 4 0.01
152 3 0.01
153 93 0.23
154 20 0.05
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (144 bp):
TATTTTCCTATTTTATTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTATTATTTAAGTG
TTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCGTATATTAT
TTTTTAAAATATAT
Found at i:84013846 original size:30 final size:31
Alignment explanation
Indices: 84013810--84013868 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
84013800 CGTATTTTTT
*
84013810 TATTTTCGGATTTTATTTTTTTA-ATTATAC
1 TATTTTCAGATTTTATTTTTTTATATTATAC
*
84013840 TATTTTCATATTTTATTTTTTTATATTAT
1 TATTTTCAGATTTTATTTTTTTATATTAT
84013869 TTTTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (31 bp):
TATTTTCAGATTTTATTTTTTTATATTATAC
Found at i:84014340 original size:19 final size:18
Alignment explanation
Indices: 84014317--84014365 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
84014307 TTACCTTTTT
*
84014317 CTTTCCTTTTTTCCTTCC
1 CTTTTCTTTTTTCCTTCC
*
84014335 CTTTTCTTCTTCTCCTTCTC
1 CTTTTCTT-TTTTCCTTC-C
*
84014355 TTTTTCTTTTT
1 CTTTTCTTTTT
84014366 CTTTTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 10 0.40
20 8 0.32
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CTTTTCTTTTTTCCTTCC
Found at i:84014418 original size:9 final size:10
Alignment explanation
Indices: 84014406--84014463 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 10
84014396 CCTCCTCTCC
84014406 TTCTT-TTCT
1 TTCTTCTTCT
84014415 TTCTTCTTCT
1 TTCTTCTTCT
*
84014425 TCTCTTCTTCCC
1 T-TCTTCTT-CT
84014437 TTCTTCTCTCT
1 TTCTTCT-TCT
84014448 TT-TTCTTC-
1 TTCTTCTTCT
84014456 TTCTTCTT
1 TTCTTCTT
84014464 TGCCGAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 9 0.21
11 16 0.38
12 3 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:84014421 original size:3 final size:3
Alignment explanation
Indices: 84014405--84014463 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
84014395 TCCTCCTCTC
*
84014405 CTT CTT -TT CTTT CTT CTT CTT C-T CTT CTT C-C CTT CTT CTCT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
*
84014449 TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
84014464 TGCCGAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
2 5 0.11
3 36 0.77
4 6 0.13
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:84014432 original size:8 final size:8
Alignment explanation
Indices: 84014400--84014463 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
84014390 CCTCCTCCTC
*
84014400 CTCTCCTT
1 CTCTTCTT
*
84014408 CTTTTCTTT
1 CTCTTC-TT
84014417 CTTCTTCTT
1 C-TCTTCTT
84014426 CTCTTCTT
1 CTCTTCTT
*
84014434 CCCTTCTT
1 CTCTTCTT
84014442 CTC-TCTT
1 CTCTTCTT
84014449 -T-TTCTT
1 CTCTTCTT
84014455 CTTCTTCTT
1 C-TCTTCTT
84014464 TGCCGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 5 0.11
7 4 0.09
8 21 0.47
9 11 0.24
10 4 0.09
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (8 bp):
CTCTTCTT
Found at i:84014455 original size:16 final size:16
Alignment explanation
Indices: 84014414--84014464 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
84014404 CCTTCTTTTC
84014414 TTTCTTCTTCTTCTCTT
1 TTTCTTCTTC-TCTCTT
*
84014431 CTTCCCTTCTTCTCTCTT
1 -TT-TCTTCTTCTCTCTT
84014449 TTTCTTCTTCT-TCTT
1 TTTCTTCTTCTCTCTT
84014464 T
1 T
84014465 GCCGAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 5 0.17
16 8 0.27
17 2 0.07
18 8 0.27
19 7 0.23
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTCTTCTCTCTT
Found at i:84017812 original size:35 final size:34
Alignment explanation
Indices: 84017746--84017882 Score: 123
Period size: 35 Copynumber: 3.9 Consensus size: 34
84017736 GTCAAAGGTG
*
84017746 ACTTTAAAAAGGTTGGGATAGATC-CGTCTAAGACA
1 ACTTT-AAAAGGTTGGGATAGA-CATGTCTAAGACA
* *
84017781 ACGTTTAAAAGGTTGGGATAGACATGCCTAAGGCA
1 AC-TTTAAAAGGTTGGGATAGACATGTCTAAGACA
* * * * * *
84017816 ACCTTATATAGGTTGAGATAAACAGGTCTAAGTCA
1 ACTTTA-AAAGGTTGGGATAGACATGTCTAAGACA
* *
84017851 ACCTTAAAAATGTTGGGATAGACATGTCTAAG
1 A-CTTTAAAAGGTTGGGATAGACATGTCTAAG
84017883 GCCATTTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
34 4 0.05
35 71 0.88
36 6 0.07
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (34 bp):
ACTTTAAAAGGTTGGGATAGACATGTCTAAGACA
Found at i:84018002 original size:6 final size:6
Alignment explanation
Indices: 84017978--84018014 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
84017968 AATACAACTA
84017978 AAAATAT AAAATAT AAAATT AAAATT AAAATT AAAAT
1 AAAAT-T AAAAT-T AAAATT AAAATT AAAATT AAAAT
84018015 AAAGGTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:84022381 original size:21 final size:21
Alignment explanation
Indices: 84022355--84022396 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
84022345 ATAATTTATC
84022355 ATCCAATCCAATTCCATTTTT
1 ATCCAATCCAATTCCATTTTT
84022376 ATCCAATCCAATTCCATTTTT
1 ATCCAATCCAATTCCATTTTT
84022397 TTTTTCTTTT
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:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (21 bp):
ATCCAATCCAATTCCATTTTT
Found at i:84023023 original size:2 final size:2
Alignment explanation
Indices: 84023016--84023050 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84023006 ATGTTTACAA
84023016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84023051 AAATTAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84024009 original size:29 final size:28
Alignment explanation
Indices: 84023969--84024023 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
84023959 TAAAAAAATT
*
84023969 ATAAAATATAATACAATAAAATAAAAAC
1 ATAAAATATAATAAAATAAAATAAAAAC
*
84023997 ATAAACTAGTAATAAAATAAAATAAAA
1 ATAAAATA-TAATAAAATAAAATAAAA
84024024 TTGGGCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (28 bp):
ATAAAATATAATAAAATAAAATAAAAAC
Found at i:84024815 original size:24 final size:25
Alignment explanation
Indices: 84024760--84024815 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
84024750 CCCAGTTGAT
*
84024760 GTGGAC-ATGTTATTTAATTGGCAT
1 GTGGACAATGTTATTTAATTGGCAC
* *
84024784 GTGGACAAT-TTATTTTATTGTCAC
1 GTGGACAATGTTATTTAATTGGCAC
84024808 GTGGACAA
1 GTGGACAA
84024816 CTCTGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (25 bp):
GTGGACAATGTTATTTAATTGGCAC
Found at i:84028573 original size:27 final size:27
Alignment explanation
Indices: 84028514--84028573 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
84028504 GGAAATTGTA
84028514 CATTTTATTTTCTTTGTTTTTTTATAT
1 CATTTTATTTTCTTTGTTTTTTTATAT
** * *
84028541 GTTTTTCATTTTTTTTG-TTTTTTATGT
1 CATTTT-ATTTTCTTTGTTTTTTTATAT
84028568 CATTTT
1 CATTTT
84028574 TTCAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.75
Consensus pattern (27 bp):
CATTTTATTTTCTTTGTTTTTTTATAT
Found at i:84030859 original size:46 final size:46
Alignment explanation
Indices: 84030807--84030973 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
84030797 TGGTTGAGCA
*
84030807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * * *
84030853 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-T--G
* *
84030898 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* *
84030946 CCCGAGCTCGTTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
84030974 TGTGACATCC
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 53 0.54
47 27 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
Found at i:84030963 original size:93 final size:93
Alignment explanation
Indices: 84030804--84030978 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
84030794 GGATGGTTGA
* * * **
84030804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
84030869 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
84030897 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
*
84030962 TGAGTCCGAGTTTGTGA
66 TGAGTCCGAGTTCGTGA
84030979 CATCCCTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:84032527 original size:29 final size:29
Alignment explanation
Indices: 84032494--84032654 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
84032484 GTGACGAGAT
84032494 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84032523 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84032552 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
84032581 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
84032610 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
84032639 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84032655 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84034931 original size:29 final size:29
Alignment explanation
Indices: 84034898--84035058 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
84034888 GTGACGAGAT
84034898 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84034927 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84034956 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
84034985 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
84035014 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
84035043 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84035059 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84047457 original size:29 final size:28
Alignment explanation
Indices: 84047424--84047524 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 28
84047414 TGTGAGATTT
* *
84047424 GCACTAAGTGTGCAAGCTTGAAATGT-ATG
1 GCACTAAGTGTGCGAG-TTTAAA-GTAATG
84047453 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTTAAAGTA-ATG
*
84047482 GCACTACGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTTAAAGTA-ATG
84047511 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
84047525 CGGTTGATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 59 0.89
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAAGTAATG
Found at i:84052090 original size:7 final size:7
Alignment explanation
Indices: 84052078--84052102 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84052068 ATATGACAAC
84052078 CATACAT
1 CATACAT
84052085 CATACAT
1 CATACAT
84052092 CATACAT
1 CATACAT
84052099 CATA
1 CATA
84052103 AGTCTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATACAT
Found at i:84052802 original size:25 final size:25
Alignment explanation
Indices: 84052740--84052802 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
84052730 ACGAGAGTTA
* *
84052740 ATCGGTAAGCTCATCTGAGCTAAAT
1 ATCGGTAAGCTCTTCCGAGCTAAAT
* * *
84052765 TTCGGTAAGCTCTTCCGAGCTGAGT
1 ATCGGTAAGCTCTTCCGAGCTAAAT
84052790 ATCGGTAAGCTCT
1 ATCGGTAAGCTCT
84052803 CACGGGCTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
ATCGGTAAGCTCTTCCGAGCTAAAT
Found at i:84055175 original size:51 final size:51
Alignment explanation
Indices: 84055120--84055231 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
84055110 TACTTCATGC
* * *
84055120 TTCATTCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAGCTTCATAT
1 TTCATCCGGAATAATTACCTTGTTACTCTAACTTCAACAAGAGCTTCATAT
* * *
84055171 TTCATCCGGAATAATTACTTTGTTACTCTAGCTTTAACAAGAGCTTCATAT
1 TTCATCCGGAATAATTACCTTGTTACTCTAACTTCAACAAGAGCTTCATAT
*
84055222 TTTATCCGGA
1 TTCATCCGGA
84055232 TAACTTAGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (51 bp):
TTCATCCGGAATAATTACCTTGTTACTCTAACTTCAACAAGAGCTTCATAT
Found at i:84060616 original size:26 final size:27
Alignment explanation
Indices: 84060587--84060637 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
84060577 TAAGGTTGAG
84060587 TTGATA-TTAAGTTAT-GAAATGTCATT
1 TTGATATTTAAGTT-TGGAAATGTCATT
84060613 TTGATATTTAAGTTTGGAAATGTCA
1 TTGATATTTAAGTTTGGAAATGTCA
84060638 CACTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (27 bp):
TTGATATTTAAGTTTGGAAATGTCATT
Found at i:84061107 original size:49 final size:49
Alignment explanation
Indices: 84061031--84061127 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
84061021 AAGATAGTTC
*
84061031 TTCAGAAGTTGAACCCTAGCCTAAAGAAAATACATAAGAATTTATGATT
1 TTCAGAAGTTGAACCCTAGCCTAAAGAAAATACACAAGAATTTATGATT
* *
84061080 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAGTTTATGAT
1 TTCAGAAGTTGAACCCTAGCCTAAAGAAAATACACAAGAATTTATGAT
84061128 GGTTCTTACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (49 bp):
TTCAGAAGTTGAACCCTAGCCTAAAGAAAATACACAAGAATTTATGATT
Found at i:84063291 original size:7 final size:7
Alignment explanation
Indices: 84063281--84063389 Score: 50
Period size: 7 Copynumber: 16.1 Consensus size: 7
84063271 CTTGAACCCG
84063281 AACCTCA
1 AACCTCA
*
84063288 AACCCCA
1 AACCTCA
*
84063295 AACCCCA
1 AACCTCA
84063302 AACCT-A
1 AACCTCA
*
84063308 AATCC-AA
1 AA-CCTCA
* *
84063315 AATCTTA
1 AACCTCA
*
84063322 AACCTTA
1 AACCTCA
*
84063329 AACATCA
1 AACCTCA
*
84063336 AA-CTCG
1 AACCTCA
*
84063342 AACCACA
1 AACCTCA
84063349 AA-CTCA
1 AACCTCA
**
84063355 AACCTTG
1 AACCTCA
*
84063362 AACCCCGA
1 AACCTC-A
84063370 AA-CTCA
1 AACCTCA
84063376 AA-CTCA
1 AACCTCA
84063382 AACCTCA
1 AACCTCA
84063389 A
1 A
84063390 GCTCAAAGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 14
0.71 0.17 0.13
Matches are distributed among these distances:
6 22 0.29
7 53 0.69
8 2 0.03
ACGTcount: A:0.46, C:0.37, G:0.03, T:0.15
Consensus pattern (7 bp):
AACCTCA
Found at i:84063351 original size:20 final size:20
Alignment explanation
Indices: 84063328--84063385 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
84063318 CTTAAACCTT
84063328 AAACATCAAACTCGAACCAC-
1 AAAC-TCAAACTCGAACCACG
* *
84063348 AAACTCAAACCTTGAACCCCG
1 AAACTCAAA-CTCGAACCACG
*
84063369 AAACTCAAACTCAAACC
1 AAACTCAAACTCGAACC
84063386 TCAAGCTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 18 0.56
21 9 0.28
ACGTcount: A:0.47, C:0.36, G:0.05, T:0.12
Consensus pattern (20 bp):
AAACTCAAACTCGAACCACG
Found at i:84063394 original size:13 final size:13
Alignment explanation
Indices: 84063328--84063396 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
84063318 CTTAAACCTT
*
84063328 AAACATCAAACTC
1 AAACCTCAAACTC
* *
84063341 GAACCACAAACTC
1 AAACCTCAAACTC
* * *
84063354 AAACCTTGAACCCC
1 AAACC-TCAAACTC
84063368 GAAA-CTCAAACTC
1 -AAACCTCAAACTC
*
84063381 AAACCTCAAGCTC
1 AAACCTCAAACTC
84063394 AAA
1 AAA
84063397 GTTTAAGATT
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
12 3 0.07
13 30 0.73
14 5 0.12
15 3 0.07
ACGTcount: A:0.46, C:0.35, G:0.06, T:0.13
Consensus pattern (13 bp):
AAACCTCAAACTC
Found at i:84063449 original size:7 final size:7
Alignment explanation
Indices: 84063435--84063516 Score: 53
Period size: 7 Copynumber: 12.1 Consensus size: 7
84063425 TTCAAAGTTC
84063435 AAGGTTT
1 AAGGTTT
*
84063442 AAGATTT
1 AAGGTTT
*
84063449 ATGGTTT
1 AAGGTTT
*
84063456 GA-GTTT
1 AAGGTTT
84063462 AA-GTTT
1 AAGGTTT
*
84063468 AGGGTTT
1 AAGGTTT
84063475 AAGGTTT
1 AAGGTTT
*
84063482 AA-ATTT
1 AAGGTTT
*
84063488 AAGGTGT
1 AAGGTTT
* *
84063495 GAGGTTC
1 AAGGTTT
**
84063502 GTGGTTT
1 AAGGTTT
84063509 AAGGTTT
1 AAGGTTT
84063516 A
1 A
84063517 GGGCTCAAGT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
6 15 0.27
7 40 0.73
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (7 bp):
AAGGTTT
Found at i:84063499 original size:20 final size:20
Alignment explanation
Indices: 84063436--84063500 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
84063426 TCAAAGTTCA
*
84063436 AGGTTTAAGATTTATGGTTTG
1 AGGTTTAA-ATTTAAGGTTTG
* * *
84063457 A-GTTTAAGTTTAGGGTTTA
1 AGGTTTAAATTTAAGGTTTG
*
84063476 AGGTTTAAATTTAAGGTGTG
1 AGGTTTAAATTTAAGGTTTG
84063496 AGGTT
1 AGGTT
84063501 CGTGGTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 10 0.28
20 25 0.69
21 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (20 bp):
AGGTTTAAATTTAAGGTTTG
Found at i:84066058 original size:45 final size:45
Alignment explanation
Indices: 84065952--84066164 Score: 214
Period size: 44 Copynumber: 4.8 Consensus size: 45
84065942 ATTGTCAAAG
* * * * *
84065952 GATGCCATAACGTCTTTCAGATATGGTCTTAGTCCCTATTTACCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACT-TTTATCAT
** * * *
84065998 GATGCCATAAAGTCTTTCAGCCATGGTTTTACTCACTTCTATCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* *
84066043 GATGCCATAGCGTCTTTCAGCTATGGTCTTACT-AATTTTATCCT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* * * * *
84066087 GATGTCATAGCATTTTTCAGCTATGGACTTACTCA-TTTTATCTT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* * **
84066131 GATTCCATAGCATCTTTCAAATATGGTCTTACTC
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTC
84066165 GTTTGAATCA
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
44 73 0.52
45 36 0.26
46 31 0.22
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (45 bp):
GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
Found at i:84069687 original size:39 final size:39
Alignment explanation
Indices: 84069633--84069712 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
84069623 GAAGATCATT
84069633 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
*
84069672 TTTCGAAGGGTTTCATAAGTTGTTTTTATTGAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
84069711 TT
1 TT
84069713 CTTAAAAGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (39 bp):
TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
Found at i:84080566 original size:17 final size:19
Alignment explanation
Indices: 84080544--84080580 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
84080534 AAATTAAATT
84080544 ATAAT-ATTGTTT-ATACA
1 ATAATAATTGTTTGATACA
*
84080561 ATAATAATTTTTTGATACA
1 ATAATAATTGTTTGATACA
84080580 A
1 A
84080581 AATTCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
ATAATAATTGTTTGATACA
Found at i:84087502 original size:76 final size:76
Alignment explanation
Indices: 84087366--84087519 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 76
84087356 TTCTCAGAAC
* * * *
84087366 CAGGATCTTCGTTGAACCTAAATTAACATAATCCATATTAAAGGTAACTACTAAATCTGCTAGTA
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
84087431 GGTAAATTACA
66 GGTAAATTACA
* * *
84087442 CAGGCTCTTCATTGAACCTTAATTAACATAATCCATATTAAAGG-AATATATTAAACCTGCTAAT
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAA-ATACTAAACCTGCTAAT
84087506 AGGTAAATTACA
65 AGGTAAATTACA
84087518 CA
1 CA
84087520 CCCAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (76 bp):
CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
GGTAAATTACA
Found at i:84089327 original size:18 final size:18
Alignment explanation
Indices: 84089317--84089361 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
84089307 CTATCTTTTC
84089317 CCTTCTCTCTATCTCTAT
1 CCTTCTCTCTATCTCTAT
* *
84089335 CCTTCTCTCCT-TCCCTCT
1 CCTTCTCT-CTATCTCTAT
84089353 CCTTCTCTC
1 CCTTCTCTC
84089362 GATCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.88
19 2 0.08
ACGTcount: A:0.04, C:0.49, G:0.00, T:0.47
Consensus pattern (18 bp):
CCTTCTCTCTATCTCTAT
Found at i:84089427 original size:18 final size:18
Alignment explanation
Indices: 84089382--84089428 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
84089372 TTTGTCTCTC
*
84089382 TCCTTTTCCCTTTCCTTG
1 TCCTTTTCTCTTTCCTTG
* * *
84089400 GCCTTGTCTCTTTCCTTT
1 TCCTTTTCTCTTTCCTTG
84089418 TCCTTTTCTCT
1 TCCTTTTCTCT
84089429 GTCCCTATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.06, T:0.57
Consensus pattern (18 bp):
TCCTTTTCTCTTTCCTTG
Found at i:84091411 original size:17 final size:16
Alignment explanation
Indices: 84091391--84091443 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
84091381 ATATATAAAA
84091391 TCTAAAACAATTATATT
1 TCTAAAA-AATTATATT
84091408 TCT-AAAAATTATAAATT
1 TCTAAAAAATTAT--ATT
*
84091425 TATAAAAAAATTATATT
1 TCT-AAAAAATTATATT
84091442 TC
1 TC
84091444 ACATCAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 3 0.10
17 12 0.40
19 9 0.30
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TCTAAAAAATTATATT
Found at i:84091416 original size:34 final size:34
Alignment explanation
Indices: 84091377--84091443 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
84091367 TTTTAAATTG
* *
84091377 AAAAATATATAAA-ATCTAAAACAATTATATTTCT
1 AAAAAT-TATAAATATATAAAAAAATTATATTTCT
*
84091411 AAAAATTATAAATTTATAAAAAAATTATATTTC
1 AAAAATTATAAATATATAAAAAAATTATATTTC
84091444 ACATCAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (34 bp):
AAAAATTATAAATATATAAAAAAATTATATTTCT
Found at i:84100139 original size:2 final size:2
Alignment explanation
Indices: 84100127--84100155 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
84100117 AATATTTAAA
84100127 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84100156 GATGTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84106542 original size:16 final size:16
Alignment explanation
Indices: 84106521--84106574 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
84106511 TTTGGTTCAG
84106521 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
**
84106537 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAAC
* *
84106553 TGCAATAGAATAGAAC
1 TGTAATGGAATAGAAC
84106569 TGTAAT
1 TGTAAT
84106575 AGCAATTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:84106645 original size:44 final size:44
Alignment explanation
Indices: 84106560--84106647 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
84106550 AGTTGCAATA
84106560 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATA-CAATTCAATTGTTTGGTTGAATGGAATG
*
84106605 GAATAGAACTGTAATA-ATATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATACA-ATTCAAT-TGTTTGGTTGAATGGAAT
84106648 AAAGTTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 2 0.05
44 22 0.55
45 16 0.40
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (44 bp):
GAATAGAACTGTAATACAATTCAATTGTTTGGTTGAATGGAATG
Found at i:84106811 original size:61 final size:60
Alignment explanation
Indices: 84106746--84106898 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 60
84106736 TTTAATAGGA
** *
84106746 TTATTATTAGATATAATTTAATAAAAATAATAATACATAATTTAACCCTATT-TTAATAAAT
1 TTATTATTA-ATATAA-TTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
* * * *
84106807 TTATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAG
1 TTATTATTAA-TATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
**
84106866 CAATTATTAAAATATAAATTAATAAAAATAATA
1 TTATTATT--AATAT-AATTAATAAAAATAATA
84106899 TATAATATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
58 26 0.35
59 13 0.17
60 6 0.08
61 20 0.27
63 10 0.13
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (60 bp):
TTATTATTAATATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
Found at i:84106842 original size:21 final size:20
Alignment explanation
Indices: 84106814--84106853 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
84106804 AATTTATTAT
84106814 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
84106834 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
84106854 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:84106914 original size:22 final size:21
Alignment explanation
Indices: 84106877--84106922 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
84106867 AATTATTAAA
84106877 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
84106898 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
84106920 ATA
1 ATA
84106923 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:84107057 original size:12 final size:12
Alignment explanation
Indices: 84107025--84107059 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
84107015 TCTATGTTAC
84107025 TTAAAGAATAAT
1 TTAAAGAATAAT
*
84107037 TAGAAAGAATAAT
1 T-TAAAGAATAAT
84107050 TTAAAGAATA
1 TTAAAGAATA
84107060 TATTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:84107834 original size:5 final size:5
Alignment explanation
Indices: 84107826--84107852 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
84107816 ACAAATCAAA
84107826 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
84107853 CATATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:84114360 original size:49 final size:49
Alignment explanation
Indices: 84114111--84114421 Score: 218
Period size: 48 Copynumber: 6.5 Consensus size: 49
84114101 TTTGTGTGCT
** * *
84114111 AGTGTAAGATATGTCTGGGACAT-GCATCGACCACAAT--ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * ** *
84114157 AGTGTAAGACATGTATGGGACAT-GTATCGACCTCGAGATATTTAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * ** * *
84114205 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCACGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGA-AAGCC
* * * * *
84114253 AGTGTAAGATCTATCTGGGACATGGCATC-A--GC-AT-GTTATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAG--ATGAAAGCC
84114297 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * *
84114346 AGTGTAAGACCTGTCTAGGACATGGCATCTACCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
*
84114395 AGTGTAAGACCATGTCTGGGAAATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
84114422 GTTGGCATTT
Statistics
Matches: 211, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
44 28 0.13
45 1 0.00
46 34 0.16
47 4 0.02
48 69 0.33
49 62 0.29
50 13 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:84114370 original size:93 final size:92
Alignment explanation
Indices: 84114205--84114374 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 92
84114195 TATTTAAGCT
* * * * * *
84114205 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGATATACAAGCTAGTGTAAGATCTATCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGAGATACAAGCCAGTGTAAGACCTATCTA
84114270 GGACATGGCATCAGCATGTTATGTGTC
66 GGACATGGCATCAGCATGTTATGTGTC
* * *
84114297 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGA-AAGCCAGTGTAAGACCTGT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCAAGAGAT-ACAAGCCAGTGTAAGACCTAT
84114360 CTAGGACATGGCATC
63 CTAGGACATGGCATC
84114375 TACCTCACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 22 0.33
93 42 0.64
94 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGAGATACAAGCCAGTGTAAGACCTATCTA
GGACATGGCATCAGCATGTTATGTGTC
Found at i:84115583 original size:20 final size:21
Alignment explanation
Indices: 84115542--84115583 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
84115532 CATGCTCAAG
**
84115542 TTCCACACGGGCGTGTTGCCC
1 TTCCACACGGAAGTGTTGCCC
84115563 TTCCACACGGAAGTG-TGCCC
1 TTCCACACGGAAGTGTTGCCC
84115583 T
1 T
84115584 GTTTCAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (21 bp):
TTCCACACGGAAGTGTTGCCC
Found at i:84117449 original size:19 final size:17
Alignment explanation
Indices: 84117425--84117470 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
84117415 CAAAGCCCGG
84117425 TAAATGATAATGCCTACAA
1 TAAATGATAATGCC--CAA
* *
84117444 TAAATGATATTGCCCGA
1 TAAATGATAATGCCCAA
84117461 TAAATGATAA
1 TAAATGATAA
84117471 ATGATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
19 13 0.54
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (17 bp):
TAAATGATAATGCCCAA
Found at i:84117465 original size:17 final size:17
Alignment explanation
Indices: 84117419--84117470 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
84117409 ATTCGACAAA
*
84117419 GCCCGGTAAATGATAAT
1 GCCCGATAAATGATAAT
* *
84117436 GCCTACAATAAATGATATT
1 GCC--CGATAAATGATAAT
84117455 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
84117471 ATGATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:84130298 original size:12 final size:12
Alignment explanation
Indices: 84130281--84130324 Score: 88
Period size: 12 Copynumber: 3.7 Consensus size: 12
84130271 GGAGATAGGA
84130281 AAAACAGGTTCC
1 AAAACAGGTTCC
84130293 AAAACAGGTTCC
1 AAAACAGGTTCC
84130305 AAAACAGGTTCC
1 AAAACAGGTTCC
84130317 AAAACAGG
1 AAAACAGG
84130325 AATAACAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:84134942 original size:17 final size:17
Alignment explanation
Indices: 84134920--84134953 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84134910 TTCGGGTAAG
84134920 GCCCTGGCAAAAGAAGT
1 GCCCTGGCAAAAGAAGT
84134937 GCCCTGGCAAAAGAAGT
1 GCCCTGGCAAAAGAAGT
84134954 CTTACCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCTGGCAAAAGAAGT
Found at i:84135169 original size:19 final size:20
Alignment explanation
Indices: 84135125--84135190 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 20
84135115 TACATATCTC
* *
84135125 ATTATATATA-TTTAATAAT
1 ATTATTTATATTTTAACAAT
*
84135144 ATAATTTATATTTTAACAA-
1 ATTATTTATATTTTAACAAT
*
84135163 ATTATTTA-ATATTAA-AAT
1 ATTATTTATATTTTAACAAT
84135181 -TTATTT-TATT
1 ATTATTTATATT
84135191 AAATAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 10 0.26
18 6 0.16
19 15 0.39
20 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTATTTATATTTTAACAAT
Found at i:84137398 original size:27 final size:26
Alignment explanation
Indices: 84137325--84137418 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
84137315 TATGTAATTC
* * * **
84137325 TTTAATTTGCTTTGTGTATTATAGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
84137351 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
84137377 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
84137404 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
84137419 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:84148370 original size:18 final size:18
Alignment explanation
Indices: 84148349--84148391 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
84148339 AATGAACAGT
84148349 AAAAAAATGTTGAAAAAG
1 AAAAAAATGTTGAAAAAG
*
84148367 AAAAAAA-GTTGAAAACG
1 AAAAAAATGTTGAAAAAG
84148384 AAAAAAAT
1 AAAAAAAT
84148392 AAAAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAAAATGTTGAAAAAG
Found at i:84148575 original size:15 final size:15
Alignment explanation
Indices: 84148536--84148605 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
84148526 AAGCAGCAGC
84148536 AAGGAGAAGAAAATAG
1 AAGGAGAAGAAAA-AG
* *
84148552 AGGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
84148567 AA-GAGAAGAAAAAG
1 AAGGAGAAGAAAAAG
84148581 AAGGAGAAGAAAAA-
1 AAGGAGAAGAAAAAG
84148595 AA-GA-AAGAAAA
1 AAGGAGAAGAAAA
84148606 GAAAAGAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.15
13 2 0.04
14 8 0.17
15 26 0.55
16 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:84148595 original size:17 final size:17
Alignment explanation
Indices: 84148556--84148610 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
84148546 AAATAGAGGG
84148556 AAAGAAAGGAGAAGAGAAGAA
1 AAAG-AAGGAG-A-AGAA-AA
84148577 AAAGAAGGAGAAGAAAA
1 AAAGAAGGAGAAGAAAA
* *
84148594 AAAGAAAGAAAAGAAAA
1 AAAGAAGGAGAAGAAAA
84148611 GAGAAGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 17 0.53
18 4 0.12
19 1 0.03
20 6 0.19
21 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAAGAAGGAGAAGAAAA
Found at i:84148710 original size:20 final size:19
Alignment explanation
Indices: 84148659--84148714 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
84148649 TGTTATTGTG
84148659 TTTTTGTTGTTATTATTA-
1 TTTTTGTTGTTATTATTAT
* *
84148677 TTGTTGAT-TT-TTATTAT
1 TTTTTGTTGTTATTATTAT
84148694 TTTTTGTTGTTAGTTATTAT
1 TTTTTGTTGTTA-TTATTAT
84148714 T
1 T
84148715 ATTGTTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 8 0.27
20 8 0.27
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.71
Consensus pattern (19 bp):
TTTTTGTTGTTATTATTAT
Found at i:84154867 original size:17 final size:17
Alignment explanation
Indices: 84154845--84154883 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
84154835 CGGTAATAGT
84154845 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
84154862 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
84154879 ATGTT
1 ATGTT
84154884 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:84155539 original size:72 final size:72
Alignment explanation
Indices: 84155422--84155557 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 72
84155412 CCCCTGACGA
* *
84155422 GCCCGAGAAATAGTTATTACCCAGAAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATGCG
1 GCCCGAGAAATAGTCATTACCCAGAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATGCG
84155487 ATGATGT
66 ATGATGT
* * *
84155494 GCCCGGGAAATAGTCATTACCC-GCCAAATCCGAATGATAAGAAGTATCAGTCGAATGTGAATGC
1 GCCCGAGAAATAGTCATTACCCAG-AAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATGC
84155558 AATCGCTCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 57 0.98
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (72 bp):
GCCCGAGAAATAGTCATTACCCAGAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATGCG
ATGATGT
Found at i:84157602 original size:149 final size:148
Alignment explanation
Indices: 84157433--84157949 Score: 756
Period size: 149 Copynumber: 3.5 Consensus size: 148
84157423 ATCAGTAAAA
*
84157433 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTATTTTAGCA
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCA
* *
84157497 AAAAATATTTCAAATGTATTATTTAAGTATTTTTTTATATTAATTTAATAAATAACCTTGATTTT
66 AAAAATGTTTCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAACCCTGA-TTT
*
84157562 GGCACTTTCTTCGTATTTTT
129 GGCACTTTATTCGTATTTTT
** *
84157582 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTTGTATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTT-TTTATATTATTTTAGC
* * *
84157647 ACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATT-TTTTAATAAATAACCCTGATTT
65 AAAAAATGTTTCAAATGTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAACCCTGATTT
*
84157711 AGCACTTTATTCGTATTTTT
129 GGCACTTTATTCGTATTTTT
* *
84157731 TATTTTCATATATTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCA
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCA
* *
84157796 AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATAGTAATTGAATAAATAACCCTGACTTTG
66 AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAACCCTGA-TTTG
* *
84157861 GTACTTTGTTCGTATTTTTT
130 GCACTTTATTCGTA-TTTTT
* *
84157881 TATTTTCAGGT-T-TTATTTTTTAAAATATACTATTTTTATATTTTATTTTTTATATTATTTTA-
1 TATTTTC--GTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAG
84157943 CAAAAAA
64 CAAAAAA
84157950 CTTGTCAGCA
Statistics
Matches: 335, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
147 11 0.03
148 59 0.18
149 131 0.39
150 79 0.24
151 54 0.16
152 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (148 bp):
TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCA
AAAAATGTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTTAATAAATAACCCTGATTTGG
CACTTTATTCGTATTTTT
Found at i:84157790 original size:12 final size:13
Alignment explanation
Indices: 84157730--84157791 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
84157720 TTCGTATTTT
84157730 TTATTTTCATATA
1 TTATTTTCATATA
*
84157743 TTATTTTTTAAAATATA
1 TTA--TTTT--CATATA
*
84157760 TTATTTTCATATT
1 TTATTTTCATATA
*
84157773 TTATTTT-TTATA
1 TTATTTTCATATA
84157785 TTATTTT
1 TTATTTT
84157792 AGCAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.25
13 14 0.35
15 8 0.20
17 8 0.20
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTTCATATA
Found at i:84158527 original size:3 final size:3
Alignment explanation
Indices: 84158521--84158580 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
84158511 CCTCCTCCTC
* * *
84158521 CTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT CTT -TT CTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
84158566 CTT CCT CTC CTT CTT
1 CTT CTT CTT CTT CTT
84158581 TGTTCTCGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 5 0.11
3 39 0.89
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:84158544 original size:22 final size:22
Alignment explanation
Indices: 84158519--84158579 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
84158509 CTCCTCCTCC
*
84158519 TCCTTCTTCTTCTTCTCTTCTT
1 TCCTTCTTCTCCTTCTCTTCTT
*
84158541 TCCTTCTTCTCCTTCTTTTCTTT
1 TCCTTCTTCTCCTTCTCTTC-TT
* *
84158564 TTCTTCCTCTCCTTCT
1 TCCTTCTTCTCCTTCT
84158580 TTGTTCTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TCCTTCTTCTCCTTCTCTTCTT
Found at i:84158574 original size:23 final size:25
Alignment explanation
Indices: 84158527--84158581 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
84158517 CCTCCTTCTT
* *
84158527 CTTCTTCTCTTCTTTCCTTCTTCTC
1 CTTCTTTTCTTCTTTCCTTCCTCTC
84158552 CTTCTTTTCTT-TTT-CTTCCTCTC
1 CTTCTTTTCTTCTTTCCTTCCTCTC
84158575 CTTCTTT
1 CTTCTTT
84158582 GTTCTCGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 15 0.54
24 3 0.11
25 10 0.36
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (25 bp):
CTTCTTTTCTTCTTTCCTTCCTCTC
Found at i:84161022 original size:45 final size:45
Alignment explanation
Indices: 84160971--84161106 Score: 227
Period size: 45 Copynumber: 3.0 Consensus size: 45
84160961 TAATAGTTAA
* *
84160971 AATTATTTTGATTCACATAATTCTCATTTTAAAATTTATCACTAT
1 AATTATTTTGATTCACATAATTTTCATTTTAAAATTTGTCACTAT
*
84161016 AATTATTTTGATTCACATAATTTTCATTTTAAAATTTGTCGCTAT
1 AATTATTTTGATTCACATAATTTTCATTTTAAAATTTGTCACTAT
* *
84161061 AATTATTTTGATTCACATAGTTTTCATTTTAAAATTTGTCATTAT
1 AATTATTTTGATTCACATAATTTTCATTTTAAAATTTGTCACTAT
84161106 A
1 A
84161107 GTTACCACTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (45 bp):
AATTATTTTGATTCACATAATTTTCATTTTAAAATTTGTCACTAT
Found at i:84161617 original size:15 final size:16
Alignment explanation
Indices: 84161591--84161620 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
84161581 TAATATATTC
84161591 ATTATAATTTTTAATA
1 ATTATAATTTTTAATA
84161607 ATTAT-ATTTTTAAT
1 ATTATAATTTTTAAT
84161621 TTCTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATAATTTTTAATA
Found at i:84166796 original size:11 final size:10
Alignment explanation
Indices: 84166776--84166809 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
84166766 TAACATTATT
84166776 TTATTTAATG
1 TTATTTAATG
84166786 TTATCTTAATG
1 TTAT-TTAATG
84166797 TTATTTTAATG
1 TTA-TTTAATG
84166808 TT
1 TT
84166810 TATATTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 17 0.77
12 1 0.05
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (10 bp):
TTATTTAATG
Found at i:84169077 original size:30 final size:29
Alignment explanation
Indices: 84169043--84169104 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
84169033 ACTTAACAAG
*
84169043 CAAATGATTTTAAAATAATAAAAAAATTAA
1 CAAATGACTTTAAAATAAT-AAAAAATTAA
*
84169073 CAAATGCCTTTAAAATAATAAAAAATTAA
1 CAAATGACTTTAAAATAATAAAAAATTAA
84169102 CAA
1 CAA
84169105 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (29 bp):
CAAATGACTTTAAAATAATAAAAAATTAA
Found at i:84172145 original size:4 final size:4
Alignment explanation
Indices: 84172136--84172171 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
84172126 AACAGGGGAA
84172136 AAAG AAAG AAAG AAA- AAA- AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
84172172 GGAGAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:84172152 original size:14 final size:14
Alignment explanation
Indices: 84172133--84172164 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
84172123 TGAAACAGGG
*
84172133 GAAAAAGAAAGAAA
1 GAAAAAAAAAGAAA
84172147 GAAAAAAAAAGAAA
1 GAAAAAAAAAGAAA
84172161 GAAA
1 GAAA
84172165 GAAAGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAAA
Found at i:84172178 original size:18 final size:18
Alignment explanation
Indices: 84172134--84172168 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
84172124 GAAACAGGGG
84172134 AAAAAGAAAGAAAGAAAA
1 AAAAAGAAAGAAAGAAAA
84172152 AAAAAGAAAGAAAGAAA
1 AAAAAGAAAGAAAGAAA
84172169 GAAGGAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAGAAAA
Found at i:84172880 original size:31 final size:31
Alignment explanation
Indices: 84172829--84172907 Score: 126
Period size: 31 Copynumber: 2.5 Consensus size: 31
84172819 TTGTATTGAA
84172829 TTGAATT-AAAT-TCATGAGTATATGTGATTAT
1 TTGAATTGAAATGT-AT-AGTATATGTGATTAT
84172860 TTGAATTGAAATGTATAGTATATGTGATTAT
1 TTGAATTGAAATGTATAGTATATGTGATTAT
84172891 TTGAATTGAAATGTATA
1 TTGAATTGAAATGTATA
84172908 TTTGTTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 39 0.85
32 6 0.13
33 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (31 bp):
TTGAATTGAAATGTATAGTATATGTGATTAT
Found at i:84174051 original size:38 final size:38
Alignment explanation
Indices: 84174006--84174082 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
84173996 TGTATTTGAG
* *
84174006 GAGGAAGTGTTCTGTATGGCGATTATCGCCTAATTTTT
1 GAGGAAGTGTTCTGTACGGCGATCATCGCCTAATTTTT
84174044 GAGGAAGTGTTCTGTACGGCGATCATCGCCTAATTTTT
1 GAGGAAGTGTTCTGTACGGCGATCATCGCCTAATTTTT
84174082 G
1 G
84174083 GCATCATGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (38 bp):
GAGGAAGTGTTCTGTACGGCGATCATCGCCTAATTTTT
Found at i:84176045 original size:18 final size:18
Alignment explanation
Indices: 84176024--84176063 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
84176014 GAAATATTTA
*
84176024 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
84176042 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
84176060 TTTT
1 TTTT
84176064 AAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:84180686 original size:27 final size:26
Alignment explanation
Indices: 84180621--84180770 Score: 81
Period size: 27 Copynumber: 5.6 Consensus size: 26
84180611 GGTCTAAAAT
* *
84180621 AAATATAT-TATATAATATTAAAGTGAA
1 AAATATATATA-ATAAT-TTAAAATAAA
* *
84180648 TAATATACATAATAATTTAAAATACAA
1 AAATATATATAATAATTTAAAATA-AA
*
84180675 AAATGTATATAA-AAGTTTCAAAATAAA
1 AAATATATATAATAA-TTT-AAAATAAA
* * * *
84180702 CAATATGTATAATAGTTTAAAAGAAA
1 AAATATATATAATAATTTAAAATAAA
* * * ** *
84180728 TAACATATGTAA-AATAAAATAATATA
1 AAATATATATAATAATTTAA-AATAAA
84180754 AAATATATGATAATAAT
1 AAATATAT-ATAATAAT
84180771 AATGGTAATA
Statistics
Matches: 91, Mismatches: 24, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
25 4 0.04
26 33 0.36
27 42 0.46
28 12 0.13
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (26 bp):
AAATATATATAATAATTTAAAATAAA
Found at i:84182707 original size:44 final size:44
Alignment explanation
Indices: 84182635--84182759 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
84182625 CCATGCTGAA
* * * * *
84182635 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCT
1 ATCTTCGATTTG-TTCCCTATAAGCACAGGAATGCCAAATCTGCT
* *
84182680 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCT
1 ATCTTCGATTTGTTCCCTATAAGCACAGGAATGCCAAATCTGCT
* * *
84182724 AT-TTCCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTT-CGATTTGTTCCCTATAAGCACAGGAATGCCA
84182760 TGCTGATCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.03
44 56 0.81
45 11 0.16
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCGATTTGTTCCCTATAAGCACAGGAATGCCAAATCTGCT
Found at i:84183207 original size:205 final size:204
Alignment explanation
Indices: 84182842--84183553 Score: 990
Period size: 205 Copynumber: 3.5 Consensus size: 204
84182832 GGGAACATCC
* * * *
84182842 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT-G
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * * * *
84182906 ATCTTGCTTCAGTATAAACATCTGAAGATC-AGGTCTTCTATGTATCTGCTCTCCATTGAAA-T-
66 ATC-TGCTTCA-AATAAACATCTGAAG-GCGAGATCTGCTATGTGTCTGCTCTCCA-TCAAAGTG
* *
84182968 AGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTT
127 A-AGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTT
* *
84183033 CAACGTAAAT-ACGT
191 CATCGT-AATCATGT
* * *
84183047 GAAAACCAAATCAGCTATGTCTTCGATTTGATCCTTGTAAACACAAGGATTCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
84183112 ATCCGCTTCAACATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTTCATCAAAGTGAAG
66 ATCTGCTTCAA-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
84183177 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
130 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATC
84183242 GTAATCATGT
195 GTAATCATGT
*
84183252 GAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
84183317 ATCTGCTTC-AGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAAAT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
84183381 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTT-A
129 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTG-TTTCA
84183445 TCGTAATCATGT
193 TCGTAATCATGT
* * * *
84183457 GAAAGTCAAATCAGCTATGTCTTCGATTTGCTCGTTGTAAACACAAGGATGCCAAACTATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
84183522 ATCTGTTTC-AGTATAACATCTGAAGGCCAGAT
66 ATCTGCTTCAAATA-AACATCTGAAGGCGAGAT
84183554 TTGTTATGCT
Statistics
Matches: 458, Mismatches: 39, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
203 1 0.00
204 27 0.06
205 423 0.92
206 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (204 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAAATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
TGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATCG
TAATCATGT
Found at i:84191588 original size:15 final size:14
Alignment explanation
Indices: 84191546--84191595 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
84191536 ATAACTTTGA
*
84191546 ATGCAAATGATGTG
1 ATGCAAATGATGAG
84191560 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
84191575 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
84191589 ATGCAAA
1 ATGCAAA
84191596 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:84195538 original size:27 final size:26
Alignment explanation
Indices: 84195467--84195622 Score: 104
Period size: 26 Copynumber: 6.0 Consensus size: 26
84195457 TAAAAAGGTC
*
84195467 TAAAATAAATAATATATATAAT-A-T
1 TAAAATAAAAAATATATATAATAATT
* * * *
84195491 TAAAGTGAATAATATACATAATAATT
1 TAAAATAAAAAATATATATAATAATT
*
84195517 TAAAATACAAAAATGTATATAA-AAGTT
1 TAAAATA-AAAAATATATATAATAA-TT
* * *
84195544 TCAAAATAAACAATATGTATAATAGTT
1 T-AAAATAAAAAATATATATAATAATT
* * * *
84195571 TAAAAGAAATAACATATGTAA-AATT
1 TAAAATAAAAAATATATATAATAATT
* *
84195596 AAATAATATAAAATATATGATAATAAT
1 TAA-AATAAAAAATATAT-ATAATAAT
84195623 AATGGTAATA
Statistics
Matches: 99, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
24 19 0.19
25 6 0.06
26 33 0.33
27 31 0.31
28 10 0.10
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (26 bp):
TAAAATAAAAAATATATATAATAATT
Found at i:84195659 original size:21 final size:20
Alignment explanation
Indices: 84195635--84195684 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
84195625 TGGTAATAAT
84195635 AATATAAATAAATACAAAAAA
1 AATATAAATAAA-ACAAAAAA
* **
84195656 AATATACAATATAACAAAACC
1 AATATA-AATAAAACAAAAAA
84195677 AATATAAA
1 AATATAAA
84195685 GTTACCTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AATATAAATAAAACAAAAAA
Found at i:84199392 original size:15 final size:15
Alignment explanation
Indices: 84199358--84199400 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
84199348 GGTTCACAAG
**
84199358 TAGGGTTCACACATA
1 TAGGGTTCACATGTA
*
84199373 CAGGGTTCACATGTA
1 TAGGGTTCACATGTA
*
84199388 TAGGGTTCGCATG
1 TAGGGTTCACATG
84199401 CTAATTCATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (15 bp):
TAGGGTTCACATGTA
Done.