Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009047.1 Hibiscus syriacus cultivar Beakdansim tig00112458_pilon, whole genome shotgun sequence
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: 186478
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:260 original size:13 final size:13
Alignment explanation
Indices: 244--269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
234 AATTTCGCGT
244 TGCGATTTTCCCA
1 TGCGATTTTCCCA
257 TGCGATTTTCCCA
1 TGCGATTTTCCCA
270 ATTCGCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
TGCGATTTTCCCA
Found at i:297 original size:20 final size:21
Alignment explanation
Indices: 272--323 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
262 TTTTCCCAAT
*
272 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
292 TCGCAATACGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
313 TCGCAATGCGA
1 TCGCAATGCGA
324 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:315 original size:21 final size:21
Alignment explanation
Indices: 272--359 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 21
262 TTTTCCCAAT
** *
272 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
*
292 TCGCAATACGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* **
313 TCGCAATGCG-ATACT-GACTA
1 TCGCAATGCGAAT-TTGGAAAA
*
333 TCACAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
354 TCGCAA
1 TCGCAA
360 CGCGGTACTG
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
20 26 0.51
21 25 0.49
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:345 original size:41 final size:41
Alignment explanation
Indices: 295--413 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
285 AAGTAAATCG
* *
295 CAATACGAATTTGGAAAATCGCAATGCGATACTGACTATCA
1 CAATGCGAATTTGGAAAATCGCAACGCGATACTGACTATCA
* *
336 CAATGCGAATTTGGAAAATCGCAACGCGGTACTGACTATCG
1 CAATGCGAATTTGGAAAATCGCAACGCGATACTGACTATCA
* *
377 CAACGCGATAATAT--AAAATCGCAACGCGATACTGACT
1 CAATGCG--AATTTGGAAAATCGCAACGCGATACTGACT
414 TTCGCAACTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 65 0.94
43 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (41 bp):
CAATGCGAATTTGGAAAATCGCAACGCGATACTGACTATCA
Found at i:378 original size:20 final size:20
Alignment explanation
Indices: 312--465 Score: 89
Period size: 20 Copynumber: 7.7 Consensus size: 20
302 AATTTGGAAA
*
312 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
332 ATCACAATGCGA-ATTTGGAAA
1 ATCGCAACGCGATA-CT-GACT
*
353 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGATACTGACT
* * **
373 ATCGCAACGCGATAATATAAA
1 ATCGCAACGCGATACT-GACT
394 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
414 TTCGCAACTCG-TACTTA-T
1 ATCGCAACGCGATACTGACT
* * *
432 TTCGCAACTCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
452 TTCGCAACGAGATA
1 ATCGCAACGCGATA
466 TATAATCGCA
Statistics
Matches: 101, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
18 11 0.11
19 11 0.11
20 50 0.50
21 28 0.28
22 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:419 original size:41 final size:40
Alignment explanation
Indices: 309--482 Score: 142
Period size: 41 Copynumber: 4.4 Consensus size: 40
299 ACGAATTTGG
* * * *
309 AAAATCGCAATGCGATACTGACTATCACAATGCG-AATTT
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGTAATAT
*
348 GGAAAATCGCAACGCGGTACTGACTATCGCAACGCGATAATAT
1 --AAAATCGCAACGCGATACTGACTATCGCAACGCG-TAATAT
* * *
391 AAAATCGCAACGCGATACTGACTTTCGCAACTCGTACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGTAATAT
** * * * *
430 -ATTTCGCAACTCAATACTGACTTTCGCAACGAG--ATAT
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGTAATAT
* *
467 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
483 TTTCAAAGCG
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 36 0.34
39 1 0.01
40 3 0.03
41 61 0.57
43 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGTAATAT
Found at i:475 original size:38 final size:38
Alignment explanation
Indices: 352--476 Score: 119
Period size: 38 Copynumber: 3.2 Consensus size: 38
342 GAATTTGGAA
** *
352 AATCGCAACGCGGTACTGACTATCGCAACGCGATAATAT
1 AATCGCAACGCAATACTGACTTTCGCAACGCGAT-ATAT
* *
391 AAAATCGCAACGCGATACTGACTTTCGCAACTCG-TACT-T
1 --AATCGCAACGCAATACTGACTTTCGCAACGCGATA-TAT
* * *
430 ATTTCGCAACTCAATACTGACTTTCGCAACGAGATATAT
1 A-ATCGCAACGCAATACTGACTTTCGCAACGCGATATAT
469 AATCGCAA
1 AATCGCAA
477 TGCGATTTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.01
38 33 0.46
39 6 0.08
40 2 0.03
41 29 0.41
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (38 bp):
AATCGCAACGCAATACTGACTTTCGCAACGCGATATAT
Found at i:674 original size:22 final size:22
Alignment explanation
Indices: 646--688 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
636 CTCTCTCTCA
646 CCATCTCCGACGAAATCCGTCC
1 CCATCTCCGACGAAATCCGTCC
*
668 CCATCTCCGGCGAAATCCGTC
1 CCATCTCCGACGAAATCCGTC
689 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCC
Found at i:989 original size:20 final size:20
Alignment explanation
Indices: 966--1008 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
956 GATAGTCAAA
*
966 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTACGATTTTCATT
*
986 TTCGTGTTACGATTTTCATT
1 TTCGCGTTACGATTTTCATT
1006 TTC
1 TTC
1009 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (20 bp):
TTCGCGTTACGATTTTCATT
Found at i:2323 original size:17 final size:18
Alignment explanation
Indices: 2286--2332 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
2276 CTCCACTTCG
2286 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
2304 GAGCTATCACCTCA-CCA
1 GAGCCATCACCTCACCCA
2321 GAGCCATCACCT
1 GAGCCATCACCT
2333 GATCGACCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.28, C:0.45, G:0.13, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2916 original size:19 final size:20
Alignment explanation
Indices: 2873--2917 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2863 GGCAACACGA
2873 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
2893 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
2912 AAATGA
1 AAATGA
2918 AAATCGCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:2923 original size:19 final size:19
Alignment explanation
Indices: 2901--2997 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
2891 GGAAATGGCT
2901 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2920 ATCGC--TACG--A-GAAA
1 ATCGCAATGCGAAATGAAA
*
2934 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2953 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
2967 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2986 ACCGCAATGCGA
1 ATCGCAATGCGA
2998 TTTGTGTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 19 0.32
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 29 0.48
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2943 original size:33 final size:33
Alignment explanation
Indices: 2901--2992 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
2891 GGAAATGGCT
* *
2901 ATCGCAATGCGAAATGAAAATCGCTACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2934 ATCGCAATGCAAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
2967 ATCGCAACGCGAAATGAAAACCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2993 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:3096 original size:20 final size:19
Alignment explanation
Indices: 3034--3108 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
3024 GTTGCAATTT
*
3034 TCATTTCGCATTGCGATAG
1 TCATTTCGCGTTGCGATAG
*
3053 CCATTTC-CATGTTGCGATAG
1 TCATTTCGC--GTTGCGATAG
*
3073 TCATTTCCGCGTTGCGATAA
1 TCATTT-CGCGTTGCGATAG
*
3093 TCATTTCTCGTTGCGA
1 TCATTTCGCGTTGCGA
3109 AAGTAAGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
18 1 0.02
19 15 0.32
20 29 0.62
21 1 0.02
22 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Found at i:3473 original size:20 final size:20
Alignment explanation
Indices: 3444--3489 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3434 ATGGCGCGAA
*
3444 GACTCCGCAAGAAGAAGCCC
1 GACTCAGCAAGAAGAAGCCC
*
3464 GACTCAGCAAGAAGAAGCCT
1 GACTCAGCAAGAAGAAGCCC
3484 GACTCA
1 GACTCA
3490 CTTGTCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.30, G:0.24, T:0.09
Consensus pattern (20 bp):
GACTCAGCAAGAAGAAGCCC
Found at i:3581 original size:41 final size:42
Alignment explanation
Indices: 3492--3581 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 42
3482 CTGACTCACT
* *** *
3492 TGTCATTCCTCAAGAGTCCCCTCCAATTGTTCAAGAGGCCCC
1 TGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
* *
3534 TATCATCCCTCAAGAGTCCCC-CCCACCATTCAAGAGGCCAC
1 TGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
3575 TGTCATC
1 TGTCATC
3582 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 21 0.52
42 19 0.47
ACGTcount: A:0.23, C:0.39, G:0.14, T:0.23
Consensus pattern (42 bp):
TGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCAC
Found at i:3590 original size:41 final size:42
Alignment explanation
Indices: 3521--3611 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
3511 CCTCCAATTG
*
3521 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCCCCACCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCACCA
* ** * * *
3562 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCATCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCACCA
*
3604 TTCCAGAG
1 TTCAAGAG
3612 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 23 0.56
42 18 0.44
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCACCA
Found at i:5015 original size:14 final size:14
Alignment explanation
Indices: 4981--5019 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4971 TTGATTGTTT
4981 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
4995 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
5009 TGTTGATTTGT
1 AATTGATTTGT
5020 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:5180 original size:19 final size:19
Alignment explanation
Indices: 5156--5223 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
5146 ATCGCAACGA
5156 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
5175 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
5194 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
5208 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
5224 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:5267 original size:20 final size:20
Alignment explanation
Indices: 5250--5297 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
5240 CGATTTTCTA
*
5250 GTTGCGATAGCTATTTTCGC
1 GTTGCGATAGCCATTTTCGC
5270 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
5290 GTTGCGAT
1 GTTGCGAT
5298 CTCCCCGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:5536 original size:20 final size:20
Alignment explanation
Indices: 5511--5602 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
5501 TTGAAGATGA
5511 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
5531 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
5551 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
5572 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
5592 TTGCGATTTTC
1 TTGCGATTTTC
5603 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:5631 original size:20 final size:21
Alignment explanation
Indices: 5587--5638 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
5577 ATAGTCAGTA
*
5587 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
5608 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
5628 TCGCATTGCGA
1 TCGCATTGCGA
5639 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:6450 original size:24 final size:24
Alignment explanation
Indices: 6423--6476 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6413 GTATTCGAAA
*
6423 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
6447 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
6471 TTTGAT
1 TTTGAT
6477 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:6668 original size:12 final size:12
Alignment explanation
Indices: 6651--6675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6641 ATATAATCCT
6651 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6663 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6675 G
1 G
6676 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:8989 original size:19 final size:19
Alignment explanation
Indices: 8967--9058 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
8957 GGAAATTACT
8967 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8986 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9000 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
9019 ATCGCAA--C---ACGAAT
1 ATCGCAATGCGAAATGAAA
*
9033 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9052 ATCGCAA
1 ATCGCAA
9059 CGAGGGAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 20 0.36
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
19 27 0.49
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9009 original size:33 final size:33
Alignment explanation
Indices: 8967--9078 Score: 174
Period size: 33 Copynumber: 3.4 Consensus size: 33
8957 GGAAATTACT
8967 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9000 ATCGCAATGCGAAATGAAAATCGCAAC-ACGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
* *
9032 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9066 ATCGCAATGCGAA
1 ATCGCAATGCGAA
9079 TTTAATTTCT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
32 2 0.03
33 68 0.94
34 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9105 original size:19 final size:19
Alignment explanation
Indices: 9073--9149 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
9063 GGAATCGCAA
* * *
9073 TGCGAATTTAATTTCTCGT
1 TGCGATTTTCATTTCGCGT
*
9092 TGCGATTTTCATTTCGAGT
1 TGCGATTTTCATTTCGCGT
*
9111 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
9125 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
9144 TGCGAT
1 TGCGAT
9150 AGTACTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 9 0.20
16 3 0.07
17 3 0.07
19 30 0.67
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:9125 original size:33 final size:33
Alignment explanation
Indices: 9086--9149 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
9076 GAATTTAATT
9086 TCTCGTTGCGATTTTCATTTCG-AGTTGCGATTC
1 TCTCGTTGCGATTTTCATTTCGCA-TTGCGATTC
9119 TCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCTCGTTGCGATTTTCATTTCGCATTGCGAT
9150 AGTACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.45
Consensus pattern (33 bp):
TCTCGTTGCGATTTTCATTTCGCATTGCGATTC
Found at i:11077 original size:93 final size:91
Alignment explanation
Indices: 10967--11151 Score: 286
Period size: 91 Copynumber: 2.0 Consensus size: 91
10957 ATTTCAAACT
10967 TTCAACCAAAAGAC-AAA-AAAAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAGTTT
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT----AGTTT
11029 AGCAGAATTGGCAGCAACCGAATAAATTTAC
61 AGCAGAATTGGCAGCAACCGAATAAATTTAC
*
11060 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATATTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
*
11125 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
11151 T
1 T
11152 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
91 35 0.40
93 14 0.16
94 3 0.03
95 34 0.39
96 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.23
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:12869 original size:20 final size:19
Alignment explanation
Indices: 12838--12945 Score: 91
Period size: 20 Copynumber: 5.8 Consensus size: 19
12828 TCTTTTGGTT
12838 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
12857 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
12878 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
12897 G--A-G--AATCGCAATGC
1 GAAATGAAAATCGCAACGA
* *
12911 GAAATGAAAATCACAACGC
1 GAAATGAAAATCGCAACGA
12930 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
12946 TGCGATTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.13
16 2 0.03
17 2 0.03
19 27 0.38
20 29 0.41
21 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:12928 original size:33 final size:34
Alignment explanation
Indices: 12863--12928 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
12853 ACGAGATAAT
** *
12863 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGAAAATCACAACGA
*
12897 GAGAATCGCAATGC-GAAATGAAAATCACAACG
1 GAGAATCGCAACGCGGAAATGAAAATCACAACG
12929 CGAAATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGAAAATCACAACGA
Found at i:12950 original size:19 final size:19
Alignment explanation
Indices: 12838--12950 Score: 101
Period size: 19 Copynumber: 6.1 Consensus size: 19
12828 TCTTTTGGTT
*
12838 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
12857 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
12877 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
12895 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
12911 GAAATGAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
*
12930 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
12949 GA
1 GA
12951 TTTTGGTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 32 0.42
20 27 0.36
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:12962 original size:19 final size:19
Alignment explanation
Indices: 12946--12992 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
12936 AAAATCGCAA
*
12946 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
12965 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
12984 TGCGATTTT
1 TGCGATTTT
12993 CATTCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:13551 original size:20 final size:20
Alignment explanation
Indices: 13510--13581 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
13500 GCTATGTAAA
* *
13510 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
13530 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
13550 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
13571 TCGCATTGCGA
1 TCGCATTGCGA
13582 ATTATGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.07
20 29 0.66
21 12 0.27
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:13595 original size:21 final size:21
Alignment explanation
Indices: 13571--13746 Score: 78
Period size: 21 Copynumber: 8.5 Consensus size: 21
13561 TTTTCCTAAT
13571 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGAATTATGAAAA
** * *
13592 TCGCAACGCGAA-TACGTAAA
1 TCGCATTGCGAATTATGAAAA
* *
13612 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTATGAAAA
* * **
13633 TTGCATTGCG-A-TAGTCAGTA
1 TCGCATTGCGAATTA-TGAAAA
* * *
13653 TCGCATTGCG-ATTTTCCAAAT
1 TCGCATTGCGAATTAT-GAAAA
* * *
13674 TCGCATTGCGATTTACT--TAT
1 TCGCATTGCGAATTA-TGAAAA
* *
13694 TCACATTGCGAATTAGGAAAA
1 TCGCATTGCGAATTATGAAAA
** *
13715 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCG-AATTATGAAAA
13736 TCGCATTGCGA
1 TCGCATTGCGA
13747 TAGTCATAAT
Statistics
Matches: 115, Mismatches: 31, Indels: 19
0.70 0.19 0.12
Matches are distributed among these distances:
19 2 0.02
20 47 0.41
21 59 0.51
22 6 0.05
23 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGAATTATGAAAA
Found at i:13616 original size:41 final size:41
Alignment explanation
Indices: 13571--13746 Score: 115
Period size: 41 Copynumber: 4.3 Consensus size: 41
13561 TTTTCCTAAT
*
13571 TCGCATTGCGAATTATGAAAATCGCAACGCGAATACGTAAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
* * ** *
13612 TCGCAATGCGAATTAGGAAAATTGCATTGCG-ATA-GTCAGTA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGT-A-AA
* *** * ** * * *
13653 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTAC-TTAT
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGA-ATACGTAAA
* ** *
13694 TCACATTGCGAATTAGGAAAATCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCG-AATACGTAAA
13736 TCGCATTGCGA
1 TCGCATTGCGA
13747 TAGTCATAAT
Statistics
Matches: 96, Mismatches: 32, Indels: 13
0.68 0.23 0.09
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 75 0.78
42 12 0.12
43 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (41 bp):
TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
Found at i:13683 original size:103 final size:103
Alignment explanation
Indices: 13550--13766 Score: 262
Period size: 103 Copynumber: 2.1 Consensus size: 103
13540 ATTTACGTAT
* * *
13550 TCGCGTTGCGATTTTCCTAATTCGCATTGCGAATTA-TGAAAATCGCAACGCGAA-TACGTAAAT
1 TCGCGTTGCGATTTTCCAAATTCGCATTGCGAATTACT--AAATCACAACGCGAATTACGAAAAT
* *
13613 CGCAATGCG-AATTAGGAAAATTGCATTGCGATAGTCAGT-A
64 CGCAACGCGAAATT-GGAAAATCGCATTGCGATAGTCA-TAA
* * * * ** *
13653 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTATTCACATTGCGAATTAGGAAAATCG
1 TCGCGTTGCGATTTTCCAAATTCGCATTGCGAATTACTAAATCACAACGCGAATTACGAAAATCG
13718 CAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
66 CAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
13756 TCGCGTTGCGA
1 TCGCGTTGCGA
13767 ATCTGGAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
102 11 0.11
103 81 0.84
104 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (103 bp):
TCGCGTTGCGATTTTCCAAATTCGCATTGCGAATTACTAAATCACAACGCGAATTACGAAAATCG
CAACGCGAAATTGGAAAATCGCATTGCGATAGTCATAA
Found at i:20410 original size:129 final size:130
Alignment explanation
Indices: 20179--20438 Score: 477
Period size: 129 Copynumber: 2.0 Consensus size: 130
20169 TCAGTACGAG
*
20179 CTTCAGTGGGTCTGCTGTTAAGAAAACTGATTCTAAAGTGTTATTATTGTTGTTGTAGTATCATG
1 CTTCAGTGGGTCTGCTGTTAAGAAAACTGATTCTAAAGTGTTATTATTGTTGTTATAGTATCATG
* * *
20244 TTTCTAGAGAACTTGTTCAAACCACATCCTTCTTTTCATGCGTCACTAGTCATATATTGTGGTAT
66 TTCCTAGAGAACTCGTTCAAACCACATCCTTCTTTTCATGCGTCACTAGTCATATACTGTGGTAT
20309 CTTCAGTGGGTCTGCTGTT-AGAAAACTGATTCTAAAGTGTTATTATTGTTGTTATAGTATCATG
1 CTTCAGTGGGTCTGCTGTTAAGAAAACTGATTCTAAAGTGTTATTATTGTTGTTATAGTATCATG
20373 TTCCTAGAGAACTCGTTCAAACCACATCCTTCTTTTCATGCGTCACTAGTCATATACTGTGGTAT
66 TTCCTAGAGAACTCGTTCAAACCACATCCTTCTTTTCATGCGTCACTAGTCATATACTGTGGTAT
20438 C
1 C
20439 CGTATAAAAG
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
129 107 0.85
130 19 0.15
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (130 bp):
CTTCAGTGGGTCTGCTGTTAAGAAAACTGATTCTAAAGTGTTATTATTGTTGTTATAGTATCATG
TTCCTAGAGAACTCGTTCAAACCACATCCTTCTTTTCATGCGTCACTAGTCATATACTGTGGTAT
Found at i:26025 original size:21 final size:21
Alignment explanation
Indices: 26001--26044 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
25991 TGAAATACAC
*
26001 ATCAAACAATTTTTAAATCAA
1 ATCAAACAATGTTTAAATCAA
* *
26022 ATCAAACACTGTTTAACTCAA
1 ATCAAACAATGTTTAAATCAA
26043 AT
1 AT
26045 ATATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (21 bp):
ATCAAACAATGTTTAAATCAA
Found at i:30194 original size:51 final size:52
Alignment explanation
Indices: 30081--30197 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 52
30071 TATAATATAG
* * * *
30081 TAAAACAATAATTAAAGTAATGATTGAAAATATATTAAAATAATAAAAATTAAGT
1 TAAAAC-ATAACTAAA-CAATGATTGAAAATATAATAAAATAAT-AAAATTAAAT
30136 TAAAACATAACTAAACAATGATT-AAAATA-AATAAAATAAT-AAATGTAAAT
1 TAAAACATAACTAAACAATGATTGAAAATATAATAAAATAATAAAAT-TAAAT
*
30186 TATGAACATAAC
1 TA-AAACATAAC
30198 CTGAATCATC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 4 0.07
50 6 0.11
51 18 0.33
52 6 0.11
53 7 0.13
54 8 0.15
55 6 0.11
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (52 bp):
TAAAACATAACTAAACAATGATTGAAAATATAATAAAATAATAAAATTAAAT
Found at i:30765 original size:13 final size:13
Alignment explanation
Indices: 30747--30775 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30737 CCACCGTATT
30747 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
30760 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
30773 CCG
1 CCG
30776 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:31496 original size:3 final size:3
Alignment explanation
Indices: 31488--31599 Score: 140
Period size: 3 Copynumber: 37.7 Consensus size: 3
31478 TTATTTATTA
*
31488 AAT AAT AAT AAT ATAT AAT AAT AAT -AT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
31533 AAT AAT -AT AAT TAT AAT TAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
31580 AAT AAT -TT CAAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AA
31600 ATTTAAATGA
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
2 5 0.05
3 85 0.90
4 4 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:31857 original size:76 final size:76
Alignment explanation
Indices: 31726--32445 Score: 1250
Period size: 76 Copynumber: 9.5 Consensus size: 76
31716 GATGGAAATG
* * *
31726 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATTAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
31791 CCTGAAGGCTT
66 CCTGAAGGCTT
31802 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
*
31867 CCCGAAGGCTT
66 CCTGAAGGCTT
31878 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
31943 -CTCGAAGGCTT
66 CCT-GAAGGCTT
31954 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
*
32019 CCCGAAGGCTT
66 CCTGAAGGCTT
32030 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
32095 -CTCGAAGGCTT
66 CCT-GAAGGCTT
* *
32106 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
32171 -CTCGAAGGCTTT
66 CCT-GAAGGC-TT
32183 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
32248 -CTCGAAGGCTT
66 CCT-GAAGGCTT
32259 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
**
32324 CCCAAAGGCTT
66 CCTGAAGGCTT
* * *
32335 TTTGGAAACATCATGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
*
32400 CCCGAAGGCTT
66 CCTGAAGGCTT
32411 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
32446 TAAGAAATAG
Statistics
Matches: 620, Mismatches: 19, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
75 2 0.00
76 542 0.87
77 76 0.12
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
CCTGAAGGCTT
Found at i:35684 original size:83 final size:83
Alignment explanation
Indices: 35545--35726 Score: 337
Period size: 83 Copynumber: 2.2 Consensus size: 83
35535 TCTACTATGA
* * *
35545 GCAAATTCATCTTCCAAATTTAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
35610 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
35628 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
35693 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
35711 GCAAATTCATCTTCTA
1 GCAAATTCATCTTCTA
35727 GTTAATGTTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 96 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:44109 original size:13 final size:13
Alignment explanation
Indices: 44091--44119 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44081 CCACCGTATT
44091 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
44104 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
44117 CCG
1 CCG
44120 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:44841 original size:3 final size:3
Alignment explanation
Indices: 44833--44944 Score: 140
Period size: 3 Copynumber: 37.7 Consensus size: 3
44823 TTATTTATTA
*
44833 AAT AAT AAT AAT -AT AAT AAT AAT AAT ATAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
44878 AAT AAT -AT AAT AAT TAT AAT TAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
44925 AAT AAT -TT CAAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AA
44945 ATTTAAATGA
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
2 5 0.05
3 85 0.90
4 4 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:50329 original size:241 final size:240
Alignment explanation
Indices: 49548--52103 Score: 4413
Period size: 239 Copynumber: 10.7 Consensus size: 240
49538 ACTGTAGTTG
* * *
49548 ATATTTTTACTATCAAATTGCCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAATCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
* * *
49613 TACGTTGAATAAAATGATCTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
* *
49678 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAATTAT
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTAT-AAAAAATATTAACTAATAAATAT
49743 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
195 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* * *
49789 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATGCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
*
49854 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
49919 TTTGAATTGTATTAATTAAATGATCAATAAATCTTTTCTATAAAAAA-ATTAACTAATAAATATC
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
* * *
49983 TAGTGATAATAATAAATATCGAGAGTGATAAGAATGATAAGATGC
196 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
50028 ATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
50093 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
* *
50158 TTTGAATTGTATTAATCAAATGATCAATAAATATTTTTTTATAAAAAATATTAACTAATAAATAT
131 TTTGAATTGTATTAATCAAATGATCAATAAAT-CTTTTCTATAAAAAATATTAACTAATAAATAT
50223 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
195 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
50269 ATATTTTTACTATCAAATTGTCTAACAAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
* *
50334 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
* *
50399 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAATTAT
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTAT-AAAAAATATTAACTAATAAATAT
*
50464 CTAGTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
195 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* * *
50510 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATGCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
*
50575 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
50640 TTTGAATTGTATTAATTAAATGATCAATAAATCTTTTCTATAAAAAA-ATTAACTAATAAATATC
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
* * *
50704 TAGTGATAATAATAAATATCGAGAGTGATAAGAATGATAAGATGC
196 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
50749 ATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
*
50814 TACGTTGAATAAAATGGTTTAAGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
50879 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
*
50944 TACTTATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
196 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
50989 ATATTTTTACTATCAAATTGTGTAACGAAGTATATTTTTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
* *
51054 TATGTTGAATAAAATGGTTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
51119 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTAT-AAAAAATATTAACTAATAAATAT
51184 CTACTGATAATAATAAATATC------G---AGAATGATAAGATAC
195 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
51221 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGGGTTTAATCATCCAGTCAAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
*
51286 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
* *
51351 TTTGAATTGTATTAATTAAATGATCAATAAATATTTTCTATAAAAAA-ATTTAACTAATAAATAT
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATA-TTAACTAATAAATAT
* *
51415 CTAGTGATAATAATAAATATCGAGAGTGATAAGAATGATAAGATAC
195 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
* *
51461 ATATTTTTACTATC-AATTGTCTAACGAAGTATATTTCTTTTTCGGGTTTAATCATCCAGTCAAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
* *
51525 TATGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
* *
51590 TTTGAATTGTATTAATTAAATGATCAATAAATCTTTTCTATAAAAAA-ATTAACTAATAAACATC
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
* *
51654 TAGTGATAATAATAAATATCGAGAGTGATAAGAATGATAAGATAC
196 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
51699 ATATTTTTACTATC-AATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
* *
51763 TACGTTGAATAAAATGGTTTAGGATTCCGTAGAGTATTTAATAATATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
51828 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
51893 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
196 TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
51938 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
*
52003 TACGTTGAATAAAATGGTTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
52068 TTTGAATTGTATTAATCAAATGATCAATAAATCTTT
131 TTTGAATTGTATTAATCAAATGATCAATAAATCTTT
52104 GAGAAAATAA
Statistics
Matches: 2200, Mismatches: 98, Indels: 35
0.94 0.04 0.02
Matches are distributed among these distances:
230 1 0.00
231 41 0.02
232 177 0.08
235 1 0.00
237 1 0.00
238 229 0.10
239 675 0.31
240 431 0.20
241 644 0.29
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (240 bp):
ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
TACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAATATTAACTAATAAATATC
TACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
Found at i:51456 original size:721 final size:713
Alignment explanation
Indices: 49548--52103 Score: 4467
Period size: 721 Copynumber: 3.6 Consensus size: 713
49538 ACTGTAGTTG
* *
49548 ATATTTTTACTATCAAATTGCCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAATCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
*
49613 TACGTTGAATAAAATGATCTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
49678 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAATTAT
131 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
49743 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATACATATTTTTACTATCAAATT
196 CTACTGATAATAATAAATATC----A-G--AAGAATGATAAGATACATATTTTTACTATCAAATT
*
49808 GTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATGCAGTCGATTACGTTGAATAAAATGGTT
254 GTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTT
49873 TAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAA
319 TAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAA
49938 ATGATCAATAAATCTTTTCTATAAAAAAATTAACTAATAAATATCTAGTGATAATAATAAATATC
384 ATGATCAATAAATCTTTTCTATAAAAAAATTAACTAATAAATATCTAGTGATAATAATAAATATC
50003 GAGAGTGATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTT
449 GAGAGTGATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTT
50068 TTTCGAGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTA
514 TTTCGAGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTA
* *
50133 ATACTATAATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAATATTTTTTT
579 ATACTATAATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAAT-CTTTTCT
50198 ATAAAAAATATTAACTAATAAATATCTACTGATAATAATAAATATCGAGAATGATAAGAATGATA
643 ATAAAAAATATTAACTAATAAATATCTACTGATAATAATAAATATCGAGAATGATAAGAATGATA
50263 AGATAC
708 AGATAC
*
50269 ATATTTTTACTATCAAATTGTCTAACAAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
50334 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
50399 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAATTAT
131 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
*
50464 CTAGTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATACATATTTTTACTATCAAATT
196 CTACTGATAATAATAAATATC----A-G--AAGAATGATAAGATACATATTTTTACTATCAAATT
*
50529 GTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATGCAGTCGATTACGTTGAATAAAATGGTT
254 GTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTT
50594 TAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAA
319 TAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAA
50659 ATGATCAATAAATCTTTTCTATAAAAAAATTAACTAATAAATATCTAGTGATAATAATAAATATC
384 ATGATCAATAAATCTTTTCTATAAAAAAATTAACTAATAAATATCTAGTGATAATAATAAATATC
50724 GAGAGTGATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTT
449 GAGAGTGATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTT
*
50789 TTTCGAGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAAGGTTCCGTAGAGTATTTA
514 TTTCGAGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTA
50854 ATACTATAATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTA
579 ATACTATAATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTA
*
50919 TAAAAAATATTAACTAATAAATATCTACTTATAATAATAAATATCGAGAATGATAAGAATGATAA
644 TAAAAAATATTAACTAATAAATATCTACTGATAATAATAAATATCGAGAATGATAAGAATGATAA
50984 GATAC
709 GATAC
* * *
50989 ATATTTTTACTATCAAATTGTGTAACGAAGTATATTTTTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
* *
51054 TATGTTGAATAAAATGGTTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
51119 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
131 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
51184 CTACTGATAATAATAAATATC-G-AGAATGATAAGATACATATTTTTACTATCAAATTGTCTAAC
196 CTACTGATAATAATAAATATCAGAAGAATGATAAGATACATATTTTTACTATCAAATTGTCTAAC
* *
51247 GAAGTATATTTCTTTTTCGGGTTTAATCATCCAGTCAATTACGTTGAATAAAATGGTTTAGGGTT
261 GAAGTATATTCCTTTTTCGGGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTT
51312 CCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAAATGATCA
326 CCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAAATGATCA
*
51377 ATAAATATTTTCTATAAAAAAATTTAACTAATAAATATCTAGTGATAATAATAAATATCGAGAGT
391 ATAAATCTTTTCTATAAAAAAA-TTAACTAATAAATATCTAGTGATAATAATAAATATCGAGAGT
* * * *
51442 GATAAGAATGATAAGATACATATTTTTACTAT-CAATTGTCTAACGAAGTATATTTCTTTTTCGG
455 GATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTTTTTCGA
* *
51506 GTTTAATCATCCAGTCAATTATGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTA
520 GTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTA
* *
51571 TAATACTAAATTCATTGTATTTGAATTGTATTAATTAAATGATCAATAAATCTTTTCTATAAAAA
585 TAATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAA
* * *
51636 A-ATTAACTAATAAACATCTAGTGATAATAATAAATATCGAGAGTGATAAGAATGATAAGATAC
650 ATATTAACTAATAAATATCTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
*
51699 ATATTTTTACTATC-AATTGTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGAT
1 ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
* * * *
51763 TACGTTGAATAAAATGGTTTAGGATTCCGTAGAGTATTTAATAATATAATATTAAATTCATTGTA
66 TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
*
51828 TTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTAT-AAAAAATATTAACTAATAAATAT
131 TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
51892 CTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATACATATTTTTACTATCAAATT
196 CTACTGATAATAATAAATATC----A-G--AAGAATGATAAGATACATATTTTTACTATCAAATT
* *
51957 GTCTAACGAAGTATATTTCTTTTTCGAGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTT
254 GTCTAACGAAGTATATTCCTTTTTCGGGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTT
* * *
52022 TAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTATTTGAATTGTATTAATCAA
319 TAGGGTTCCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAA
52087 ATGATCAATAAATCTTT
384 ATGATCAATAAATCTTT
52104 GAGAAAATAA
Statistics
Matches: 1778, Mismatches: 47, Indels: 24
0.96 0.03 0.01
Matches are distributed among these distances:
708 44 0.02
709 150 0.08
710 72 0.04
711 344 0.19
712 73 0.04
714 2 0.00
717 175 0.10
720 282 0.16
721 636 0.36
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (713 bp):
ATATTTTTACTATCAAATTGTCTAACGAAGTATATTTCTTTTTCGAGATTAATCATCCAGTCGAT
TACGTTGAATAAAATGATTTAGGGTTTCGTAGAGTATTTAATACTATAATATTAAATTCATTGTA
TTTGAATTGTATTAATCAAATGACCAATAAATCTTTTCTATAAAAAAATATTAACTAATAAATAT
CTACTGATAATAATAAATATCAGAAGAATGATAAGATACATATTTTTACTATCAAATTGTCTAAC
GAAGTATATTCCTTTTTCGGGTTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTT
CCGTAGAGTATTTAATACTATAATACTAAATTCATTGTATTTGAATTGTATTAATTAAATGATCA
ATAAATCTTTTCTATAAAAAAATTAACTAATAAATATCTAGTGATAATAATAAATATCGAGAGTG
ATAAGAATGATAAGATGCATATTTTTACTATAAAATTGTCTAACGAAGTATTTTTCTTTTTCGAG
TTTAATCATCCAGTCGATTACGTTGAATAAAATGGTTTAGGGTTCCGTAGAGTATTTAATACTAT
AATATTAAATTCATTGTATTTGAATTGTATTAATCAAATGATCAATAAATCTTTTCTATAAAAAA
TATTAACTAATAAATATCTACTGATAATAATAAATATCGAGAATGATAAGAATGATAAGATAC
Found at i:52372 original size:42 final size:41
Alignment explanation
Indices: 52339--52433 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
52329 TTTTCATTTC
*
52339 GCGTTGTGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
1 GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
52380 GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
1 GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
* *
52421 TCGTTGTGATAGT
1 GCGTTGCGATAGT
52434 TAAAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
GCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAT
Found at i:52386 original size:19 final size:19
Alignment explanation
Indices: 52362--52426 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
52352 CTACAGTTGT
52362 CGTTGCGATTTTCCAAATG
1 CGTTGCGATTTTCCAAATG
* * **
52381 CGTTGCGATAGTCTACAGTTG
1 CGTTGCGAT--TTTCCAAATG
*
52402 TCGTTGCGATTTTCCAAATT
1 -CGTTGCGATTTTCCAAATG
52422 CGTTG
1 CGTTG
52427 TGATAGTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
19 14 0.41
20 5 0.15
21 6 0.18
22 9 0.26
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATG
Found at i:52409 original size:22 final size:22
Alignment explanation
Indices: 52340--52411 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
52330 TTTCATTTCG
*
52340 CGTTGTGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
52362 CGTTGCGAT--TTTCCAAATG-
1 CGTTGCGATAGTCTACAGTTGT
52381 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
52403 CGTTGCGAT
1 CGTTGCGAT
52412 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.24
20 6 0.16
21 6 0.16
22 17 0.45
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:53170 original size:21 final size:21
Alignment explanation
Indices: 53140--53225 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
53130 AAATCGCGTT
53140 GCGA-TTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
** *
53160 GCGATTTTCAACTATCATAAT
1 GCGATTTTCAACTATCGCAAC
** * * *
53181 GCGAAATGCAA-AAACGCAAC
1 GCGATTTTCAACTATCGCAAC
*
53201 GCGATTTTCAACTATCGCAAT
1 GCGATTTTCAACTATCGCAAC
53222 GCGA
1 GCGA
53226 AATACAACGT
Statistics
Matches: 47, Mismatches: 17, Indels: 3
0.70 0.25 0.04
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:57050 original size:18 final size:19
Alignment explanation
Indices: 57027--57063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57017 TCAGTAATTC
57027 TATTCTC-TGGTAATCTTT
1 TATTCTCATGGTAATCTTT
57045 TATTCTCATTGGTAATCTT
1 TATTCTCA-TGGTAATCTT
57064 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (19 bp):
TATTCTCATGGTAATCTTT
Found at i:59867 original size:24 final size:23
Alignment explanation
Indices: 59831--59885 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
59821 GATGGATACA
* *
59831 AAATATCTCAAATTGTATAAATAT
1 AAATATTTAAAATTGTA-AAATAT
* *
59855 AAATATTTAAAATTTTAAAATCT
1 AAATATTTAAAATTGTAAAATAT
59878 AATATATT
1 AA-ATATT
59886 ATTGTATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATATTTAAAATTGTAAAATAT
Found at i:65747 original size:3 final size:3
Alignment explanation
Indices: 65739--65799 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
65729 GTAGATGATA
65739 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65787 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
65800 CAATAAGAGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66774 original size:97 final size:98
Alignment explanation
Indices: 66607--66795 Score: 335
Period size: 97 Copynumber: 1.9 Consensus size: 98
66597 TTAATGTTTC
*
66607 TGTACGATGATGTTCGAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTG
1 TGTACGACGATGTTCGAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTG
66672 TTTGTGAAGAAACAATATAGTTCTATTCTTGTT
66 TTTGTGAAGAAACAATATAGTTCTATTCTTGTT
* * *
66705 TGTACGACGATGTTCGAAAATTGAGAATTG-TTTTTGATGATTCCGCTAGAAAAATAGACTCGTG
1 TGTACGACGATGTTCGAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTG
66769 TTTGTGAAGAAACAATATAGTTCTATT
66 TTTGTGAAGAAACAATATAGTTCTATT
66796 TCATTAATCT
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 58 0.67
98 29 0.33
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (98 bp):
TGTACGACGATGTTCGAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTG
TTTGTGAAGAAACAATATAGTTCTATTCTTGTT
Found at i:66822 original size:97 final size:97
Alignment explanation
Indices: 66622--66820 Score: 251
Period size: 97 Copynumber: 2.1 Consensus size: 97
66612 GATGATGTTC
66622 GAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTGTTTGTGAAGAAACAA
1 GAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTGTTTGTGAAGAAACAA
** * * ****
66687 TATAGTTCTATTCTTGTTTGTACGACGATGTTC
66 TATAGTTCTATTCTTGAATCTAC-ACAATAAAA
* * *
66720 GAAAATTGAGAATTG-TTTTTGATGATTCCGCTAGAAAAATAGACTCGTGTTTGTGAAGAAACAA
1 GAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTGTTTGTGAAGAAACAA
66784 TATAGTTCTATTTCATT-AATCTA-ACAATAAAA
66 TATAGTTCTA-TTC-TTGAATCTACACAATAAAA
66816 GAAAA
1 GAAAA
66821 ATATCAAAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
96 9 0.10
97 56 0.64
98 21 0.24
99 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (97 bp):
GAAAATTGAGAATTGTTTTTTGACGATTCCACTAGAAAAATAGACTCCTGTTTGTGAAGAAACAA
TATAGTTCTATTCTTGAATCTACACAATAAAA
Found at i:67168 original size:21 final size:21
Alignment explanation
Indices: 67144--67185 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
67134 TTTTTATATC
* *
67144 TATTTGTCTTGATTAATCAGT
1 TATTTATCTTGATTAAACAGT
*
67165 TATTTATCTTTATTAAACAGT
1 TATTTATCTTGATTAAACAGT
67186 GGTTTATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTTATCTTGATTAAACAGT
Found at i:69787 original size:55 final size:55
Alignment explanation
Indices: 69711--70217 Score: 466
Period size: 55 Copynumber: 9.3 Consensus size: 55
69701 AGATTTGAAA
* * *
69711 AATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTAAGGAGTATAAGACTCGAAC
1 AATCTTCAACA-AACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
*** *
69766 AATCTTTGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
1 AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * *
69821 AATCTTCAATAAACGGGTCTGCTCCCTATCCGTTCAGGGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* * * * *
69876 AATCTTCATA-AAACGAGTCTGATCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCA-ACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* * * *
69931 AATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAAC-AAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* * *
69987 AATCTTCATA-AAACGGGTCCGCTCCCTA-TCATTTCTGGGAGTAT-AGAAATCGAAC
1 AATCTTCA-ACAAACGGGTCTGCTCCCTATTCA-TTCAGGGAGTATAAG-ACTCGAAC
* * * * *
70042 AATCTTCAACAAACAGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* * * * *
70097 AATCTTCAACAAACGAGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* ** * * * *
70152 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATATGACT----C
1 AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
70203 AATCTTCAACAAACG
1 AATCTTCAACAAACG
70218 AGTTTGCTTC
Statistics
Matches: 399, Mismatches: 43, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
51 14 0.04
54 6 0.02
55 323 0.81
56 55 0.14
57 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (55 bp):
AATCTTCAACAAACGGGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
Found at i:69881 original size:110 final size:110
Alignment explanation
Indices: 69711--70196 Score: 590
Period size: 110 Copynumber: 4.4 Consensus size: 110
69701 AGATTTGAAA
* * * *
69711 AATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCGAACAATCTTT
1 AATCTTCAACA-AACGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAGA-ACTCGAACAATCTTC
*** * * *
69773 GGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAAC
63 ATAAAACGAGTCCGCTCCCTATTCATTCAGAGAGTATAGA-ACTCGAAC
* * *
69821 AATCTTCAATAAACGGGTCTGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAACAATCTTCAT
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCAT
* * * *
69885 AAAACGAGTCTGATCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
65 AAAACGAGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAAC
*
69931 AATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAT
1 AATCTTCAAC-AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAT
* * * *
69996 AAAACGGGTCCGCTCCCTA-TCATTTCTGGGAGTATAGAAATCGAAC
65 AAAACGAGTCCGCTCCCTATTCA-TTCAGAGAGTATAGAACTCGAAC
* *
70042 AATCTTCAACAAACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-A
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA
* *
70106 CAAACGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
66 -AAACGAGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAAC
* **
70152 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATA
1 AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATA
70197 TGACTCAATC
Statistics
Matches: 331, Mismatches: 35, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
109 3 0.01
110 228 0.69
111 97 0.29
112 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (110 bp):
AATCTTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA
AAACGAGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAAC
Found at i:70113 original size:221 final size:221
Alignment explanation
Indices: 69711--70202 Score: 658
Period size: 221 Copynumber: 2.2 Consensus size: 221
69701 AGATTTGAAA
* * * * **
69711 AATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATAAGACTCGAACAATCTTTG
1 AATCTTCAACAAAACGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAAGACTCGAACAATCTTCA
* * * * * *
69774 GCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGT
65 GAAAACGGGTCCGCTCCCTATTCATTCAGGGAGTATAAGAATCGAACAATCTTCAACAAACAGGT
* * *
69839 CTGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTGATCTCTA
130 CCGCTCCCTATCCGTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGATCTCTA
69904 TTCCTTCAGAGAGTATAGAACTCGAAC
195 TTCCTTCAGAGAGTATAGAACTCGAAC
*
69931 AATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCA
1 AATCTTCAACAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA
* *
69995 TAAAACGGGTCCGCTCCCTA-TCATTTCTGGGAGTAT-AGAAATCGAACAATCTTCAACAAACAG
65 GAAAACGGGTCCGCTCCCTATTCA-TTCAGGGAGTATAAG-AATCGAACAATCTTCAACAAACAG
* *
70058 GTCCGCTCTCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGAGTCCGCTC
128 GTCCGCTCCCTA-TCCGTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGAGTCCGATC
70121 TCTATTCCTTCAGAGAGTATAGAACTCGAAC
191 TCTATTCCTTCAGAGAGTATAGAACTCGAAC
* ** *
70152 AATCTTCAAC-GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATATGACTC
1 AATCTTCAACAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTC
70203 AATCTTCAAC
Statistics
Matches: 239, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
220 51 0.21
221 184 0.77
222 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (221 bp):
AATCTTCAACAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAG
AAAACGGGTCCGCTCCCTATTCATTCAGGGAGTATAAGAATCGAACAATCTTCAACAAACAGGTC
CGCTCCCTATCCGTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGATCTCTAT
TCCTTCAGAGAGTATAGAACTCGAAC
Found at i:71510 original size:45 final size:45
Alignment explanation
Indices: 71446--71531 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
71436 CAAACTCAAC
*
71446 TCAAGTCGCCCTTTGCGGGTTTTCAACTTGAGA-CCTCCTTTGGTT
1 TCAAGACGCCCTTTGCGGGTTTTCAACTTGA-ACCCTCCTTTGGTT
* **
71491 TCAAGACGCCCTTTTCGGGTTTTCGTCTTGAACCCTCCTTT
1 TCAAGACGCCCTTTGCGGGTTTTCAACTTGAACCCTCCTTT
71532 TATTTCTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.13, C:0.29, G:0.20, T:0.38
Consensus pattern (45 bp):
TCAAGACGCCCTTTGCGGGTTTTCAACTTGAACCCTCCTTTGGTT
Found at i:71560 original size:14 final size:14
Alignment explanation
Indices: 71543--71605 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 14
71533 ATTTCTCTTT
71543 TTTTCATTTTTCTC
1 TTTTCATTTTTCTC
**
71557 TTTTTGTTTTTCTC
1 TTTTCATTTTTCTC
71571 -TTTCATTTTTCTTC
1 TTTTCATTTTTC-TC
*
71585 TATTTTCCATTTTTTTC
1 --TTTT-CATTTTTCTC
71602 TTTT
1 TTTT
71606 TTTTTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.23
14 14 0.36
15 4 0.10
17 5 0.13
18 7 0.18
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTCATTTTTCTC
Found at i:71601 original size:27 final size:26
Alignment explanation
Indices: 71540--71615 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
71530 TTTATTTCTC
***
71540 TTTTTTTCATTTTTC-TCTTTTTGTT
1 TTTTTTTCATTTTTCTTCTTTTTCCA
71565 TTTCTCTTTCATTTTTCTTCTATTTTCCA
1 TTT-T-TTTCATTTTTCTTCT-TTTTCCA
* *
71594 TTTTTTTCTTTTTTTTTCTTTT
1 TTTTTTTCATTTTTCTTCTTTT
71616 CGTTTTTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.07
26 4 0.10
27 24 0.57
28 4 0.10
29 7 0.17
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTTTTCATTTTTCTTCTTTTTCCA
Found at i:71636 original size:15 final size:16
Alignment explanation
Indices: 71618--71652 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
71608 TTTCTTTTCG
71618 TTTTTTC-CA-TCATT
1 TTTTTTCTCATTCATT
71632 TTTTTTCTCATTCATT
1 TTTTTTCTCATTCATT
71648 TTTTT
1 TTTTT
71653 CTTCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 2 0.11
16 10 0.53
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTCTCATTCATT
Found at i:71660 original size:27 final size:25
Alignment explanation
Indices: 71592--71710 Score: 79
Period size: 27 Copynumber: 4.8 Consensus size: 25
71582 TTCTATTTTC
*
71592 CATTTTTTTCT-TTTTTTTTCTTTT
1 CATTTTTTTCTCTTTTTTTTCTATT
* *
71616 CGTTTTTTCCATCATTTTTTTTCTCATT
1 CATTTTTTTC-TC-TTTTTTTTCT-ATT
*
71644 CATTTTTTTCTTCTTTTTCTTCT-TCT
1 CATTTTTTTC-TCTTTTTTTTCTAT-T
* *
71670 CA-TTTTTACTATTATTTTTT-T-TT
1 CATTTTTTTCTCTT-TTTTTTCTATT
*
71693 CATTTTTTT-TCATTTTTT
1 CATTTTTTTCTCTTTTTTT
71711 CTCTTTTATT
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
22 5 0.07
23 5 0.07
24 18 0.24
25 13 0.17
26 3 0.04
27 19 0.25
28 12 0.16
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.74
Consensus pattern (25 bp):
CATTTTTTTCTCTTTTTTTTCTATT
Found at i:71667 original size:54 final size:55
Alignment explanation
Indices: 71540--71696 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 55
71530 TTTATTTCTC
* * *
71540 TTTTT-TTCATTTTTC-TCTTTTTGTTTTTCTCTTTCATTTTTCTTCT-ATTTTCCATT
1 TTTTTCTTC-TTTTTCTTCTTTTCGTTTTT-TCTATCATTTTTTTTCTCA--TTCCATT
*
71596 TTTTTCTT-TTTTT-TTCTTTTCGTTTTTTCCATCATTTTTTTTCTCATT-CATT
1 TTTTTCTTCTTTTTCTTCTTTTCGTTTTTTCTATCATTTTTTTTCTCATTCCATT
* * * *
71648 TTTTTCTTCTTTTTCTTCTTCTCATTTTTACTATTATTTTTTTT-TCATT
1 TTTTTCTTCTTTTTCTTCTTTTCGTTTTTTCTATCATTTTTTTTCTCATT
71697 TTTTTTCATT
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
52 12 0.14
53 12 0.14
54 38 0.44
55 18 0.21
56 5 0.06
57 2 0.02
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.73
Consensus pattern (55 bp):
TTTTTCTTCTTTTTCTTCTTTTCGTTTTTTCTATCATTTTTTTTCTCATTCCATT
Found at i:71700 original size:10 final size:9
Alignment explanation
Indices: 71685--71727 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
71675 TTACTATTAT
71685 TTTTTTTTC
1 TTTTTTTTC
71694 ATTTTTTTTC
1 -TTTTTTTTC
*
71704 ATTTTTTCTC
1 -TTTTTTTTC
*
71714 TTTTATTTC
1 TTTTTTTTC
71723 TTTTT
1 TTTTT
71728 CAAGAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 11 0.38
10 18 0.62
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:71717 original size:18 final size:18
Alignment explanation
Indices: 71681--71727 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
71671 ATTTTTACTA
71681 TTATTT-TTTTTTCATTT
1 TTATTTCTTTTTTCATTT
71698 TT-TTTCATTTTTTC-TCTT
1 TTATTTC-TTTTTTCAT-TT
71716 TTATTTCTTTTT
1 TTATTTCTTTTT
71728 CAAGAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 16 0.62
19 4 0.15
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATTTCTTTTTTCATTT
Found at i:79890 original size:46 final size:47
Alignment explanation
Indices: 79814--79906 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 47
79804 TCATGCTTTG
* *
79814 TTATTCACAAAAATAAATCCTAACCACATGATATCTAATTTGCATGC
1 TTATTCAAAAAAATAAATCCTAACCACATGATATCTAATTCGCATGC
* *
79861 TTATTCAAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAATCCTAACCACATGATATCTAATTCGCATGC
79907 ATTTATTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 26 0.62
47 16 0.38
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (47 bp):
TTATTCAAAAAAATAAATCCTAACCACATGATATCTAATTCGCATGC
Found at i:85037 original size:20 final size:20
Alignment explanation
Indices: 85012--85075 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
85002 TTTTCCAAAT
*
85012 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATATGTAAA
**
85032 TCGCAACGATAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
85052 TCACAACGCGAATATGAAAA
1 TCGCAACGCGAATATGTAAA
85072 TCGC
1 TCGC
85076 GTTGCGAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:85082 original size:20 final size:20
Alignment explanation
Indices: 85059--85102 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
85049 AAATCACAAC
*
85059 GCGAATATGAAAATCGCGTT
1 GCGAATATGAAAATCGCATT
*
85079 GCGAATTTGAAAATCGCATT
1 GCGAATATGAAAATCGCATT
85099 GCGA
1 GCGA
85103 TAATACTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (20 bp):
GCGAATATGAAAATCGCATT
Found at i:85118 original size:20 final size:20
Alignment explanation
Indices: 85095--85135 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
85085 TTGAAAATCG
85095 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTGTTTA
*
85115 CATTGCGATAGTACTGTTTA
1 CATTGCGATAATACTGTTTA
85135 C
1 C
85136 CTATATCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTGTTTA
Found at i:85188 original size:57 final size:58
Alignment explanation
Indices: 85114--85249 Score: 222
Period size: 57 Copynumber: 2.4 Consensus size: 58
85104 AATACTGTTT
85114 ACATTGCGATAGTACTGTTTACCTATATCGCTAATTAGCGTTGCGAATTTGAAAATC-
1 ACATTGCGATAGTACTGTTTACCTATATCGCTAATTAGCGTTGCGAATTTGAAAATCG
* * * *
85171 ACATTGTGATATTACTGTTTACCTATATCGGTAATTAGCGTTGTGAATTTGAAAATCG
1 ACATTGCGATAGTACTGTTTACCTATATCGCTAATTAGCGTTGCGAATTTGAAAATCG
85229 A-ATTGCGATAGTACTGTTTAC
1 ACATTGCGATAGTACTGTTTAC
85250 ATTGCGATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
57 71 0.99
58 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (58 bp):
ACATTGCGATAGTACTGTTTACCTATATCGCTAATTAGCGTTGCGAATTTGAAAATCG
Found at i:85235 original size:77 final size:77
Alignment explanation
Indices: 85154--85387 Score: 321
Period size: 77 Copynumber: 3.0 Consensus size: 77
85144 CTAATTAGCG
* * *
85154 TTGCGAATTTGAAAATCACATTGTGATATTACTGTTTACCTATATCGGTAATTAGCGTTGTGAAT
1 TTGCGAATTTGAAAATCACATTGCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
*
85219 TTGAAAATCGAA
66 TTGAAAATCGCA
* * * * * *
85231 TTGCGATAGTACTG---TTTACATTGCGATAATAATGTTTACCTACATCGGTAATTAGTGTTGCG
1 TTGCGA-A-T-TTGAAAATCACATTGCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCG
85293 AATTTGAAAATCGCA
63 AATTTGAAAATCGCA
*
85308 TTGCGAATTTGAAAATCACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
1 TTGCGAATTTGAAAATCACATTGCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
85373 TTGAAAATCGCA
66 TTGAAAATCGCA
85385 TTG
1 TTG
85388 TGATTTTAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
74 2 0.01
75 1 0.01
76 1 0.01
77 126 0.94
78 1 0.01
79 1 0.01
80 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (77 bp):
TTGCGAATTTGAAAATCACATTGCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
TTGAAAATCGCA
Found at i:85255 original size:20 final size:20
Alignment explanation
Indices: 85230--85269 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
85220 TGAAAATCGA
* *
85230 ATTGCGATAGTACTGTTTAC
1 ATTGCGATAATAATGTTTAC
85250 ATTGCGATAATAATGTTTAC
1 ATTGCGATAATAATGTTTAC
85270 CTACATCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTGCGATAATAATGTTTAC
Found at i:85313 original size:20 final size:20
Alignment explanation
Indices: 85288--85333 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
85278 GTAATTAGTG
*
85288 TTGCGAATTTGAAAATCGCA
1 TTGCGAATTTGAAAATCACA
85308 TTGCGAATTTGAAAATCACA
1 TTGCGAATTTGAAAATCACA
85328 TTGCGA
1 TTGCGA
85334 TAGTACTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
TTGCGAATTTGAAAATCACA
Found at i:85464 original size:20 final size:20
Alignment explanation
Indices: 85439--85479 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
85429 ACCGATATAG
85439 GTAAACAGTACTATCACAAT
1 GTAAACAGTACTATCACAAT
*
85459 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCACAAT
85479 G
1 G
85480 CGATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (20 bp):
GTAAACAGTACTATCACAAT
Found at i:85541 original size:20 final size:20
Alignment explanation
Indices: 85516--85556 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
85506 ACCGATATAG
85516 GTAAACAATACTATCGCAAT
1 GTAAACAATACTATCGCAAT
* *
85536 GTAAACAGTTCTATCGCAAT
1 GTAAACAATACTATCGCAAT
85556 G
1 G
85557 CGATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (20 bp):
GTAAACAATACTATCGCAAT
Found at i:85608 original size:77 final size:77
Alignment explanation
Indices: 85399--85611 Score: 381
Period size: 77 Copynumber: 2.8 Consensus size: 77
85389 GATTTTAAAA
* * *
85399 AATGCGATTTTCAAATTCGTAACGATAATTACCGATATAGGTAAACAGTACTATCACAATGTAAA
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAA
85464 CAGTACTATCGC
66 CAGTACTATCGC
*
85476 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAA
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAA
*
85541 CAGTTCTATCGC
66 CAGTACTATCGC
85553 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAA
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAA
85612 CGCGATTTTC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 130 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (77 bp):
AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAA
CAGTACTATCGC
Found at i:85636 original size:20 final size:20
Alignment explanation
Indices: 85613--85660 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
85603 CTATCGCAAC
85613 GCGATTTTCATATTCGCGTT
1 GCGATTTTCATATTCGCGTT
*
85633 GCGATTTACATATTCGCGTT
1 GCGATTTTCATATTCGCGTT
85653 GCGATTTT
1 GCGATTTT
85661 GGAACCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (20 bp):
GCGATTTTCATATTCGCGTT
Found at i:85636 original size:77 final size:76
Alignment explanation
Indices: 85399--85649 Score: 276
Period size: 77 Copynumber: 3.3 Consensus size: 76
85389 GATTTTAAAA
* * * *
85399 AATGCGATTTTCAAATTCGTAACGATAATTACCGATATAGGTAAACAGTACTATCACAA-TG-TA
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAGAGATA
**
85462 AACAGTACTATCGC
66 TTCA-TA-T-TCGC
* *
85476 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAA
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAA-G-AGA
*
85541 CAGTTC-TA-TCGC
64 TA-TTCATATTCGC
*
85553 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAT
1 AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAA-GAGAT
*
85618 TTTCATATTCGC
65 ATTCATATTCGC
** * *
85630 GTTGCGATTTACATATTCGC
1 AATGCGATTTTCAAATTCGC
85650 GTTGCGATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
75 3 0.02
76 3 0.02
77 138 0.93
80 2 0.01
81 1 0.01
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (76 bp):
AATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAGAGATA
TTCATATTCGC
Found at i:91549 original size:150 final size:149
Alignment explanation
Indices: 91271--91568 Score: 386
Period size: 150 Copynumber: 2.0 Consensus size: 149
91261 TTGCGAACGA
* * ** * *
91271 CGAGTGAGCATTTTATTATAAATTAATAATATTAGTGATTAATATGTTTTTTTTTAATTTTAATA
1 CGAGTGAGCATTTTATTACAAATTAATAATATTAGTGACTAATATGTTTTTTTGAAACTTCAATA
* * * **
91336 GGAAAAATAAAATTTTAATTAAACATTTGTGATTATTTATATAATTTATCTATAAAATAATGAGA
66 GGAAAAATAAAATTTTAATCAAACATTAGTAACCATTTATATAATTTATCTATAAAATAATGAGA
*
91401 AGAATTAAAATTATAATGG
131 AGAATCAAAATTATAATGG
* * *
91420 CGAGTGATCATTTTGTTACAAATTGATAATATTAGTGACTAATAT-TTCATTTTTGAAACTTCAA
1 CGAGTGAGCATTTTATTACAAATTAATAATATTAGTGACTAATATGTT--TTTTTGAAACTTCAA
*
91484 TAAGGAAAACA-AAAA-TTTACTCAAACATTAGTAACCATTTATATAATTTATCTATAAAATAAT
64 T-AGGAAAA-ATAAAATTTTAATCAAACATTAGTAACCATTTATATAATTTATCTATAAAATAAT
*
91547 GAGACGAATCAAAATTATAATG
127 GAGAAGAATCAAAATTATAATG
91569 TATCTAAACA
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
148 2 0.02
149 40 0.31
150 74 0.58
151 11 0.09
152 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (149 bp):
CGAGTGAGCATTTTATTACAAATTAATAATATTAGTGACTAATATGTTTTTTTGAAACTTCAATA
GGAAAAATAAAATTTTAATCAAACATTAGTAACCATTTATATAATTTATCTATAAAATAATGAGA
AGAATCAAAATTATAATGG
Found at i:101723 original size:18 final size:18
Alignment explanation
Indices: 101697--101731 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
101687 CAGCAGCCAC
*
101697 CGCAGCCATATATGATGT
1 CGCAACCATATATGATGT
101715 CGCAACCATATATGATG
1 CGCAACCATATATGATG
101732 CCGCCATCGC
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:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (18 bp):
CGCAACCATATATGATGT
Found at i:102100 original size:21 final size:21
Alignment explanation
Indices: 102074--102113 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
102064 TGCTCAGAAC
*
102074 GACGACGACGATGACGATGGT
1 GACGACGACAATGACGATGGT
102095 GACGACGACAATGACGATG
1 GACGACGACAATGACGATG
102114 ATGATGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.35, T:0.12
Consensus pattern (21 bp):
GACGACGACAATGACGATGGT
Found at i:102335 original size:54 final size:49
Alignment explanation
Indices: 102235--102335 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 49
102225 ATATTTGTAT
* * *
102235 TTACTTTATTTTGTTTAATTGTAATTTTTTATTATTTATCATTTAATAC
1 TTACTTTATTTTGTTAAATTGTAATTTTTTAATATTTATCAGTTAATAC
*
102284 TTACTTTATTTTGTTAAATTTGTTAGATTTTTTTTAATATTTTTCAGTTAAT
1 TTACTTTATTTTGTTAAA-TTG-TA-A--TTTTTTAATATTTATCAGTTAAT
102336 TTTGTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 17 0.40
50 3 0.07
51 2 0.05
52 1 0.02
54 20 0.47
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (49 bp):
TTACTTTATTTTGTTAAATTGTAATTTTTTAATATTTATCAGTTAATAC
Found at i:124229 original size:36 final size:36
Alignment explanation
Indices: 124181--124251 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
124171 CAGCAAGATT
124181 GTGCGTTAGCATCTTGGTTGCTCGCATCAATTAGTA
1 GTGCGTTAGCATCTTGGTTGCTCGCATCAATTAGTA
*
124217 GTGCGTTGGCATCTTGGTTGCTCGCATCAATTAGT
1 GTGCGTTAGCATCTTGGTTGCTCGCATCAATTAGT
124252 CCCTCCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (36 bp):
GTGCGTTAGCATCTTGGTTGCTCGCATCAATTAGTA
Found at i:125276 original size:42 final size:36
Alignment explanation
Indices: 125190--125478 Score: 334
Period size: 36 Copynumber: 8.0 Consensus size: 36
125180 AGAAATACAA
* *
125190 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
* * *
125226 GAATGGAAGGAGGTATCAGCACTTTCGTTTCCGATTCAAGTC
1 GAACGGAAGGAGGCATCGGCA----C--TTCCGATTCAAGTC
125268 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
*
125304 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
* * *
125340 GAACGGAAGGAAGCATCGGCACCTCCGAGTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
* * *
125376 GAA---AAGGAGGCATTGGCCCTTCCGAGTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
** *
125409 GAACGGAAGGAGGCATCAACACTTTCGATTCAAGTC
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
* * *
125445 GAACGGAATGAGGCGTC-GCACTTTCGATTCAAGT
1 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGT
125479 GTTCATTTTT
Statistics
Matches: 222, Mismatches: 22, Indels: 19
0.84 0.08 0.07
Matches are distributed among these distances:
33 29 0.13
35 16 0.07
36 143 0.64
38 1 0.00
40 1 0.00
42 32 0.14
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (36 bp):
GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
Found at i:125367 original size:72 final size:72
Alignment explanation
Indices: 125190--125478 Score: 334
Period size: 69 Copynumber: 4.0 Consensus size: 72
125180 AGAAATACAA
* * *
125190 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAATGGAAGGAGGTATCAGCACTTTCGTT
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGGCA----C--T
125255 TCCGATTCAAGTC
60 TCCGATTCAAGTC
* * *
125268 GAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTCCGAT
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
125333 TCAAGTC
66 TCAAGTC
* * * * * *
125340 GAACGGAAGGAAGCATCGGCACCTCCGAGTCAAGTCGAA---AAGGAGGCATTGGCCCTTCCGAG
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
125402 TCAAGTC
66 TCAAGTC
* * * * * *
125409 GAACGGAAGGAGGCATCAACACTTTCGATTCAAGTCGAACGGAATGAGGCGTC-GCACTTTCGAT
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
125473 TCAAGT
66 TCAAGT
125479 GTTCATTTTT
Statistics
Matches: 183, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
69 59 0.32
71 14 0.08
72 58 0.32
74 1 0.01
78 51 0.28
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (72 bp):
GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGAT
TCAAGTC
Found at i:125440 original size:105 final size:108
Alignment explanation
Indices: 125190--125452 Score: 343
Period size: 105 Copynumber: 2.4 Consensus size: 108
125180 AGAAATACAA
* * *
125190 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAATGGAAGGAGGTATCAGCACTTTCGTT
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCAGCAC--TC--T
* *
125255 TCCGATTCAAGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCAAGTC
62 TCCGAGTCAAGTCGAA--GAAGGAGGCATCGGCACTTCCGAGTCAAGTC
* *
125304 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGGCAC-C-TCCG
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCAGCACTCTTCCG
* *
125367 AGTCAAGTCGAA-AAGGAGGCATTGGCCCTTCCGAGTCAAGTC
66 AGTCAAGTCGAAGAAGGAGGCATCGGCACTTCCGAGTCAAGTC
* * *
125409 GAACGGAAGGAGGCATCAACACTTTCGATTCAAGTCGAACGGAA
1 GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAA
125453 TGAGGCGTCG
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
105 67 0.49
108 15 0.11
111 1 0.01
114 53 0.39
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.18
Consensus pattern (108 bp):
GAACGGAAGGAAGCATCAGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCAGCACTCTTCCG
AGTCAAGTCGAAGAAGGAGGCATCGGCACTTCCGAGTCAAGTC
Found at i:130124 original size:57 final size:57
Alignment explanation
Indices: 130063--130173 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
130053 TCTCTCTCTC
*
130063 TATATATATATTGAAACTAGTTGTTGGTTTTGAAGGGATTTTATACGTGATGATATA
1 TATATATATATTGAAACTAGTTGTTGGTTTTGAAGGGATTTTAGACGTGATGATATA
130120 TATATATATATTGAAACTAGTTGTTGGTTTTGAAGGGATTTTAGACGTGATGAT
1 TATATATATATTGAAACTAGTTGTTGGTTTTGAAGGGATTTTAGACGTGATGAT
130174 GGCGGTGACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.43
Consensus pattern (57 bp):
TATATATATATTGAAACTAGTTGTTGGTTTTGAAGGGATTTTAGACGTGATGATATA
Found at i:136404 original size:2 final size:2
Alignment explanation
Indices: 136397--136440 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
136387 AAATTTTAGG
*
136397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136438 AT A
1 AT A
136441 AACTCTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138151 original size:2 final size:2
Alignment explanation
Indices: 138144--138192 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
138134 CATTAAACAA
138144 AT AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT
138186 AT AT AT A
1 AT AT AT A
138193 CAAACAAGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:138877 original size:30 final size:30
Alignment explanation
Indices: 138821--138877 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
138811 TCTTCCATAA
*
138821 GATTCCACACATCTCCAAAATATTCTAGAG
1 GATTCCACACATCTCCAAAAGATTCTAGAG
* *
138851 GATTCCACAC-TCTTCCACAAGCTTCTA
1 GATTCCACACATC-TCCAAAAGATTCTA
138878 AAGAGTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.28
Consensus pattern (30 bp):
GATTCCACACATCTCCAAAAGATTCTAGAG
Found at i:147138 original size:37 final size:37
Alignment explanation
Indices: 147062--147138 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
147052 TTTATATATT
*
147062 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
147099 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
147136 TTT
1 TTT
147139 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:147321 original size:18 final size:18
Alignment explanation
Indices: 147282--147342 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
147272 TAGTAATCAT
* **
147282 ATTCCCTGGTAATCTTTT
1 ATTCCCAGGTAATCTTAC
147300 ATTCCCAGGTAATCTTAC
1 ATTCCCAGGTAATCTTAC
*
147318 ATTCCCACTGATAATCTTAC
1 ATTCCCA--GGTAATCTTAC
147338 ATTCC
1 ATTCC
147343 GTGAATCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 22 0.59
20 15 0.41
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTCCCAGGTAATCTTAC
Found at i:150881 original size:27 final size:27
Alignment explanation
Indices: 150848--150905 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
150838 TAACCGGTTT
* * *
150848 CGGTTTGCAAAAAACCGGTTTTTTATC
1 CGGTTTGAAAAAAACCGATTTTTAATC
150875 CGGTTTGAAAAAAACCGATTTTTAATC
1 CGGTTTGAAAAAAACCGATTTTTAATC
150902 CGGT
1 CGGT
150906 AAAAAAACCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (27 bp):
CGGTTTGAAAAAAACCGATTTTTAATC
Found at i:150896 original size:26 final size:28
Alignment explanation
Indices: 150848--150916 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
150838 TAACCGGTTT
* *
150848 CGGTTTGCAAAAAACCGG-TTTTTTATC
1 CGGTTTGAAAAAAACCGGATTTTTAATC
150875 CGGTTTGAAAAAAACC-GATTTTTAATC
1 CGGTTTGAAAAAAACCGGATTTTTAATC
150902 CGG--T-AAAAAAACCGG
1 CGGTTTGAAAAAAACCGG
150917 TCGTTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 9 0.24
25 2 0.05
26 1 0.03
27 26 0.68
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (28 bp):
CGGTTTGAAAAAAACCGGATTTTTAATC
Found at i:153024 original size:82 final size:82
Alignment explanation
Indices: 152887--153051 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
152877 TGTCTGGCTG
*
152887 AGAACCAGCTTTGTACCTAAGAAACAATAATGAAATTAGTGATCAAAGGAGATATCCTAAACTAT
1 AGAACCAGCTTTGTACCTAAGAAACAATAATGAAATTAGCGATCAAAGGAGATATCCTAAACTAT
152952 ACAACATCAACGAGATA
66 ACAACATCAACGAGATA
152969 AGAACCAGCTTTGTACCTAAGAAACAATAATGAAATTAGCGATCAAAGGAGATATCCTAAACTAT
1 AGAACCAGCTTTGTACCTAAGAAACAATAATGAAATTAGCGATCAAAGGAGATATCCTAAACTAT
153034 ACAACATCAACGAGATA
66 ACAACATCAACGAGATA
153051 A
1 A
153052 CCAAATTGAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (82 bp):
AGAACCAGCTTTGTACCTAAGAAACAATAATGAAATTAGCGATCAAAGGAGATATCCTAAACTAT
ACAACATCAACGAGATA
Found at i:157830 original size:16 final size:16
Alignment explanation
Indices: 157806--157839 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
157796 TATCGCCGAC
*
157806 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
157822 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
157838 CG
1 CG
157840 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:161628 original size:27 final size:26
Alignment explanation
Indices: 161566--161629 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
161556 TTAATGTTAT
*
161566 TTATTTAATAATTATTATTATTATAA
1 TTATTTAATAATTATTATTAATATAA
*
161592 TTATAATAATAATTATTATTAATATATA
1 TTAT-TTAATAATTATTATTAATATA-A
161620 TTATTTAATA
1 TTATTTAATA
161630 TTACAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 24 0.73
28 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTTAATAATTATTATTAATATAA
Found at i:167038 original size:15 final size:15
Alignment explanation
Indices: 167018--167049 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
167008 ATCAATACCT
167018 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
167033 TTTTGCATACATTCA
1 TTTTGCATACATGCA
167048 TT
1 TT
167050 ATTCATTTCA
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:174362 original size:13 final size:13
Alignment explanation
Indices: 174344--174376 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
174334 TATGCTTAAG
*
174344 AGAAAAAGAAAGA
1 AGAAAAAGAAAAA
174357 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
174370 AGAAAAA
1 AGAAAAA
174377 AGGGAGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:174377 original size:7 final size:7
Alignment explanation
Indices: 174341--174378 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
174331 TATTATGCTT
174341 AAGAGAAA
1 AAGA-AAA
*
174349 AAGAAAG
1 AAGAAAA
174356 AAG-AAA
1 AAGAAAA
174362 AAGAAAA
1 AAGAAAA
174369 AAGAAAA
1 AAGAAAA
174376 AAG
1 AAG
174379 GGAGTTCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 5 0.19
7 18 0.67
8 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:175826 original size:83 final size:83
Alignment explanation
Indices: 175687--175985 Score: 507
Period size: 83 Copynumber: 3.6 Consensus size: 83
175677 AACAAATGCC
175687 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
175752 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
* *
175770 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
**
175835 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAATA
*
175853 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT-TCTGATCTGGTTTGGT-AAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
*
175916 ATTGAATTTGAAAG-ATAA
66 ATTGAATTTGGAAGAAT-A
175934 ATGTGCT-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
175986 ATATGAAACC
Statistics
Matches: 204, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
80 30 0.15
81 43 0.21
82 15 0.07
83 116 0.57
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
ATTGAATTTGGAAGAATA
Found at i:175979 original size:163 final size:166
Alignment explanation
Indices: 175687--175985 Score: 525
Period size: 163 Copynumber: 1.8 Consensus size: 166
175677 AACAAATGCC
*
175687 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
175752 ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGAAAGAATAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCT
175817 GATTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
131 GATTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
175853 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT-TCTGATCTGGTTTGGT-AAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
175916 ATTGAATTTGAAAG-ATAAATGTGCT-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
66 ATTGAATTTGAAAGAAT-AATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATC
*
175979 TGGTTTG
130 TGATTTG
175986 ATATGAAACC
Statistics
Matches: 128, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
163 45 0.35
164 29 0.23
165 16 0.12
166 38 0.30
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (166 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGAAAGAATAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCT
GATTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
Found at i:176249 original size:112 final size:116
Alignment explanation
Indices: 175941--176253 Score: 478
Period size: 116 Copynumber: 2.7 Consensus size: 116
175931 TAAATGTGCT
*
175941 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAGACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGA-ACCA
* *
176006 AT-CAT-AAATTTGAAAGATGAATTTGCTCATAGTAGAAAATAAGGAGACTCA
65 ATCCTTGGAA-TTGAAAGATGAATTTGCTCATAGTAGAAAATAAGGAGACTCA
176057 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACC-A
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
* *
176121 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAG-AAATAAGGAGACTCA
66 TCCTTGGAATTGAAAGATGAATTTGCTCATAGTAGAAAATAAGGAGACTCA
* * *
176171 ATAGCATCTTCTGGAAGT-AT-TTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
176233 TCCTTGGAATTAAAAGATGAA
66 TCCTTGGAATTGAAAGATGAA
176254 CTGCATGATC
Statistics
Matches: 183, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
111 12 0.07
112 45 0.25
113 1 0.01
114 35 0.19
115 30 0.16
116 60 0.33
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (116 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCCTTGGAATTGAAAGATGAATTTGCTCATAGTAGAAAATAAGGAGACTCA
Found at i:177555 original size:343 final size:342
Alignment explanation
Indices: 176929--178040 Score: 1897
Period size: 343 Copynumber: 3.3 Consensus size: 342
176919 GCAAAGATTT
176929 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
176994 AATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATGTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATGTGATG
177059 GATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
131 GATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
177124 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
196 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
177189 GAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
261 GAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
*
177254 TGTTCAACCTTTTGCGCC
326 TGTTCAACCTTTTGC-TC
177272 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
177337 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCTTCATGTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATGTGATG
177402 GATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
131 GATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
177467 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
196 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
177532 GAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
261 GAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
*
177597 TGTTCAACCTTTTGTTC
326 TGTTCAACCTTTTGCTC
*
177614 AAATCCATCACTTGATGGATCAGCTTTTCCAGA-AGAAGTTCATAATAAGAAGAACTCATCTGAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAA
* * ** *
177678 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACT-TGA
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCA-TGTGA
* *** * *
177742 TGGATCAGCTTTTCCA-G-AGAAGTTCATAATAAGAAGAACTCA-T-C-TGAAGAAGGAAGAAGA
129 TGGATTAAAATTTCCAGGTAG-AGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGA
* *
177802 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTT
193 AATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTT
*
177867 CCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGA
258 CCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
**
177931 GCTTGTTCAACCTTTTGCTC
323 ATTTGTTCAACCTTTTGCTC
*
177951 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---G
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
178013 AA-GAAGAAGAATTTCATAATGAGAAGAA
66 AAGGAAGAAGAAGTTCATAATGAGAAGAA
178041 CTCATCTGAA
Statistics
Matches: 739, Mismatches: 26, Indels: 18
0.94 0.03 0.02
Matches are distributed among these distances:
333 25 0.03
334 3 0.00
337 133 0.18
338 83 0.11
339 1 0.00
340 3 0.00
341 23 0.03
342 130 0.18
343 338 0.46
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (342 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATGTGATG
GATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
GAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
TGTTCAACCTTTTGCTC
Found at i:177616 original size:113 final size:112
Alignment explanation
Indices: 176929--178040 Score: 1655
Period size: 113 Copynumber: 9.8 Consensus size: 112
176919 GCAAAGATTT
*
176929 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
* * * *
176994 AATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * *** *
177042 GAATTCATCA-TGTGATGGATTAAAATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACT
1 AAATCCATCACT-TGATGGATCAGCTTTTCCAGAG-A-AGTTCATAATAAGAAGAACTCA-T-C-
* * *
177105 TGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
60 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
177158 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
*
177223 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCGCC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TC
*
177272 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
* * *
177337 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *** *
177385 GAATTCTTCA-TGTGATGGATTAAAATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACT
1 AAATCCATCACT-TGATGGATCAGCTTTTCCAGAG-A-AGTTCATAATAAGAAGAACTCA-T-C-
* * *
177448 TGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
60 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
177501 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
*
177566 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
177614 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
177679 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
177727 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
177792 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
177839 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
* **
177904 ATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
177951 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---G
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
*
178013 AA-GAAGAAGAATTTCATAATGAGAAGAA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAA
178041 CTCATCTGAA
Statistics
Matches: 916, Mismatches: 64, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
109 24 0.03
110 3 0.00
112 228 0.25
113 359 0.39
114 110 0.12
115 4 0.00
116 182 0.20
117 4 0.00
118 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (112 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:178039 original size:17 final size:17
Alignment explanation
Indices: 178017--178077 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
178007 CATCTGAAGA
178017 AGAAGAATTTCATAATG
1 AGAAGAATTTCATAATG
* *
178034 AGAAGAA-CTCAT-CTG
1 AGAAGAATTTCATAATG
*
178049 AAAGAAGAAATTCATAATG
1 --AGAAGAATTTCATAATG
178068 AGAAGAATTT
1 AGAAGAATTT
178078 GTTCAACCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.06
16 4 0.11
17 23 0.66
18 4 0.11
19 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (17 bp):
AGAAGAATTTCATAATG
Found at i:178063 original size:34 final size:36
Alignment explanation
Indices: 177983--178074 Score: 152
Period size: 34 Copynumber: 2.6 Consensus size: 36
177973 GCTTTTCCAG
177983 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAA-TTCATAATGAGAAGAACTCATCTGAAGAAGA
*
178020 AGAATTTCATAATGAGAAGAACTCATCTG-A-AAGA
1 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
178054 AGAAATTCATAATGAGAAGAA
1 AGAAATTCATAATGAGAAGAA
178075 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 24 0.45
35 1 0.02
36 24 0.45
37 4 0.08
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.21
Consensus pattern (36 bp):
AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:178177 original size:139 final size:148
Alignment explanation
Indices: 177869--178178 Score: 426
Period size: 139 Copynumber: 2.2 Consensus size: 148
177859 CAGCTTTTCC
*
177869 AGAG-AAGTTCATAATAAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAGC
1 AGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAAC
* * * *
177933 TTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATG
66 TTGTTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACTCTTACAGAGAAAGTTCAT-ATG
177998 AGAAGAACTCATCTGAAGA
130 AGAAGAACTCATCTGAAGA
* *
178017 AGA-AGAATTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAA
1 AGAGA-AAGTTCATAATAAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAA
* * * *
178075 TTTGTTCAACC-TTTGTTCAAATTCATCACTTAATGGATCAAC-CTTACAGAGAAAGTTCAT-TG
65 CTTGTTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACTCTTACAGAGAAAGTTCATATG
178137 AGAAGAACTCATCTGAAGA
130 AGAAGAACTCATCTGAAGA
178156 AGAGAAAGTTCATAATAAGAAGA
1 AGAGAAAGTTCATAATAAGAAGA
178179 GCTTATTCAA
Statistics
Matches: 146, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
139 40 0.27
140 1 0.01
141 16 0.11
142 26 0.18
143 25 0.17
144 2 0.01
145 1 0.01
146 4 0.03
147 2 0.01
148 4 0.03
149 25 0.17
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (148 bp):
AGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACTCTTACAGAGAAAGTTCATATGA
GAAGAACTCATCTGAAGA
Found at i:178245 original size:255 final size:260
Alignment explanation
Indices: 177759--178272 Score: 608
Period size: 255 Copynumber: 2.0 Consensus size: 260
177749 GCTTTTCCAG
177759 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * *
177824 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAA
66 TTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAACTCTTACAGAGAAGTTCAT-ATAAGAA
* * *
177889 GAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAA
130 GAACTCATCTGAAGAATGAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGATCAAA
** * * ** *
177954 TCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
195 TCCATCAAACGAAGGATCAACTTCCCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
178019 A
260 A
* *
178020 AGAATTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * *
178079 TTCAACC-TTTGTTCAAATTCATCACTTAATGGATCAAC-CTTACAGAGAAAGTTCAT-TGAGAA
66 TTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAACTCTTACAGAG-AAGTTCATATAAGAA
*
178141 GAACTCATCTGAAGAA-G-AG-A-AAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGAATGAC
130 GAACTCATCTGAAGAATGAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG-ATCA-
* * * *
178202 TAT-CAT-AGAAGGAAAGAGGTCAACATCATCCCCAGTGGAAAGTTCATAATAAGAAGAACTCAT
193 AATCCATCA-AACG-AAG-GATCAAC-T--TCCCCAG-AGAAAGTTCATAATAAGAAGAACTCAT
178265 CTGAAGAA
251 CTGAAGAA
178273 AGAGAAGAAT
Statistics
Matches: 219, Mismatches: 24, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
248 34 0.16
249 7 0.03
250 6 0.03
251 6 0.03
252 22 0.10
253 7 0.03
254 40 0.18
255 60 0.27
256 2 0.01
257 1 0.00
258 4 0.02
259 2 0.01
260 1 0.00
261 27 0.12
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (260 bp):
AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAACTCTTACAGAGAAGTTCATATAAGAAG
AACTCATCTGAAGAATGAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGATCAAAT
CCATCAAACGAAGGATCAACTTCCCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGA
Found at i:178460 original size:27 final size:27
Alignment explanation
Indices: 178418--178481 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
178408 TTAATGTTAT
*
178418 TTATATAATAATTATTATTATTATA-A
1 TTATATAATAATTATTATTAATATATA
178444 TTATAATAATAATTATTATTAATATATA
1 TTAT-ATAATAATTATTATTAATATATA
*
178472 TTATTTAATA
1 TTATATAATA
178482 TTAAAAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 25 0.74
28 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATATAATAATTATTATTAATATATA
Found at i:178912 original size:13 final size:13
Alignment explanation
Indices: 178894--178924 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
178884 GAGAGAGACC
*
178894 AACAAAAACAGAG
1 AACAAAAACAAAG
178907 AACAAAAACAAAG
1 AACAAAAACAAAG
178920 AACAA
1 AACAA
178925 TAACCCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.16, G:0.10, T:0.00
Consensus pattern (13 bp):
AACAAAAACAAAG
Found at i:179867 original size:23 final size:23
Alignment explanation
Indices: 179825--179868 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
179815 ATATAATAAA
*
179825 TAATAATTATTATTATTATTTTT
1 TAATAATTATTATTAATATTTTT
179848 TAATAAATTATT-TTAATATTT
1 TAAT-AATTATTATTAATATTT
179869 ATTTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATAATTATTATTAATATTTTT
Found at i:183930 original size:23 final size:23
Alignment explanation
Indices: 183899--183949 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
183889 AGCATTTAAG
183899 TTTGATTATT-TTT-ATGTAATA
1 TTTGATTATTATTTAATGTAATA
*
183920 TATTGATTTATTATTTAATTTAATA
1 T-TTGA-TTATTATTTAATGTAATA
183945 TTTGA
1 TTTGA
183950 ATTGGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 4 0.16
23 5 0.20
24 7 0.28
25 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (23 bp):
TTTGATTATTATTTAATGTAATA
Found at i:185130 original size:13 final size:14
Alignment explanation
Indices: 185109--185137 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
185099 ATAAGAAGAT
185109 AATGCAAATAAATA
1 AATGCAAATAAATA
185123 AATG-AAATAAATA
1 AATGCAAATAAATA
185136 AA
1 AA
185138 AGGGAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
AATGCAAATAAATA
Found at i:185175 original size:13 final size:13
Alignment explanation
Indices: 185159--185220 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
185149 AGATAGAAAT
185159 AAAAGAAAAATAA
1 AAAAGAAAAATAA
*
185172 AAAAG-AAAGTAA
1 AAAAGAAAAATAA
*
185184 AAATGAATAAATAA
1 AAAAGAA-AAATAA
* *
185198 AATAGAAAAGTAA
1 AAAAGAAAAATAA
*
185211 AATAGAAAAA
1 AAAAGAAAAA
185221 AAATAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 10 0.25
13 20 0.50
14 10 0.25
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAGAAAAATAA
Found at i:185195 original size:26 final size:25
Alignment explanation
Indices: 185159--185220 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
185149 AGATAGAAAT
185159 AAAAGAAAAATAAAAAAG-AAAGTA
1 AAAAGAAAAATAAAAAAGAAAAGTA
*
185183 AAAATGAATAAATAAAATAGAAAAGTA
1 AAAA-GAA-AAATAAAAAAGAAAAGTA
185210 AAATAGAAAAA
1 AAA-AGAAAAA
185221 AAATAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.12
25 3 0.09
26 13 0.39
27 12 0.36
28 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAAGAAAAATAAAAAAGAAAAGTA
Done.