Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 14
Found at i:1101016 original size:22 final size:24
Alignment explanation
Indices: 1100991--1101039 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
1100981 CCTAAAACTG
1100991 AAGCAAAAAACA-TAAA-AAAA-GA
1 AAGC-AAAAACAGTAAAGAAAATGA
1101013 AAGCAAAAACAGTAAAGAAAATGA
1 AAGCAAAAACAGTAAAGAAAATGA
1101037 AAG
1 AAG
1101040 TCAGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 4 0.17
24 5 0.21
ACGTcount: A:0.71, C:0.08, G:0.14, T:0.06
Consensus pattern (24 bp):
AAGCAAAAACAGTAAAGAAAATGA
Found at i:1104440 original size:42 final size:42
Alignment explanation
Indices: 1104357--1104470 Score: 180
Period size: 42 Copynumber: 2.8 Consensus size: 42
1104347 ATTATTTTCG
*
1104357 TCACAAATCACCAACTAAGA--AGTGACAAAAACAATTATCA
1 TCACAAATCACAAACTAAGACTAGTGACAAAAACAATTATCA
*
1104397 TCACAAATCACAAACTAAGACTAGTTACAAAAACAATTATCA
1 TCACAAATCACAAACTAAGACTAGTGACAAAAACAATTATCA
1104439 TCACAAATCACCAAA-TAAGACTAGTGACAAAA
1 TCACAAATCA-CAAACTAAGACTAGTGACAAAA
1104471 TATTTTCATC
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 19 0.28
42 45 0.66
43 4 0.06
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.18
Consensus pattern (42 bp):
TCACAAATCACAAACTAAGACTAGTGACAAAAACAATTATCA
Found at i:1108027 original size:7 final size:7
Alignment explanation
Indices: 1108015--1108046 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
1108005 AAAAAATATT
1108015 ATATTTC
1 ATATTTC
1108022 ATATTTC
1 ATATTTC
1108029 ATATTTC
1 ATATTTC
1108036 ATATTTC
1 ATATTTC
1108043 ATAT
1 ATAT
1108047 CATTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATTTC
Found at i:1108108 original size:14 final size:15
Alignment explanation
Indices: 1108089--1108120 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1108079 TATAACATAA
1108089 TTTTACAATTAA-AT
1 TTTTACAATTAATAT
1108103 TTTTACAATTAATAT
1 TTTTACAATTAATAT
1108118 TTT
1 TTT
1108121 AATAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTACAATTAATAT
Found at i:1108862 original size:20 final size:21
Alignment explanation
Indices: 1108837--1108888 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1108827 TTTTCCCAAT
*
1108837 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
1108857 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
1108878 TCGCAATGCGA
1 TCGCAATGCGA
1108889 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:1108902 original size:20 final size:20
Alignment explanation
Indices: 1108877--1109011 Score: 139
Period size: 20 Copynumber: 6.7 Consensus size: 20
1108867 AATTGGAAAA
1108877 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
1108897 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1108917 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
1108937 ATTGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1108958 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1108978 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1108998 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1109012 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 67 0.70
21 23 0.24
22 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1108990 original size:41 final size:41
Alignment explanation
Indices: 1108874--1109011 Score: 165
Period size: 41 Copynumber: 3.4 Consensus size: 41
1108864 GCGAATTGGA
* *
1108874 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGAC
1 AAAATCGCAATGCGATACTGACTTTCGCAATGCGATAAT-AC
* *
1108916 --TATCGCAATGCGATACTTACTATT-GCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACT-TTCGCAATGCGATAATAC
* * *
1108955 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTTTCGCAATGCGATAATAC
*
1108996 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
1109012 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.03
40 33 0.41
41 45 0.56
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTTTCGCAATGCGATAATAC
Found at i:1109209 original size:21 final size:22
Alignment explanation
Indices: 1109174--1109216 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1109164 CACTCTCTCA
1109174 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1109196 CCCAT-TCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1109217 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1109531 original size:20 final size:20
Alignment explanation
Indices: 1109476--1109523 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1109466 GCGATTCTCT
*
1109476 CGTTGCGATAGTCA-ATTCG
1 CGTTGCGATAGTCATTTTCG
1109495 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
1109515 TGTTGCGAT
1 CGTTGCGAT
1109524 TTTCATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1110804 original size:18 final size:18
Alignment explanation
Indices: 1110783--1110827 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1110773 TCCACTTCGG
*
1110783 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1110801 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
1110819 GAGCCATCA
1 GAGCCATCA
1110828 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1111363 original size:19 final size:20
Alignment explanation
Indices: 1111309--1111375 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1111299 TAGTTTACTT
* *
1111309 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1111329 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1111349 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1111368 TCGCAACG
1 TCGCAACG
1111376 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1111406 original size:32 final size:32
Alignment explanation
Indices: 1111348--1111437 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
1111338 GGAAATGGCT
1111348 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAC-AA
*
1111381 ATTGCAATGCGAAATG-AAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAA
* *
1111412 ATCGCAACGCGAAAAGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1111438 TGCGATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 15 0.29
32 22 0.42
33 15 0.29
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAA
Found at i:1111473 original size:14 final size:14
Alignment explanation
Indices: 1111454--1111544 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
1111444 TTGTGTTTCG
1111454 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1111468 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1111484 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
1111500 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1111517 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1111533 CGTTGCGATTTT
1 CGTTGCGATTTT
1111545 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.42
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.09
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1111518 original size:33 final size:33
Alignment explanation
Indices: 1111449--1111560 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
1111439 GCGATTTGTG
*
1111449 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1111481 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1111514 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1111547 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
1111561 AGCCATTTCC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 26 0.33
33 52 0.67
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1111579 original size:20 final size:19
Alignment explanation
Indices: 1111545--1111600 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1111535 TTGCGATTTT
*
1111545 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1111564 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1111584 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1111601 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1111697 original size:27 final size:26
Alignment explanation
Indices: 1111633--1111699 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
1111623 TAAACTATTC
*
1111633 TTCTTCTGGAATGTTTATATATGTTG
1 TTCTTCTGGAATGTTTATATAAGTTG
**
1111659 TTCTT-TTAAATGTTTATATAAG-TG
1 TTCTTCTGGAATGTTTATATAAGTTG
1111683 CTTACTTCTGGAATGTT
1 -TT-CTTCTGGAATGTT
1111700 ATCTGAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.48
26 8 0.24
27 7 0.21
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.52
Consensus pattern (26 bp):
TTCTTCTGGAATGTTTATATAAGTTG
Found at i:1112061 original size:41 final size:41
Alignment explanation
Indices: 1111965--1112052 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
1111955 GACTCACCTG
* * *
1111965 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
1112007 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
1112048 TCATC
1 TCATC
1112053 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:1113479 original size:14 final size:14
Alignment explanation
Indices: 1113460--1113495 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1113450 ATTGTTTAAT
1113460 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1113474 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1113488 TGATTTGT
1 TGATTTGT
1113496 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1113648 original size:19 final size:19
Alignment explanation
Indices: 1113612--1113648 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1113602 ATCGCAACTA
* *
1113612 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
1113631 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
1113649 ATCGTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:1113714 original size:20 final size:20
Alignment explanation
Indices: 1113691--1113774 Score: 107
Period size: 20 Copynumber: 4.2 Consensus size: 20
1113681 TTTCTAGTTA
1113691 CGATAGCCATTTTCGCGTTG
1 CGATAGCCATTTTCGCGTTG
*** **
1113711 CGATTTTTCA-TTTCGAATTG
1 CGA-TAGCCATTTTCGCGTTG
1113731 CGATAGCCATTTTCGCGTTG
1 CGATAGCCATTTTCGCGTTG
1113751 CGATAGCCATTTTCGCGTTG
1 CGATAGCCATTTTCGCGTTG
1113771 CGAT
1 CGAT
1113775 TTCCCCGTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.06
20 46 0.88
21 3 0.06
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
CGATAGCCATTTTCGCGTTG
Found at i:1113717 original size:34 final size:36
Alignment explanation
Indices: 1113667--1113754 Score: 90
Period size: 40 Copynumber: 2.4 Consensus size: 36
1113657 GCGATTTTCA
* * *
1113667 TTTCGCATTGCAATTTTC-T-AGTTACGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTACGATAGCCAT
*
1113701 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTACGATAGCCAT
1113741 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
1113755 AGCCATTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 11 0.25
35 5 0.11
38 1 0.02
39 1 0.02
40 26 0.59
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTACGATAGCCAT
Found at i:1114013 original size:20 final size:20
Alignment explanation
Indices: 1113988--1114037 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1113978 TTGAAGATGA
1113988 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
1114008 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
1114028 TTGCGATTTT
1 TTGCGATTTT
1114038 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:1114129 original size:20 final size:21
Alignment explanation
Indices: 1114064--1114136 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
1114054 ATAGTCAGTA
1114064 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1114085 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
1114106 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
1114126 TCGCATTGCGA
1 TCGCATTGCGA
1114137 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.35
21 32 0.65
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1114151 original size:41 final size:42
Alignment explanation
Indices: 1114063--1114151 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
1114053 AATAGTCAGT
* * *
1114063 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACCAAA
* ** **
1114105 TTCGCATTGCGA-TTTACTTATTCGCATTGCGAATTAGGAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACCAAA
1114146 ATCGCA
1 ATCGCA
1114152 ACGCGATACT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (42 bp):
ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTACCAAA
Found at i:1114352 original size:12 final size:12
Alignment explanation
Indices: 1114333--1114366 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1114323 CTCTCCGGCG
1114333 ACATCCGTTCCT
1 ACATCCGTTCCT
*
1114345 ATATCCGTTCCT
1 ACATCCGTTCCT
1114357 ACATCC-TTCC
1 ACATCCGTTCC
1114367 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:1114972 original size:24 final size:24
Alignment explanation
Indices: 1114921--1114974 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1114911 GTATTCGAAA
* *
1114921 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
1114945 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
1114969 TTTGAT
1 TTTGAT
1114975 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:1115166 original size:12 final size:12
Alignment explanation
Indices: 1115149--1115185 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
1115139 ATATAATCCT
1115149 GAAGAAGAAAAA
1 GAAGAAGAAAAA
*
1115161 GAAGAAGAAATA
1 GAAGAAGAAAAA
1115173 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1115185 G
1 G
1115186 TCCCCGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1117489 original size:19 final size:19
Alignment explanation
Indices: 1117467--1117558 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
1117457 GGAAATTACT
1117467 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1117486 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1117500 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1117519 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
1117533 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1117552 ATCGCAA
1 ATCGCAA
1117559 CACGAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1117509 original size:33 final size:33
Alignment explanation
Indices: 1117466--1117559 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
1117456 CGGAAATTAC
1117466 TATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGA-A
**
1117500 -ATCGCAATGCGAAATGAAAATCGCAACGCTAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
1117532 TTTCGCAATGCGAAATGAAAATCGCAAC
1 TATCGCAATGCGAAATGAAAATCGCAAC
1117560 ACGAATTTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 1 0.02
33 55 0.98
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (33 bp):
TATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:1117761 original size:14 final size:14
Alignment explanation
Indices: 1117742--1117778 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1117732 CATCAATTAA
1117742 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1117756 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1117770 ACAAATCAA
1 ACAAATCAA
1117779 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1119179 original size:21 final size:21
Alignment explanation
Indices: 1119153--1119267 Score: 58
Period size: 21 Copynumber: 5.5 Consensus size: 21
1119143 GGTGGGAGGA
1119153 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * **
1119174 CCTCTTGAACGGTGGGAG-GG
1 CCTCTTCAACGATGACAGTGG
* * *
1119194 ACTC-TCAAGGAATGATAAG-GG
1 CCTCTTCAACG-ATGA-CAGTGG
*
1119215 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
1119236 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
1119257 CCTCTTGAACG
1 CCTCTTCAACG
1119268 GTGGGAGGGG
Statistics
Matches: 67, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 47 0.70
22 6 0.09
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:1119191 original size:41 final size:40
Alignment explanation
Indices: 1119134--1119275 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 40
1119124 GTGAATCGGG
* *
1119134 CTCTTGAATGGTGGGAGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGA-CTCTTCAAGGATGACAGTGGC
*
1119175 CTCTTGAACGGTGGGAGGGACTC-TCAAGGAATGATAAG-GGC
1 CTCTTGAACGGTGGGA-GGACTCTTCAAGG-ATGA-CAGTGGC
* * * * *
1119216 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGT-GG-GAGGACTCTTCAAGGATGACAGTGGC
1119258 CTCTTGAACGGTGGGAGG
1 CTCTTGAACGGTGGGAGG
1119276 GGACTCTCGA
Statistics
Matches: 82, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
40 8 0.10
41 39 0.48
42 30 0.37
43 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (40 bp):
CTCTTGAACGGTGGGAGGACTCTTCAAGGATGACAGTGGC
Found at i:1119259 original size:42 final size:42
Alignment explanation
Indices: 1119163--1119337 Score: 174
Period size: 42 Copynumber: 4.2 Consensus size: 42
1119153 CCTCTTCAAC
* * * *
1119163 GATGACAGTGGCCTCTTGAACGGTGGGAG-GGACTCTCAAGG
1 GATGACAGTGGCCTCTTCAACGATAGGAGTGGACTCTCGAGG
* * *
1119204 AATGATAAG-GGCCTCTTCAACGATAGGAGTGGACTCTTGAGG
1 GATGA-CAGTGGCCTCTTCAACGATAGGAGTGGACTCTCGAGG
* * * * *
1119246 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGATG
1 GATGACAGTGGCCTCTTCAACGATAGGAGTGGACTCTCGAGG
* * * * *
1119288 AATGATAGGGGCCTCTTCAATGATAGGAGTGGACTCTTGAGG
1 GATGACAGTGGCCTCTTCAACGATAGGAGTGGACTCTCGAGG
1119330 GATGACAG
1 GATGACAG
1119338 GCGAGTCGGG
Statistics
Matches: 104, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
41 23 0.22
42 81 0.78
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (42 bp):
GATGACAGTGGCCTCTTCAACGATAGGAGTGGACTCTCGAGG
Found at i:1119315 original size:84 final size:83
Alignment explanation
Indices: 1119163--1119337 Score: 305
Period size: 84 Copynumber: 2.1 Consensus size: 83
1119153 CCTCTTCAAC
1119163 GATGACAGTGGCCTCTTGAACGGTGGGAGGGACTCTCAAGGAATGATAAGGGCCTCTTCAACGAT
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGACTCTCAAGGAATGATAAGGGCCTCTTCAACGAT
1119228 AGGAGTGGACTCTTGAGG
66 AGGAGTGGACTCTTGAGG
* * * *
1119246 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGATGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGA-GGGACTCTCAAGGAATGATAAGGGCCTCTTCAACGA
1119311 TAGGAGTGGACTCTTGAGG
65 TAGGAGTGGACTCTTGAGG
1119330 GATGACAG
1 GATGACAG
1119338 GCGAGTCGGG
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 28 0.32
84 59 0.68
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (83 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGACTCTCAAGGAATGATAAGGGCCTCTTCAACGAT
AGGAGTGGACTCTTGAGG
Found at i:1119683 original size:95 final size:89
Alignment explanation
Indices: 1119559--1119740 Score: 265
Period size: 91 Copynumber: 2.0 Consensus size: 89
1119549 TCAAACTTTT
* * *
1119559 AACCAAACGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
1 AACCAAAAGACAAAAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTAGCAGA
*
1119624 ATTGGCAGCAACCGAATAAATTTACTTC
62 ATTGGCAGCAACCAAATAAATTTACTTC
*
1119652 AACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTAT
1 AACCAAAAGAC-AAA-AAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGAAT
1119717 TGGCAGCAACCAAATAAATTTACT
64 TGGCAGCAACCAAATAAATTTACT
1119741 AAGCAATCTA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
91 41 0.50
93 10 0.12
94 3 0.04
95 28 0.34
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (89 bp):
AACCAAAAGACAAAAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGAATTG
GCAGCAACCAAATAAATTTACTTC
Found at i:1121502 original size:33 final size:33
Alignment explanation
Indices: 1121445--1121543 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
1121435 ACGAGATAAT
1121445 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
1121479 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
1121512 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1121544 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1121537 original size:19 final size:19
Alignment explanation
Indices: 1121420--1121565 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
1121410 TCTTTTGGTT
*
1121420 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1121439 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1121459 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1121477 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
1121493 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
1121510 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1121526 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1121545 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1121564 GA
1 GA
1121566 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 27 0.27
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1121594 original size:19 final size:19
Alignment explanation
Indices: 1121561--1121605 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1121551 AAAATCGCAA
*
1121561 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1121580 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
1121599 TGCGATT
1 TGCGATT
1121606 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1122180 original size:20 final size:20
Alignment explanation
Indices: 1122155--1122193 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1122145 GTGCTATGTA
1122155 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
1122175 AATCGCGTTGCGAAAGTCA
1 AATCGCGTTGCGAAAGTCA
1122194 AAGTCAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:1122247 original size:20 final size:20
Alignment explanation
Indices: 1122222--1122275 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1122212 GATTTTGTAT
1122222 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1122242 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1122262 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1122276 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1122386 original size:21 final size:21
Alignment explanation
Indices: 1122346--1122386 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1122336 ACTGTAGACC
**
1122346 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1122367 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1122387 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1125609 original size:22 final size:22
Alignment explanation
Indices: 1125578--1125622 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1125568 TACTAGATAA
1125578 AAATTCCTTAGCTTTACAGGTT
1 AAATTCCTTAGCTTTACAGGTT
* *
1125600 AAATTTCTTAGTTTTACAGGTT
1 AAATTCCTTAGCTTTACAGGTT
1125622 A
1 A
1125623 GGCTGTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (22 bp):
AAATTCCTTAGCTTTACAGGTT
Found at i:1127048 original size:18 final size:18
Alignment explanation
Indices: 1127021--1127056 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1127011 TATGCAATCA
*
1127021 ATAAATATCTAAATTTAT
1 ATAAAAATCTAAATTTAT
*
1127039 ATAAAAATCTTAATTTAT
1 ATAAAAATCTAAATTTAT
1127057 CACACGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAAATCTAAATTTAT
Found at i:1128863 original size:28 final size:31
Alignment explanation
Indices: 1128808--1128864 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1128798 AAAATTAAAT
*
1128808 AAATAATAATAATAATATAACCTAATATATA
1 AAATAATAATAATAATATAAACTAATATATA
1128839 AAATAATAATAATAA-A-AAACT-ATATA
1 AAATAATAATAATAATATAAACTAATATA
1128865 ACATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 1 0.04
31 15 0.60
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (31 bp):
AAATAATAATAATAATATAAACTAATATATA
Found at i:1128890 original size:29 final size:29
Alignment explanation
Indices: 1128853--1128946 Score: 143
Period size: 29 Copynumber: 3.2 Consensus size: 29
1128843 AATAATAATA
1128853 AAAAACTATATAACATATATTATATTTCC
1 AAAAACTATATAACATATATTATATTTCC
1128882 AAAAACTATATAACATATATTATATTTCC
1 AAAAACTATATAACATATATTATATTTCC
* * *
1128911 AAAAAACTATATAATATATTAATATATTTTC
1 -AAAAACTATATAACATA-TATTATATTTCC
1128942 AAAAA
1 AAAAA
1128947 TCATTTTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
29 29 0.48
30 21 0.35
31 10 0.17
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAACTATATAACATATATTATATTTCC
Found at i:1128997 original size:32 final size:32
Alignment explanation
Indices: 1128939--1129041 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 32
1128929 TTAATATATT
1128939 TTCAAAAATCATTTTCAAAAACCATATTATACG
1 TTCAAAAATCATTTTC-AAAACCATATTATACG
*
1128972 TTCAAAAATCACTTTCAAAACCATATTATACG
1 TTCAAAAATCATTTTCAAAACCATATTATACG
* *
1129004 TTTTCCAAAAT-GTTTTCAAAACCATATACTATACG
1 --TTCAAAAATCATTTTCAAAACCATAT--TATACG
1129039 TTC
1 TTC
1129042 TCAAAACGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
32 16 0.26
33 32 0.52
34 8 0.13
35 6 0.10
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (32 bp):
TTCAAAAATCATTTTCAAAACCATATTATACG
Found at i:1129037 original size:35 final size:35
Alignment explanation
Indices: 1128937--1129190 Score: 159
Period size: 36 Copynumber: 7.3 Consensus size: 35
1128927 TATTAATATA
* *
1128937 TTTTCAAAAATCATTTTCAAAAACC--ATATTATACG
1 TTTTCAAAAAT-GTTTT-TAAAACCATATATTATACG
** *
1128972 --TTCAAAAATCACTTTCAAAACC--ATATTATACG
1 TTTTCAAAAAT-GTTTTTAAAACCATATATTATACG
* * *
1129004 TTTTCCAAAATGTTTTCAAAACCATATACTATACG
1 TTTTCAAAAATGTTTTTAAAACCATATATTATACG
* * *
1129039 TTCTC-AAAACGTTTTTAAAAAAACCATATATTATATG
1 TTTTCAAAAATGTTTTT---AAAACCATATATTATACG
** ** * *
1129076 TTTTGGAAACCGTTTTTTAAAACTATATATTAAACG
1 TTTTCAAAAATG-TTTTTAAAACCATATATTATACG
*
1129112 TTTTCAAAACAAT-TTTTTAAAACTATATATTATACG
1 TTTTC-AAA-AATGTTTTTAAAACCATATATTATACG
* * * *
1129148 TGTTCGAAACTGTTTTTTAAA-C-TATATTATACG
1 TTTTCAAAAATGTTTTTAAAACCATATATTATACG
1129181 TTTTCAAAAA
1 TTTTCAAAAA
1129191 AAGTACGTTT
Statistics
Matches: 177, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
32 16 0.09
33 42 0.24
34 19 0.11
35 23 0.13
36 45 0.25
37 21 0.12
38 6 0.03
39 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (35 bp):
TTTTCAAAAATGTTTTTAAAACCATATATTATACG
Found at i:1129047 original size:34 final size:32
Alignment explanation
Indices: 1128950--1129058 Score: 112
Period size: 34 Copynumber: 3.3 Consensus size: 32
1128940 TCAAAAATCA
* *
1128950 TTTTCAAAAACCATATTATACGTTC-AAAAATCA
1 TTTTC-AAAACCATATTATACGTTCTCAAAAT-G
* *
1128983 CTTTCAAAACCATATTATACGTTTTCCAAAATG
1 TTTTCAAAACCATATTATACGTTCT-CAAAATG
*
1129016 TTTTCAAAACCATATACTATACGTTCTCAAAACG
1 TTTTCAAAACCATAT--TATACGTTCTCAAAATG
*
1129050 TTTTTAAAA
1 TTTTCAAAA
1129059 AAACCATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
32 18 0.28
33 18 0.28
34 19 0.30
35 9 0.14
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (32 bp):
TTTTCAAAACCATATTATACGTTCTCAAAATG
Found at i:1129091 original size:72 final size:71
Alignment explanation
Indices: 1128994--1129189 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 71
1128984 TTTCAAAACC
* * ** * * * *
1128994 ATATTATACGTTTTCCAAAATGTTTTCAAAACCATATACTATACGTTCTCAAAAC-GTTTTTAAA
1 ATATTATACGTGTTCGAAACCGTTTTTAAAACCATATATTATACGTTTTCAAAACAATTTTT--A
1129058 AAAACCAT
64 AAAACCAT
* * * * * *
1129066 ATATTATATGTTTTGGAAACCGTTTTTTAAAACTATATATTAAACGTTTTCAAAACAATTTTTTA
1 ATATTATACGTGTTCGAAACCG-TTTTTAAAACCATATATTATACGTTTTCAAAACAATTTTTAA
*
1129131 AAACTAT
65 AAACCAT
* *
1129138 ATATTATACGTGTTCGAAACTGTTTTTTAAA-C-TATATTATACGTTTTCAAAA
1 ATATTATACGTGTTCGAAACCGTTTTTAAAACCATATATTATACGTTTTCAAAA
1129190 AAAGTACGTT
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
69 19 0.19
71 8 0.08
72 42 0.41
73 28 0.27
74 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (71 bp):
ATATTATACGTGTTCGAAACCGTTTTTAAAACCATATATTATACGTTTTCAAAACAATTTTTAAA
AACCAT
Found at i:1129105 original size:36 final size:36
Alignment explanation
Indices: 1128994--1129185 Score: 171
Period size: 36 Copynumber: 5.4 Consensus size: 36
1128984 TTTCAAAACC
* * *
1128994 ATATTATACGTTTTCCAAA-A-TGTTTTCAAAACCAT
1 ATATTATACGTTTTCGAAACAGT-TTTTTAAAACTAT
* * * * *
1129029 ATACTATACGTTCTCAAAAC-GTTTTTAAAAAAACCAT
1 ATATTATACGTTTTCGAAACAGTTTTT--TAAAACTAT
* * *
1129066 ATATTATATGTTTTGGAAACCGTTTTTTAAAACTAT
1 ATATTATACGTTTTCGAAACAGTTTTTTAAAACTAT
* * *
1129102 ATATTAAACGTTTTCAAAACAATTTTTTAAAACTAT
1 ATATTATACGTTTTCGAAACAGTTTTTTAAAACTAT
* *
1129138 ATATTATACGTGTTCGAAACTGTTTTTT-AAAC--T
1 ATATTATACGTTTTCGAAACAGTTTTTTAAAACTAT
1129171 ATATTATACGTTTTC
1 ATATTATACGTTTTC
1129186 AAAAAAAGTA
Statistics
Matches: 129, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
33 15 0.12
35 24 0.19
36 61 0.47
37 23 0.18
38 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATTATACGTTTTCGAAACAGTTTTTTAAAACTAT
Found at i:1129254 original size:41 final size:38
Alignment explanation
Indices: 1129166--1129269 Score: 147
Period size: 39 Copynumber: 2.6 Consensus size: 38
1129156 ACTGTTTTTT
*
1129166 AAACTATATTATACGTTTTCAAAAAAAGTACGTTTTCAA
1 AAACTATATTATATGTTTTC-AAAAAAGTACGTTTTCAA
1129205 AAACTATATTATATATGTTTTCAAAAAA-TACGTTTTCAA
1 AAACTATA-T-TATATGTTTTCAAAAAAGTACGTTTTCAA
1129244 AAACTATATATTATATGTTTTCAAAA
1 AAAC--TATATTATATGTTTTCAAAA
1129270 CATATACTAT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
39 38 0.63
40 8 0.13
41 14 0.23
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (38 bp):
AAACTATATTATATGTTTTCAAAAAAGTACGTTTTCAA
Found at i:1129268 original size:24 final size:23
Alignment explanation
Indices: 1129236--1129292 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
1129226 CAAAAAATAC
*
1129236 GTTTTCAAAAACTATATATTATAT
1 GTTTTCAAAAAC-ATATACTATAT
1129260 GTTTTC-AAAACATATACTATAT
1 GTTTTCAAAAACATATACTATAT
**
1129282 ACTTTCAAAAA
1 GTTTTCAAAAA
1129293 TTACATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.48
23 9 0.31
24 6 0.21
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
GTTTTCAAAAACATATACTATAT
Found at i:1132881 original size:25 final size:26
Alignment explanation
Indices: 1132836--1132885 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1132826 TGAAAATAAA
*
1132836 ATAAAAATTGCATAACACATACATAC
1 ATAAAAATTACATAACACATACATAC
1132862 ATAAAAATGTACAT-AC-CATACATA
1 ATAAAAAT-TACATAACACATACATA
1132886 AAATAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 10 0.45
27 4 0.18
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAAAAATTACATAACACATACATAC
Found at i:1134698 original size:2 final size:2
Alignment explanation
Indices: 1134691--1134718 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1134681 TTTATTTACT
1134691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1134719 GGATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1135144 original size:54 final size:54
Alignment explanation
Indices: 1135075--1135691 Score: 377
Period size: 51 Copynumber: 11.8 Consensus size: 54
1135065 ATATGTGTTC
*
1135075 GCTCCCTATTTCTTCAAAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
*
1135129 GCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
* * * **
1135183 GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACATTCTTCAACACCTTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
* *
1135237 GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAAC-ATCTTCAA-A-CGGGT-T
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135287 AGCTCCCTCTTTCTTTAGGGAGTAT-AGAACTCGAAC-ATCTTCAA-A-CGGGT-T
1 -GCTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135338 CGCTCCCTCTTTC-TCTAGGGAGTAT-GGAACTCGAACAATCTTCAA-A-CGGGT-T
1 -GCTCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135390 CGCTCCCTCTTTC-TCTAGGGAGTAT-GGAACTCGAAC-ATCTTCAA-A-CGGGT-T
1 -GCTCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135441 CGCTCCCTCTTTATAT-AGGGAGTAT-AGAACTCGAAC-ATCTTCAA-A-CGGGT-T
1 -GCTCCCTATTTCT-TCAGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135492 CGCTCCCTCTTTC-TCTAGAGAGTAT-GGAACTCGAACAATCTTCGA-A-CGGGT-T
1 -GCTCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * *
1135544 CGCTCCCTCTTTCTCTAAG-GAGTAT-AGAACTCGAA-AATCTTCAA-AT-GGGT-T
1 -GCTCCCTATTTCT-TCAGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* * * *
1135595 CGCTCCCTCTTTC-TCTAGGGAGTAT-GGAACTCGAACAATCTTCAA-A-CGGGT-T
1 -GCTCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCAACATCGCGTCT
* *
1135647 CGCTCCCTCTTTC-TCTAGGGAGTAT-AGAACTCGAACAATCTTCAA
1 -GCTCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCAA
1135692 ACGGGTTCGC
Statistics
Matches: 518, Mismatches: 29, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
49 2 0.00
50 6 0.01
51 211 0.41
52 153 0.30
53 10 0.02
54 136 0.26
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (54 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGCGTCT
Found at i:1135319 original size:51 final size:51
Alignment explanation
Indices: 1135237--1136304 Score: 1608
Period size: 51 Copynumber: 20.8 Consensus size: 51
1135227 CACCTTGTCT
* * *
1135237 GCTCCCTATTTCT-TCAGAGAGTAT-GAGACTCGAACATCTTCAAACGGGTTA
1 GCTCCCTCTTTCTCT-AGGGAGTATGGA-ACTCGAACATCTTCAAACGGGTTC
* *
1135288 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
1135339 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACAATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAACGGGTTC
1135391 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * *
1135442 GCTCCCTCTTTATATAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* *
1135493 GCTCCCTCTTTCTCTAGAGAGTATGGAACTCGAACAATCTTCGAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAACGGGTTC
* * * *
1135545 GCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAAAATCTTCAAATGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
1135596 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACAATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAACGGGTTC
*
1135648 GCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACAATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAACGGGTTC
* * *
1135700 GCTCCCTCTTTCTCTAGGGAGTATGGAACCCGAACATCTTTAAACGAGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * *
1135751 GCTCCCTCTTTCTCTAAGGAGTATGGAACTCGAACATCTTTAAACAGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * *
1135802 GCTCCCTCTTTCTATAGGGAGTATGGAACTCAAACATCTTCAAACGGATTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * *
1135853 GTTCCCTCTTTCTTTAGGGAGTATGGAACTTCGAACATCTTCAAACGGGTTT
1 GCTCCCTCTTTCTCTAGGGAGTATGGAAC-TCGAACATCTTCAAACGGGTTC
**
1135905 GCTCCCTCTTTCTCTAGGGAGTATGGAACTTAAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * * * * *
1135956 GTTCCCTCTTTATTTAGGGAGTATAGAACTCGAACATCTTTAAATGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
*
1136007 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACAATCTTCAAAAGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAACGGGTTC
*
1136059 GCTCCCTCTTTCTCTAGGGAG-ACTAGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTA-TGGAACTCGAACATCTTCAAACGGGTTC
*
1136110 GCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACAATCTTCAAAAC-GGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTC-AAACGGGTTC
1136162 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
* * *
1136213 GCTCCCTC-TT-TCTAGGGAGTATAGAACTCGAAAATCTTTAAACGGGTTC
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
*
1136262 GCTCCCTCTTTCTGTAGGGAGTATGGAACTCGAACAATCTTCA
1 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCA
1136305 CTGGCTTCAC
Statistics
Matches: 930, Mismatches: 72, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
49 44 0.05
50 8 0.01
51 531 0.57
52 343 0.37
53 4 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (51 bp):
GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTC
Found at i:1135403 original size:103 final size:102
Alignment explanation
Indices: 1135147--1136304 Score: 1609
Period size: 103 Copynumber: 11.2 Consensus size: 102
1135137 TTTCTTCAGA
* * *
1135147 GAGTATA-AGACTCGAACAATCTTCAACATCGCG-TCTGCTCCCTATTTCT-TCAGAGAGTAT-G
1 GAGTATAGA-ACTCGAAC-ATCTTCAA-A-CGGGTTC-GCTCCCTCTTTCTCT-AGGGAGTATGG
** * *
1135208 AGACTCGAACATTCTTCAACAC-CTTGTCTGCTCCCTATTTCT-TCAGA
60 A-ACTCGAACA-TCTTCAA-ACGGGT-TC-GCTCCCTCTTTCTCT-AGG
* * *
1135255 GAGTAT-GAGACTCGAACATCTTCAAACGGGTTAGCTCCCTCTTTCTTTAGGGAGTATAGAACTC
1 GAGTATAGA-ACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1135319 GAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
65 GAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1135357 GAGTATGGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1 GAGTATAGAACTCGAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
* *
1135422 GAACATCTTCAAACGGGTTCGCTCCCTCTTTATATAGG
65 GAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1135460 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGAGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* *
1135525 AACAATCTTCGAACGGGTTCGCTCCCTCTTTCTCTAAG
66 AAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
1135563 GAGTATAGAACTCGAAAATCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1135628 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
66 AAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1135666 GAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACCC
1 GAGTATAGAACTCGAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
* * *
1135731 GAACATCTTTAAACGAGTTCGCTCCCTCTTTCTCTAAG
65 GAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * * *
1135769 GAGTATGGAACTCGAACATCTTTAAACAGGTTCGCTCCCTCTTTCTATAGGGAGTATGGAACTCA
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* * *
1135834 AACATCTTCAAACGGATTCGTTCCCTCTTTCTTTAGG
66 AACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
1135871 GAGTATGGAACTTCGAACATCTTCAAACGGGTTTGCTCCCTCTTTCTCTAGGGAGTATGGAACTT
1 GAGTATAGAAC-TCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
* * * *
1135936 AAACATCTTCAAACGGGTTCGTTCCCTCTTTATTTAGG
65 GAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
1135974 GAGTATAGAACTCGAACATCTTTAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
*
1136039 AACAATCTTCAAAAGGGTTCGCTCCCTCTTTCTCTAGG
66 AAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1136077 GAG-ACTAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
1 GAGTA-TAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1136141 GAACAATCTTCAAAAC-GGTTCGCTCCCTCTTTCTCTAGG
65 GAAC-ATCTTC-AAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
1136180 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTC-TT-TCTAGGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* * *
1136243 AAAATCTTTAAACGGGTTCGCTCCCTCTTTCTGTAGG
66 AACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1136280 GAGTATGGAACTCGAACAATCTTCA
1 GAGTATAGAACTCGAAC-ATCTTCA
1136305 CTGGCTTCAC
Statistics
Matches: 966, Mismatches: 67, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
99 4 0.00
100 44 0.05
101 29 0.03
102 218 0.23
103 549 0.57
104 61 0.06
105 32 0.03
106 5 0.01
107 8 0.01
108 16 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (102 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
AACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:1135433 original size:154 final size:154
Alignment explanation
Indices: 1135147--1136304 Score: 1649
Period size: 154 Copynumber: 7.5 Consensus size: 154
1135137 TTTCTTCAGA
* * *
1135147 GAGTATA-AGACTCGAACAATCTTCAACATCGCG-TCTGCTCCCTATTTCT-TCAGAGAGTAT-G
1 GAGTATAGA-ACTCGAAC-ATCTTCAA-A-CGGGTTC-GCTCCCTCTTTCTCT-AGGGAGTATGG
* ** * *
1135208 AGACTCGAACATTCTTCAACAC-CTTGTCTGCTCCCTATTTCT-TCAGAGAGTAT-GAGACTCGA
60 A-ACTCGAACAATCTTCAA-ACGGGT-TC-GCTCCCTCTTTCTCT-AGGGAGTATGGA-ACTCGA
* *
1135270 ACATCTTCAAACGGGTTAGCTCCCTCTTTCTTTAGG
119 ACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
1135306 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1135371 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAAC
66 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAAC
* *
1135436 GGGTTCGCTCCCTCTTTATATAGG
131 GGGTTCGCTCCCTCTTTCTCTAGG
*
1135460 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGAGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* * * * *
1135525 AACAATCTTCGAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAAAATCTTCAAAT
66 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAAC
1135590 GGGTTCGCTCCCTCTTTCTCTAGG
131 GGGTTCGCTCCCTCTTTCTCTAGG
* *
1135614 GAGTATGGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
1 GAGTATAGAACTCGAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
* *
1135679 GAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACCCGAACATCTTTAAA
65 GAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAA
* *
1135744 CGAGTTCGCTCCCTCTTTCTCTAAG
130 CGGGTTCGCTCCCTCTTTCTCTAGG
* * * * *
1135769 GAGTATGGAACTCGAACATCTTTAAACAGGTTCGCTCCCTCTTTCTATAGGGAGTATGGAACTCA
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* * *
1135834 AAC-ATCTTCAAACGGATTCGTTCCCTCTTTCTTTAGGGAGTATGGAACTTCGAACATCTTCAAA
66 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAAC-TCGAACATCTTCAAA
*
1135898 CGGGTTTGCTCCCTCTTTCTCTAGG
130 CGGGTTCGCTCCCTCTTTCTCTAGG
* ** * * * *
1135923 GAGTATGGAACTTAAACATCTTCAAACGGGTTCGTTCCCTCTTTATTTAGGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
* *
1135988 AAC-ATCTTTAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACAATCTTCAAA
66 AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCAAA
*
1136052 AGGGTTCGCTCCCTCTTTCTCTAGG
130 CGGGTTCGCTCCCTCTTTCTCTAGG
*
1136077 GAG-ACTAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
1 GAGTA-TAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1136141 GAACAATCTTCAAAAC-GGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAA
65 GAACAATCTTC-AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAA
1136205 ACGGGTTCGCTCCCTC-TT-TCTAGG
129 ACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
1136229 GAGTATAGAACTCGAAAATCTTTAAACGGGTTCGCTCCCTCTTTCTGTAGGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1136294 AACAATCTTCA
66 AACAATCTTCA
1136305 CTGGCTTCAC
Statistics
Matches: 912, Mismatches: 73, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
151 1 0.00
152 75 0.08
153 52 0.06
154 516 0.57
155 195 0.21
156 43 0.05
157 6 0.01
158 8 0.01
159 15 0.02
160 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (154 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
AACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAAC
GGGTTCGCTCCCTCTTTCTCTAGG
Found at i:1138092 original size:125 final size:126
Alignment explanation
Indices: 1137860--1138122 Score: 334
Period size: 125 Copynumber: 2.1 Consensus size: 126
1137850 GCCTTCACTA
* * * *
1137860 GTGCCACAATATTATCTTATACTATTACGGGCCCTCAAAATGCCTTAACACCTCCAATTCGCAAG
1 GTGCCACAACATTATCTTATACTAGTACGGGCCCTCAAAATGCCTCAACACCTCAAATTCGCAAG
* *
1137925 GCTCATTCTCAACGCCTTCTTGGTCTGAATCTCATCATCTCAACATG-TAGTGGGTTCAGTT
66 GCTCATTCTCAACGCCTCCTTGGTCTGAATCTCATCATCTCAACATGAT-GTGGGTTCAGTC
* * * * * *
1137986 GTGCCCCAACATTGTCTTATACTGGTATGGGCCTTCAAAATGCAC-CAACACCTCAAATT-GTAA
1 GTGCCACAACATTATCTTATACTAGTACGGGCCCTCAAAATGC-CTCAACACCTCAAATTCGCAA
* * * *
1138049 GGCTCATTCTTAATGCCTCCTTGGTCTGAATCTCGTCATCTCAACGTGATGTGGGTTCAGTC
65 GGCTCATTCTCAACGCCTCCTTGGTCTGAATCTCATCATCTCAACATGATGTGGGTTCAGTC
*
1138111 GTGCCTCAACAT
1 GTGCCACAACAT
1138123 ATCACAACTT
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
125 68 0.58
126 49 0.42
127 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (126 bp):
GTGCCACAACATTATCTTATACTAGTACGGGCCCTCAAAATGCCTCAACACCTCAAATTCGCAAG
GCTCATTCTCAACGCCTCCTTGGTCTGAATCTCATCATCTCAACATGATGTGGGTTCAGTC
Found at i:1146745 original size:39 final size:35
Alignment explanation
Indices: 1146660--1146745 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 35
1146650 TTTTATTATT
1146660 ATATATATAGTATAATTTTTGAAAATATTTTTGAAAA
1 ATATA-ATA-TATAATTTTTGAAAATATTTTTGAAAA
*
1146697 ATATAATATATAATTTTTTAGAAAACTGTTTTTGAAAA
1 ATATAATATATAA-TTTTT-GAAAA-TATTTTTGAAAA
1146735 CATATAATATA
1 -ATATAATATA
1146746 CTGTTTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
35 5 0.11
36 8 0.18
37 10 0.23
38 11 0.25
39 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (35 bp):
ATATAATATATAATTTTTGAAAATATTTTTGAAAA
Found at i:1146813 original size:2 final size:2
Alignment explanation
Indices: 1146806--1146843 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1146796 TGATTTTTGA
1146806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1146844 GTTTGCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1146863 original size:57 final size:57
Alignment explanation
Indices: 1146770--1146882 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
1146760 GTTTTTAAAA
1146770 ATATATATACTATATAGCTTTGAAAATGATTTTTGAATATATATATATATATATATAT
1 ATATATATACTATATAGCTTTGAAAATGATTTTTGAATATATATATATA-ATATATAT
*
1146828 ATATATATA-TATTATAG-TTTGCAAATGATTTTTGAATATATATATATAATATATA
1 ATATATATACTA-TATAGCTTTGAAAATGATTTTTGAATATATATATATAATATATA
1146883 GTTTTTGTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
56 7 0.13
57 32 0.60
58 14 0.26
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (57 bp):
ATATATATACTATATAGCTTTGAAAATGATTTTTGAATATATATATATAATATATAT
Found at i:1146917 original size:36 final size:35
Alignment explanation
Indices: 1146870--1147031 Score: 202
Period size: 36 Copynumber: 4.5 Consensus size: 35
1146860 TGAATATATA
* * *
1146870 TATATAATATATAGTTTTTGTAACATTTTAAAAATT
1 TATATAATATATAG-TTTTGAAACATTTTGAAAACT
1146906 TATATAATATATAGTTTTGAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTGAAA-CATTTTGAAAACT
*
1146942 TATATAATATATAGTTTTGAAACATTTTTGAAAACA
1 TATATAATATATAGTTTTGAAACA-TTTTGAAAACT
* *
1146978 TATATAATATATAGTTTTAAAATATTTTTGAAAA--
1 TATATAATATATAGTTTTGAAACA-TTTTGAAAACT
1147012 TATATACATTATATAGTTTT
1 TATATA-A-TATATAGTTTT
1147032 TTGGAAATAT
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
34 6 0.05
35 10 0.09
36 100 0.86
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (35 bp):
TATATAATATATAGTTTTGAAACATTTTGAAAACT
Found at i:1146982 original size:72 final size:69
Alignment explanation
Indices: 1146828--1147031 Score: 212
Period size: 72 Copynumber: 2.8 Consensus size: 69
1146818 ATATATATAT
** *
1146828 ATATATATATATTATAGTTTGCAAATGATTTTTGAATATATATATATAATATATAGTTTTTGTAA
1 ATATATA-ATA-TATAGTTTTAAAAT-ATTTTTG-A-A-A-ATATATAATATATAG-TTTTGAAA
*
1146893 CATTTTAAAAAT
58 CATTTTAAAAAC
* *
1146905 TTATATAATATATAGTTTTGAAATCA-TTTTGAAAACTTATATAATATATAGTTTTGAAACATTT
1 ATATATAATATATAGTTTTAAAAT-ATTTTTGAAAA--TATATAATATATAGTTTTGAAACA-TT
*
1146969 TTGAAAAC
62 TTAAAAAC
1146977 ATATATAATATATAGTTTTAAAATATTTTTGAAAATATATACATTATATAGTTTT
1 ATATATAATATATAGTTTTAAAATATTTTTGAAAATATATA-A-TATATAGTTTT
1147032 TTGGAAATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
70 7 0.06
71 12 0.11
72 65 0.58
73 1 0.01
74 5 0.04
75 13 0.12
76 3 0.03
77 6 0.05
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (69 bp):
ATATATAATATATAGTTTTAAAATATTTTTGAAAATATATAATATATAGTTTTGAAACATTTTAA
AAAC
Found at i:1147047 original size:28 final size:26
Alignment explanation
Indices: 1147002--1147053 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1146992 TTTTAAAATA
1147002 TTTTTGAAAATATATACATTATATAGT
1 TTTTTGAAAATATATACA-TATATAGT
* *
1147029 TTTTTGGAAATATTTTACATATATA
1 TTTTTGAAAATA-TATACATATATA
1147054 ATATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (26 bp):
TTTTTGAAAATATATACATATATAGT
Found at i:1147053 original size:72 final size:70
Alignment explanation
Indices: 1146826--1147053 Score: 187
Period size: 72 Copynumber: 3.1 Consensus size: 70
1146816 ATATATATAT
** * *
1146826 ATATATATATATATTATAGTTTGCAAATGATTTTTGAATATATATATATAATATATAGTTTTTGT
1 ATATATATA-ATA-TATAGTTTTAAAATCATTTTTG-A-A-A-ATATATAATATATAGTTTTTGG
*
1146891 AACAT-TTTAAAA
60 AA-ATATTT-TAA
* * *
1146903 ATTTATATAATATATAGTTTTGAAATCA-TTTTGAAAACTTATATAATATATAG-TTTT-GAAAC
1 ATATATATAATATATAGTTTTAAAATCATTTTTGAAAA--TATATAATATATAGTTTTTGGAAAT
1146965 ATTTTTGAAA
64 A-TTTT--AA
*
1146975 ACATATATAATATATAGTTTTAAAAT-ATTTTTGAAAATATATACATTATATAGTTTTTTGGAAA
1 ATATATATAATATATAGTTTTAAAATCATTTTTGAAAATATATA-A-TATATAG-TTTTTGGAAA
*
1147039 TATTTTAC
63 TATTTTAA
1147047 ATATATA
1 ATATATA
1147054 ATATATTATT
Statistics
Matches: 126, Mismatches: 13, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
69 1 0.01
70 9 0.07
71 10 0.08
72 63 0.50
73 1 0.01
74 13 0.10
75 18 0.14
76 3 0.02
77 8 0.06
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (70 bp):
ATATATATAATATATAGTTTTAAAATCATTTTTGAAAATATATAATATATAGTTTTTGGAAATAT
TTTAA
Found at i:1148349 original size:17 final size:19
Alignment explanation
Indices: 1148315--1148352 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1148305 AACTTTAACC
*
1148315 TTTTTTCATTTTATTTTAT
1 TTTTTTCATTTGATTTTAT
1148334 TTTTTTC-TTTGA-TTTAT
1 TTTTTTCATTTGATTTTAT
1148351 TT
1 TT
1148353 AATATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTTCATTTGATTTTAT
Found at i:1148366 original size:29 final size:27
Alignment explanation
Indices: 1148322--1148408 Score: 115
Period size: 29 Copynumber: 3.2 Consensus size: 27
1148312 ACCTTTTTTC
1148322 ATTTTATTTT-ATTTTTTTCTTTGATTT
1 ATTTTATTTTCA-TTTTTTCTTTGATTT
*
1148349 ATTTAATATTTTCATTTTTTATTTGATTT
1 ATTT--TATTTTCATTTTTTCTTTGATTT
*
1148378 ATTTTATTTTC-TTTTTCCTTTGATTT
1 ATTTTATTTTCATTTTTTCTTTGATTT
1148404 ATTTT
1 ATTTT
1148409 TTTATTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 18 0.33
27 11 0.20
29 24 0.44
30 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (27 bp):
ATTTTATTTTCATTTTTTCTTTGATTT
Found at i:1148423 original size:29 final size:28
Alignment explanation
Indices: 1148328--1148423 Score: 71
Period size: 29 Copynumber: 3.5 Consensus size: 28
1148318 TTTCATTTTA
1148328 TTTTA-TTTT-TTT-CTTTGATTTA-TT
1 TTTTATTTTTATTTCCTTTGATTTATTT
** *
1148352 TAATATTTTCATTT--TTT-ATTTGATTT
1 TTTTATTTTTATTTCCTTTGATTT-ATTT
*
1148378 ATTTTATTTTCTTTTTCCTTTGATTTATTT
1 -TTTTATTTT-TATTTCCTTTGATTTATTT
1148408 TTTTATTTATTATTTC
1 TTTTATTT-TTATTTC
1148424 TTCTCTAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
24 7 0.13
25 7 0.13
26 5 0.09
27 7 0.13
28 3 0.06
29 13 0.24
30 8 0.15
31 4 0.07
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTTATTTTTATTTCCTTTGATTTATTT
Found at i:1149057 original size:23 final size:24
Alignment explanation
Indices: 1149018--1149062 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
1149008 GTCACAAAAC
*
1149018 AATGAATTATGATAATAATAAAGA
1 AATGAAGTATGATAATAATAAAGA
1149042 AATGAAGTAT-ATAATAATAAA
1 AATGAAGTATGATAATAATAAA
1149063 AAAGTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (24 bp):
AATGAAGTATGATAATAATAAAGA
Found at i:1150422 original size:23 final size:21
Alignment explanation
Indices: 1150395--1150446 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
1150385 ATTTATAATT
*
1150395 ATAAATTAGTTAAAATTTTAAAG
1 ATAAATTAGTTAAAA--TAAAAG
*
1150418 ATAAATTATTTAAAATAAAAG
1 ATAAATTAGTTAAAATAAAAG
1150439 ATAAATTA
1 ATAAATTA
1150447 TACTAGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 13 0.48
23 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
ATAAATTAGTTAAAATAAAAG
Found at i:1150440 original size:21 final size:22
Alignment explanation
Indices: 1150395--1150447 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
1150385 ATTTATAATT
* *
1150395 ATAAATTAGTTAAAATTTTAAAG
1 ATAAATTATTTAAAA-TTAAAAG
1150418 ATAAATTATTTAAAA-TAAAAG
1 ATAAATTATTTAAAATTAAAAG
1150439 ATAAATTAT
1 ATAAATTAT
1150448 ACTAGTAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.50
23 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
ATAAATTATTTAAAATTAAAAG
Found at i:1152609 original size:25 final size:25
Alignment explanation
Indices: 1152571--1152619 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1152561 ATATTGGTCC
* * *
1152571 CCCGTCCCCGTCCCCGTTTAAAAAT
1 CCCGTACCCATCCCCGCTTAAAAAT
1152596 CCCGTACCCATCCCCGCTTAAAAA
1 CCCGTACCCATCCCCGCTTAAAAA
1152620 ACCGTGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.45, G:0.10, T:0.20
Consensus pattern (25 bp):
CCCGTACCCATCCCCGCTTAAAAAT
Found at i:1153918 original size:40 final size:40
Alignment explanation
Indices: 1153832--1153988 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
1153822 AAAAACGCCG
* * * * * *
1153832 CTAAATACTTGTACTTTAATGACATTTTTATATAAACGTCG
1 CTAAAGACTCGTACTTTAGTGACATTTTTATACAAAC-ACC
*
1153873 ATAAAGACT-GTACTTTAGTGACATTTTTATACAAACACC
1 CTAAAGACTCGTACTTTAGTGACATTTTTATACAAACACC
*
1153912 TCTAAAGACTCGTACTCTAGGTG---TTTTTATACAAACACC
1 -CTAAAGACTCGTACTTTA-GTGACATTTTTATACAAACACC
* * * *
1153951 CTAAAAAGTCGTACTTTAGTGGCATTTTTATAAAAACA
1 CTAAAGACTCGTACTTTAGTGACATTTTTATACAAACA
1153989 TCATAATAGG
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
37 3 0.03
38 15 0.15
39 17 0.17
40 46 0.47
41 14 0.14
42 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (40 bp):
CTAAAGACTCGTACTTTAGTGACATTTTTATACAAACACC
Found at i:1154612 original size:43 final size:43
Alignment explanation
Indices: 1154519--1154768 Score: 170
Period size: 43 Copynumber: 5.9 Consensus size: 43
1154509 TTTTTCAACA
*** * *
1154519 AAAAACGCCGCAATAGGTGACAACATATAGCGGCG--TTG-A-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAG
* * * *
1154558 ACAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTTTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAG
* * *
1154601 AAAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAG
* * * **
1154644 ACAAACGCCGCAATAGGCGTTGATGTTTAGCGGCGTTTT-CTTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGC-AG
* * * * * * * * **
1154687 ACAAACGCCGCAGTAGATGTTTATTTTTACCGGTGTTTTTCCT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAG
* * *
1154730 ACAAACGCCGCAGA-AGATGTTGATATTTAGCGACGTTTT
1 AAAAACGCCGCA-ATAGGTGTTGATATTTAGCGGCGTTTT
1154769 CCTAAAAACA
Statistics
Matches: 166, Mismatches: 38, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
39 27 0.16
41 2 0.01
42 2 0.01
43 134 0.81
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAG
Found at i:1156334 original size:41 final size:40
Alignment explanation
Indices: 1156288--1156472 Score: 128
Period size: 40 Copynumber: 4.6 Consensus size: 40
1156278 GTTAAAATCA
* *
1156288 ATTGCGGCGTTTACAGAAAAACGCCACTAATGTACGACCC-
1 ATTGCGGCGTTTACAGAAAAACGCCACT-ATGAACAACCCT
* * * *
1156328 ATTTGCGGCGTTT-CTTGTAAAACGACACTAT-AAGCAACTCT
1 A-TTGCGGCGTTTAC-AGAAAAACGCCACTATGAA-CAACCCT
* * * *
1156369 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCC-
1 ATTGCGGCGTTTACAGAAAAACGCCACT-ATGAACAACCCT
* * * *
1156409 ATTTGTGGCGTTT-CTTGTAAAACGCCACTATAAACAACCCT
1 A-TTGCGGCGTTTAC-AGAAAAACGCCACTATGAACAACCCT
* *
1156450 ATTGCGGCGTTTATATAAAAACG
1 ATTGCGGCGTTTACAGAAAAACG
1156473 TCGCTAAATT
Statistics
Matches: 107, Mismatches: 27, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.01
40 54 0.50
41 51 0.48
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (40 bp):
ATTGCGGCGTTTACAGAAAAACGCCACTATGAACAACCCT
Found at i:1156531 original size:41 final size:40
Alignment explanation
Indices: 1156346--1156584 Score: 191
Period size: 41 Copynumber: 5.9 Consensus size: 40
1156336 CGTTTCTTGT
* *
1156346 AAAACGACACTATAAGCAACTCTATTGCGGCGTTTATATA
1 AAAACGTCACTATAAACAACTCTATTGCGGCGTTTATATA
* ** * * * * *
1156386 AAAACGCCACTAATGTACGAC-CCATTTGTGGCGTTTCT-TGT
1 AAAACGTCACT-ATAAACAACTCTA-TTGCGGCGTTTATAT-A
* *
1156427 AAAACGCCACTATAAACAACCCTATTGCGGCGTTTATATA
1 AAAACGTCACTATAAACAACTCTATTGCGGCGTTTATATA
* * * * *
1156467 AAAACGTCGCTA-AATTACTACTCTATTGCGGTGTTTTTTTA
1 AAAACGTCACTATAA--ACAACTCTATTGCGGCGTTTATATA
1156508 GAAAACGTCACTATAAACAACTCTATTGCGGCGTTTATATA
1 -AAAACGTCACTATAAACAACTCTATTGCGGCGTTTATATA
* *
1156549 AAAACG-CAGCTA-AATTACCACCCTATTGCGGCGTTT
1 AAAACGTCA-CTATAA--ACAACTCTATTGCGGCGTTT
1156585 GTTGAAAAAA
Statistics
Matches: 157, Mismatches: 30, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
39 6 0.04
40 49 0.31
41 89 0.57
42 11 0.07
43 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (40 bp):
AAAACGTCACTATAAACAACTCTATTGCGGCGTTTATATA
Found at i:1156596 original size:82 final size:81
Alignment explanation
Indices: 1156288--1156593 Score: 363
Period size: 81 Copynumber: 3.8 Consensus size: 81
1156278 GTTAAAATCA
* *
1156288 ATTGCGGCGTTTACAGAAAAACGCCACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGA
1 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGA
*
1156353 CACTATAAGCAACTCT
66 CACTATAAACAACTCT
* *
1156369 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCATTTGTGGCGTTTCTTGTAAAACGC
1 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGA
*
1156434 CACTATAAACAACCCT
66 CACTATAAACAACTCT
* * * * * *
1156450 ATTGCGGCGTTTATATAAAAACGTCGCTAAAT-TACTACTC-TATTGCGGTGTTT-TTTTAGAAA
1 ATTGCGGCGTTTATATAAAAACGCCACT-AATGTACGACCCAT-TTGCGGCGTTTCTTGT--AAA
*
1156512 ACGTCACTATAAACAACTCT
62 ACGACACTATAAACAACTCT
* * *
1156532 ATTGCGGCGTTTATATAAAAACG-CAGCTAAAT-TACCACCC-TATTGCGGCGTTTGTTGAAAAA
1 ATTGCGGCGTTTATATAAAAACGCCA-CT-AATGTACGACCCAT-TTGCGGCGTTTCTTGTAAAA
1156594 ACGCCGCTAA
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
80 4 0.02
81 121 0.61
82 71 0.36
83 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (81 bp):
ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGA
CACTATAAACAACTCT
Found at i:1160093 original size:20 final size:21
Alignment explanation
Indices: 1160040--1160097 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1160030 TGATTTATTA
1160040 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
1160061 TTATGGATTTCAAGTTTGTT-
1 TTATGGATTTCAAGTTTCTTG
* *
1160081 TTCTGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
1160098 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.52
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:1160360 original size:44 final size:42
Alignment explanation
Indices: 1160312--1160402 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 42
1160302 TTTTACATTC
*
1160312 ACAAACGCCACTATATGAT-GTAACATTTAGTGGCATTTTTGGG
1 ACAAACGCCACTATATGATAG-AACATTTAGCGG-ATTTTTGGG
* *
1160355 AACAAACGCCACTATATGTTAGAACATTTAGCGGGTTTTTGGG
1 -ACAAACGCCACTATATGATAGAACATTTAGCGGATTTTTGGG
1160398 ACAAA
1 ACAAA
1160403 ATGCGACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 5 0.12
43 8 0.19
44 29 0.67
45 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (42 bp):
ACAAACGCCACTATATGATAGAACATTTAGCGGATTTTTGGG
Found at i:1164918 original size:109 final size:109
Alignment explanation
Indices: 1164727--1164947 Score: 433
Period size: 109 Copynumber: 2.0 Consensus size: 109
1164717 ATGCTAAACC
*
1164727 AGTAAGTACACCTTTAGGTGTTCATTTCAGACTCTCTAAAGAATAGTCACCAAAGACGGAGGAAG
1 AGTAAGTACACCTTTAAGTGTTCATTTCAGACTCTCTAAAGAATAGTCACCAAAGACGGAGGAAG
1164792 AACGTGCACACATGGTAAAGGTGTCGTATGCCTCAGCAATTAGA
66 AACGTGCACACATGGTAAAGGTGTCGTATGCCTCAGCAATTAGA
1164836 AGTAAGTACACCTTTAAGTGTTCATTTCAGACTCTCTAAAGAATAGTCACCAAAGACGGAGGAAG
1 AGTAAGTACACCTTTAAGTGTTCATTTCAGACTCTCTAAAGAATAGTCACCAAAGACGGAGGAAG
1164901 AACGTGCACACATGGTAAAGGTGTCGTATGCCTCAGCAATTAGA
66 AACGTGCACACATGGTAAAGGTGTCGTATGCCTCAGCAATTAGA
1164945 AGT
1 AGT
1164948 CTGATGTATG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (109 bp):
AGTAAGTACACCTTTAAGTGTTCATTTCAGACTCTCTAAAGAATAGTCACCAAAGACGGAGGAAG
AACGTGCACACATGGTAAAGGTGTCGTATGCCTCAGCAATTAGA
Found at i:1166591 original size:16 final size:17
Alignment explanation
Indices: 1166562--1166595 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1166552 AAAATTTAAA
1166562 TTTTAGTATATTGTATT
1 TTTTAGTATATTGTATT
*
1166579 TTTTA-TATTTTGTATT
1 TTTTAGTATATTGTATT
1166595 T
1 T
1166596 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTTAGTATATTGTATT
Found at i:1167530 original size:2 final size:2
Alignment explanation
Indices: 1167523--1167602 Score: 137
Period size: 2 Copynumber: 40.5 Consensus size: 2
1167513 CTCATAATAC
1167523 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1167564 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1167603 GCATATTATC
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.03
2 71 0.95
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1167561 original size:27 final size:27
Alignment explanation
Indices: 1167523--1167602 Score: 151
Period size: 27 Copynumber: 3.0 Consensus size: 27
1167513 CTCATAATAC
1167523 TATATATATATATATATATATTATATA
1 TATATATATATATATATATATTATATA
1167550 TATATATATATATATATATATTATATA
1 TATATATATATATATATATATTATATA
*
1167577 TATATATATATATATATATATCATAT
1 TATATATATATATATATATATTATAT
1167603 GCATATTATC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TATATATATATATATATATATTATATA
Found at i:1169255 original size:68 final size:68
Alignment explanation
Indices: 1169146--1169281 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
1169136 CACTTTATAC
1169146 ACATTAACATGTAGCTCAAGCACAGACAACTGTGTATGAAAATACCATGCACATGCCATTATCAT
1 ACATTAACATGTAGCTCAAGCACAGACAACTGTGTATGAAAATACCATGCACATGCCATTATCAT
1169211 TAG
66 TAG
1169214 ACATTAACATGTAGCTCAAGCACAGACAACTGTGTATGAAAATACCATGCACATGCCATTATCAT
1 ACATTAACATGTAGCTCAAGCACAGACAACTGTGTATGAAAATACCATGCACATGCCATTATCAT
1169279 TAG
66 TAG
1169282 CTATTACCAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (68 bp):
ACATTAACATGTAGCTCAAGCACAGACAACTGTGTATGAAAATACCATGCACATGCCATTATCAT
TAG
Found at i:1179131 original size:23 final size:21
Alignment explanation
Indices: 1179096--1179138 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1179086 AATAAAAACA
*
1179096 AGAAAATAAAGAATATTAAAG
1 AGAAAATAAAGAAGATTAAAG
1179117 AGAAAAGTAAAAGAAGATTAAA
1 AGAAAA-T-AAAGAAGATTAAA
1179139 AATAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAAAATAAAGAAGATTAAAG
Found at i:1187277 original size:42 final size:42
Alignment explanation
Indices: 1187218--1187301 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
1187208 CTTCTAACTT
*
1187218 CAATTTGAGCTCCATTTCACTAGTTTTTACACTTAGAGCCAA
1 CAATTTGAGCTCCATTTCACTAGTTTTTACACATAGAGCCAA
*
1187260 CAATTTGAGCTTCATTTCACTAGTTTTTACACATAGAGCCAA
1 CAATTTGAGCTCCATTTCACTAGTTTTTACACATAGAGCCAA
1187302 AAACTAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (42 bp):
CAATTTGAGCTCCATTTCACTAGTTTTTACACATAGAGCCAA
Found at i:1189509 original size:24 final size:24
Alignment explanation
Indices: 1189463--1189509 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1189453 GTTTTTTCAG
***
1189463 AAACAAAACAAAAAAAGGTAAAAC
1 AAACAAAACAAAAAAACAAAAAAC
1189487 AAACAAAACAAAAAAACAAAAAA
1 AAACAAAACAAAAAAACAAAAAA
1189510 GGAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.02
Consensus pattern (24 bp):
AAACAAAACAAAAAAACAAAAAAC
Found at i:1195401 original size:42 final size:42
Alignment explanation
Indices: 1195316--1195397 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 42
1195306 TATTTTCATG
1195316 AACCATGAGGCTGAAATGGAGAAGGATGAGAAGGATTTGGGA
1 AACCATGAGGCTGAAATGGAGAAGGATGAGAAGGATTTGGGA
*
1195358 AACCATGAGG-TGAAATGGAGAGGGATGAGAAGGATTTGGG
1 AACCATGAGGCTGAAATGGAGAAGGATGAGAAGGATTTGGG
1195398 GAAAATGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 29 0.74
42 10 0.26
ACGTcount: A:0.37, C:0.06, G:0.40, T:0.17
Consensus pattern (42 bp):
AACCATGAGGCTGAAATGGAGAAGGATGAGAAGGATTTGGGA
Found at i:1206404 original size:22 final size:20
Alignment explanation
Indices: 1206370--1206412 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
1206360 AACAAAAACA
1206370 AGAAAATAAAGAAGATAAAG
1 AGAAAATAAAGAAGATAAAG
*
1206390 AGAAAAGTAAAAGAAGATTAAG
1 AGAAAA-T-AAAGAAGATAAAG
1206412 A
1 A
1206413 AGAAGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AGAAAATAAAGAAGATAAAG
Found at i:1209398 original size:21 final size:20
Alignment explanation
Indices: 1209368--1209406 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1209358 TTGATCGAAA
1209368 AATGTTTATTTAT-TTTATGC
1 AATGTTTA-TTATGTTTATGC
1209388 AATGTTTTATTATGTTTAT
1 AATG-TTTATTATGTTTAT
1209407 CTCAAGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
AATGTTTATTATGTTTATGC
Found at i:1209400 original size:20 final size:21
Alignment explanation
Indices: 1209368--1209406 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1209358 TTGATCGAAA
1209368 AATGTTTATTTAT-TTTATGC
1 AATGTTTATTTATGTTTATGC
1209388 AATGTTT-TATTATGTTTAT
1 AATGTTTAT-TTATGTTTAT
1209407 CTCAAGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (21 bp):
AATGTTTATTTATGTTTATGC
Found at i:1209619 original size:23 final size:24
Alignment explanation
Indices: 1209587--1209697 Score: 113
Period size: 23 Copynumber: 4.8 Consensus size: 24
1209577 GAGTCGAGGG
* * *
1209587 TTCTACGTGGTCCTTTGGGACAAA
1 TTCTATGTGGTCATTCGGGACAAA
1209611 -TCTATGTGGTCATTCGGGAC-AA
1 TTCTATGTGGTCATTCGGGACAAA
1209633 TTCTATGTGGTCATTCGGGA-AAA
1 TTCTATGTGGTCATTCGGGACAAA
* ** * *
1209656 TTCTACGCAGTCCTTTGGGACAAA
1 TTCTATGTGGTCATTCGGGACAAA
1209680 TTCTATGTGG-CACTTCGG
1 TTCTATGTGGTCA-TTCGG
1209698 TGTAATTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.03
23 54 0.77
24 14 0.20
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (24 bp):
TTCTATGTGGTCATTCGGGACAAA
Found at i:1216895 original size:16 final size:16
Alignment explanation
Indices: 1216874--1216907 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1216864 ACATGGGGCC
*
1216874 TATAAAATAATTATAA
1 TATAAAATAATAATAA
*
1216890 TATAAATTAATAATAA
1 TATAAAATAATAATAA
1216906 TA
1 TA
1216908 ATACAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAAATAATAATAA
Found at i:1217362 original size:21 final size:21
Alignment explanation
Indices: 1217293--1217364 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
1217283 AGGTTTTTTT
1217293 TTTGTTTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAGACAAAA
*
1217314 TTTTGTTTCATG-G-G---AAA
1 -TTTGTTTCAAGAGAGACAAAA
* *
1217331 -CTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAGACAAAA
1217351 TTTGTTTCAAGAGA
1 TTTGTTTCAAGAGA
1217365 AACTATCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
15 7 0.18
16 1 0.03
17 4 0.11
20 4 0.11
21 12 0.32
22 10 0.26
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (21 bp):
TTTGTTTCAAGAGAGACAAAA
Found at i:1217367 original size:36 final size:36
Alignment explanation
Indices: 1217299--1217532 Score: 189
Period size: 36 Copynumber: 6.6 Consensus size: 36
1217289 TTTTTTTGTT
* *
1217299 TCAAGAGAGACAAAATTTTGTTTCATGGGAAACTGTC
1 TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTC
*
1217336 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* * * * * * *
1217372 TCAAAATAGACAAAACATAGTTCCAAAAGAATCTGTC
1 TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTC
* ** * *
1217409 TCAAGGGAGATGAAACTTGTTTCAAG-GAAAACATAT-
1 TCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC-TGTC
* *
1217445 TC-A-A-AG----ATTTTGTTTCAAGGGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
1217474 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* *
1217510 TTAAGATAGACAAAACTTTGTTT
1 TCAAGAGAGACAAAA-TTTGTTT
1217533 TAAGTAAATT
Statistics
Matches: 154, Mismatches: 30, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
28 2 0.01
29 17 0.11
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 2 0.01
36 77 0.50
37 49 0.32
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
Found at i:1217386 original size:73 final size:73
Alignment explanation
Indices: 1217306--1217532 Score: 222
Period size: 73 Copynumber: 3.2 Consensus size: 73
1217296 GTTTCAAGAG
* *
1217306 AGACAAAATTTTGTTTCATGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTAT
1 AGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTAT
1217371 CTCAAAAT
66 CTCAAAAT
* * * ** * * ** *
1217379 AGACAAAACATAGTTCCAAAAGAATCTGTCTCAAGGGAGATGAAACTTGTTTCAAG-GAAAACAT
1 AGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC-T
1217443 AT-TC--AA-
64 ATCTCAAAAT
* *
1217449 AG-----ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGT
1 AGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTAT
* *
1217509 CTTAAGAT
66 CTCAAAAT
1217517 AGACAAAACTTTGTTT
1 AGACAAAACTTTGTTT
1217533 TAAGTAAATT
Statistics
Matches: 115, Mismatches: 27, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
64 2 0.02
65 43 0.37
66 1 0.01
67 1 0.01
68 2 0.02
70 2 0.02
71 2 0.02
72 1 0.01
73 58 0.50
74 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (73 bp):
AGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTAT
CTCAAAAT
Found at i:1218494 original size:110 final size:108
Alignment explanation
Indices: 1218311--1218624 Score: 510
Period size: 110 Copynumber: 2.9 Consensus size: 108
1218301 TTGTGTCTTT
* * *
1218311 TCGAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACACTGAATGAAACTGAAAAGTTGTTTTT
1 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT-TTTGT
*
1218376 TTACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
65 TGA-AGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
1218421 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGT
1 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT-TTTGT
*
1218486 TGAAAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTGTTGTC
65 TG-AAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
1218531 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAAAGTTTTTGTT
1 TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTTTTGTT
1218595 G-A--CAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 GAAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
1218625 AACCACCATC
Statistics
Matches: 195, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
104 27 0.14
106 1 0.01
108 7 0.04
109 7 0.04
110 152 0.78
111 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (108 bp):
TCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTTTTGTT
GAAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:1223364 original size:16 final size:16
Alignment explanation
Indices: 1223343--1223376 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1223333 AACATGGGCC
*
1223343 TATAAAATAATTATAA
1 TATAAAATAATAATAA
*
1223359 TATAAATTAATAATAA
1 TATAAAATAATAATAA
1223375 TA
1 TA
1223377 ATATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAAATAATAATAA
Found at i:1223396 original size:19 final size:19
Alignment explanation
Indices: 1223344--1223392 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1223334 ACATGGGCCT
*
1223344 ATAAAATAATTATAATATAA
1 ATAAAA-AATAATAATATAA
* *
1223364 ATTAATAATAATAATAT-A
1 ATAAAAAATAATAATATAA
1223382 ATAAAAAATAA
1 ATAAAAAATAA
1223393 ATAAATATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 10 0.42
20 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAAATAATAATATAA
Found at i:1223396 original size:22 final size:24
Alignment explanation
Indices: 1223344--1223392 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1223334 ACATGGGCCT
1223344 ATAA-AATAATTATAATATAAATTA
1 ATAATAATAATTATAATATAAA-TA
1223368 ATAATAATAA-TATAATA-AAA-A
1 ATAATAATAATTATAATATAAATA
1223389 ATAA
1 ATAA
1223393 ATAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.21
23 3 0.12
24 11 0.46
25 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAATAATAATTATAATATAAATA
Found at i:1225085 original size:23 final size:21
Alignment explanation
Indices: 1225059--1225105 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
1225049 AACGGCTGAG
1225059 AAAGAAAATAAAAAACTGGCCAC
1 AAAG-AAA-AAAAAACTGGCCAC
* *
1225082 AAAGACAAAAAAACTTGCCAC
1 AAAGAAAAAAAAACTGGCCAC
1225103 AAA
1 AAA
1225106 TGTAGAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 2 0.09
23 4 0.18
ACGTcount: A:0.62, C:0.19, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAGAAAAAAAAACTGGCCAC
Found at i:1228671 original size:19 final size:19
Alignment explanation
Indices: 1228647--1228703 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
1228637 GCGATTTTGA
1228647 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
1228666 AAAATGTGTTTCGATAGTT
1 AAAATGTGTTGCGATAGTT
* *
1228685 AAAATGTATTGCGAGAGTT
1 AAAATGTGTTGCGATAGTT
1228704 TGAAAAACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:1228740 original size:19 final size:19
Alignment explanation
Indices: 1228644--1228752 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 19
1228634 AATGCGATTT
1228644 TGAAAAATGTGTTGCGATAG
1 TGAAAAA-GTGTTGCGATAG
* * *
1228664 TTAAAATGTGTTTCGATAG
1 TGAAAAAGTGTTGCGATAG
* * * *
1228683 TTAAAATGTATTGCGAGAG
1 TGAAAAAGTGTTGCGATAG
* *
1228702 TTTGAAAAACCTATTGTTGCTATAG
1 --TG-AAAA---AGTGTTGCGATAG
1228727 TGAAAAAGTGTTGCGATAG
1 TGAAAAAGTGTTGCGATAG
1228746 TGAAAAA
1 TGAAAAA
1228753 TCCAAAATAA
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
19 45 0.65
20 5 0.07
21 1 0.01
22 8 0.12
23 2 0.03
25 8 0.12
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (19 bp):
TGAAAAAGTGTTGCGATAG
Found at i:1230970 original size:10 final size:10
Alignment explanation
Indices: 1230955--1230979 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1230945 TTGCTTTCAC
1230955 CCTTTATAAT
1 CCTTTATAAT
1230965 CCTTTATAAT
1 CCTTTATAAT
1230975 CCTTT
1 CCTTT
1230980 TTTGAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (10 bp):
CCTTTATAAT
Found at i:1231805 original size:17 final size:17
Alignment explanation
Indices: 1231767--1231805 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1231757 ACATGTTATT
*
1231767 TATTATTTATGTTATAA
1 TATTATTTATATTATAA
1231784 TATTATTTATTATTATAA
1 TATTATTTA-TATTATAA
1231802 -ATTA
1 TATTA
1231806 AATTTATGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTTATATTATAA
Found at i:1235940 original size:2 final size:2
Alignment explanation
Indices: 1235933--1235960 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1235923 CTACGCATTC
1235933 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
1235961 GACTCAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1240395 original size:35 final size:35
Alignment explanation
Indices: 1240328--1240435 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 35
1240318 AATGTGTATA
* *** * *
1240328 ACTATTGTGCATTCTCTAAATGTGATAAATGACAC
1 ACTATTGTGCATTCTCTGAATACAACACATGACAC
1240363 ACTATTGTGCATTCTCTGAATACAACACATGACAC
1 ACTATTGTGCATTCTCTGAATACAACACATGACAC
* * * * *
1240398 GCTGTTGTGCATTTTGTGAATACAACACATGATAC
1 ACTATTGTGCATTCTCTGAATACAACACATGACAC
1240433 ACT
1 ACT
1240436 GCTAATATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (35 bp):
ACTATTGTGCATTCTCTGAATACAACACATGACAC
Found at i:1244583 original size:19 final size:19
Alignment explanation
Indices: 1244556--1244629 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
1244546 TAAATTGGGC
*
1244556 TATGTATCTGAAAATAAGT
1 TATGAATCTGAAAATAAGT
*
1244575 TATGAATCTAAAAATGAA-T
1 TATGAATCTGAAAAT-AAGT
* *
1244594 TATAAATCTGAAAATGAGT
1 TATGAATCTGAAAATAAGT
1244613 TATGAATCTGAAAATAA
1 TATGAATCTGAAAATAA
1244630 AGAAAGGTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.02
19 43 0.93
20 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
TATGAATCTGAAAATAAGT
Found at i:1246721 original size:19 final size:19
Alignment explanation
Indices: 1246697--1246746 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
1246687 ATGTTATTGA
1246697 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
1246716 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
1246735 TGCATCGATGCA
1 TGCATCGATGCA
1246747 CCCGTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:1255858 original size:20 final size:21
Alignment explanation
Indices: 1255819--1255877 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
1255809 TTTTGGTGTA
* *
1255819 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCTTT
*
1255839 GAGGGAACCGATTCCTCCTTT
1 GAGGGAACCGATTCCCCCTTT
1255860 GAAGGGGAACCGATTCCC
1 G-A-GGGAACCGATTCCC
1255878 ACCACAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 10 0.31
21 8 0.25
22 1 0.03
23 13 0.41
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTTT
Found at i:1263530 original size:18 final size:18
Alignment explanation
Indices: 1263459--1263531 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
1263449 AGGGATTATC
*
1263459 AGTGATCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1263477 AGTGGTTCGTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
* *
1263496 CAGTGGTCTTTTGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
1263515 AGTGGTCCTTCAGGACA
1 AGTGGTCCTTCGGGACA
1263532 AATATTCAGT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
18 26 0.63
19 4 0.10
20 11 0.27
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1273647 original size:64 final size:62
Alignment explanation
Indices: 1273572--1273732 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 62
1273562 TTGTTTAAGG
1273572 TGCATCGATGCACATGCAGTGCATCGATGCAGT-AATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCACATGCAGTGCATCGATGCA-TCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * * * * *
1273636 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACATGCAGTGCATCGATGCAT--CAATTAAAAAAAAACATCGAATAGGATTTA
** *
1273700 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCA-CATGCAGTGCATCGATGCAT
1273733 ACCTCCATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 59 0.71
65 22 0.27
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (62 bp):
TGCATCGATGCACATGCAGTGCATCGATGCATCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:1274357 original size:23 final size:23
Alignment explanation
Indices: 1274326--1274386 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
1274316 TATTATATGG
1274326 CACTACGGTGCAATTCTACGCGC
1 CACTACGGTGCAATTCTACGCGC
* * *
1274349 CACTCCGGTGCAATTCTACGTGG
1 CACTACGGTGCAATTCTACGCGC
1274372 CACTTA-GGTGCAATT
1 CAC-TACGGTGCAATT
1274387 ATATGAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGCGC
Found at i:1275958 original size:11 final size:11
Alignment explanation
Indices: 1275942--1275972 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1275932 ATTTATCATT
1275942 TTAAAACACAC
1 TTAAAACACAC
*
1275953 TTAAAACATAC
1 TTAAAACACAC
1275964 TTAAAACAC
1 TTAAAACAC
1275973 TTCTCCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (11 bp):
TTAAAACACAC
Found at i:1278271 original size:21 final size:21
Alignment explanation
Indices: 1278216--1278279 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1278206 GATTCCCCTG
1278216 TGGGGGGAATCGGTTCCCATTCA
1 TGGGGGGAATCGGTTCCC--TCA
**
1278239 AAGGGGGAATCGGTTCCCTCA
1 TGGGGGGAATCGGTTCCCTCA
* *
1278260 TGGGGGGGATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
1278280 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.54
23 16 0.46
ACGTcount: A:0.17, C:0.23, G:0.36, T:0.23
Consensus pattern (21 bp):
TGGGGGGAATCGGTTCCCTCA
Found at i:1283518 original size:27 final size:28
Alignment explanation
Indices: 1283483--1283538 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
1283473 ATGTTTGCAC
1283483 AATTCTAGAACAAGAAAAGAACA-TCAA
1 AATTCTAGAACAAGAAAAGAACACTCAA
1283510 AATTCTAGAACAAGAAAAGAACACTCAA
1 AATTCTAGAACAAGAAAAGAACACTCAA
1283538 A
1 A
1283539 TAATTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (28 bp):
AATTCTAGAACAAGAAAAGAACACTCAA
Found at i:1284757 original size:34 final size:35
Alignment explanation
Indices: 1284714--1284783 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
1284704 TCAATGGTTA
1284714 GTATAGGA-GGAGTGTCTCGACCATTAAGTATCAT
1 GTATAGGAGGGAGTGTCTCGACCATTAAGTATCAT
1284748 GTATAGGAGGGAGTGTCTCGACCATTAAGTATCAT
1 GTATAGGAGGGAGTGTCTCGACCATTAAGTATCAT
1284783 G
1 G
1284784 GACAGGAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (35 bp):
GTATAGGAGGGAGTGTCTCGACCATTAAGTATCAT
Found at i:1284791 original size:35 final size:35
Alignment explanation
Indices: 1284718--1284791 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
1284708 TGGTTAGTAT
* *
1284718 AGGA-GGAGTGTCTCGACCATTAAGTATCATGTAT
1 AGGAGGGAGTGTCTCGACCATTAAGTATCATGGAC
1284752 AGGAGGGAGTGTCTCGACCATTAAGTATCATGGAC
1 AGGAGGGAGTGTCTCGACCATTAAGTATCATGGAC
1284787 AGGAG
1 AGGAG
1284792 AAATTTGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 4 0.11
35 33 0.89
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (35 bp):
AGGAGGGAGTGTCTCGACCATTAAGTATCATGGAC
Found at i:1287866 original size:25 final size:26
Alignment explanation
Indices: 1287837--1287886 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1287827 TTATTTTTAT
*
1287837 TTCTTAAAA-TTTATAAATTTGTCCA
1 TTCTTAAAATTTTAGAAATTTGTCCA
1287862 TTCTTAAAATTTTAGAAATTTGTCC
1 TTCTTAAAATTTTAGAAATTTGTCC
1287887 CTCCTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (26 bp):
TTCTTAAAATTTTAGAAATTTGTCCA
Done.