Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 77 of 135
Found at i:25801824 original size:12 final size:13
Alignment explanation
Indices: 25801791--25801833 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
25801781 TTTAATTTTT
* *
25801791 TAAATATAAAAAT
1 TAAATAAAAAAAG
25801804 TAAATAAAAAAAG
1 TAAATAAAAAAAG
25801817 TAAA-AAAAAAAG
1 TAAATAAAAAAAG
25801829 TAAAT
1 TAAAT
25801834 GGAAATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
TAAATAAAAAAAG
Found at i:25808602 original size:17 final size:17
Alignment explanation
Indices: 25808580--25808618 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25808570 AGGTGAAGAA
*
25808580 CTTGTTCGTT-GAGAGTT
1 CTTGTTC-TTAGAGAATT
25808597 CTTGTTCTTAGAGAATT
1 CTTGTTCTTAGAGAATT
25808614 CTTGT
1 CTTGT
25808619 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (17 bp):
CTTGTTCTTAGAGAATT
Found at i:25808665 original size:41 final size:41
Alignment explanation
Indices: 25808608--25808703 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
25808598 TTGTTCTTAG
* *
25808608 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAAAATTGGGTGACT
25808649 AGAATTCTTGTTAAGGTGGAGATTGTTAAAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAAAATTGGGTGACT
25808690 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
25808704 AATAAAATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.36
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAAAATTGGGTGACT
Found at i:25811629 original size:6 final size:6
Alignment explanation
Indices: 25811618--25811656 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
25811608 GAAGACGACC
25811618 ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA ACA
1 ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA ACA
25811657 ATGGTGCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (6 bp):
ACACCA
Found at i:25815963 original size:21 final size:21
Alignment explanation
Indices: 25815936--25815991 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
25815926 GTTAGGAAGG
25815936 TTCTACCGATACAAGTATGAC
1 TTCTACCGATACAAGTATGAC
* * *
25815957 TAT-TACCGATATAATTATTAC
1 T-TCTACCGATACAAGTATGAC
25815978 TTCTACCGATACAA
1 TTCTACCGATACAA
25815992 TAAACTCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
TTCTACCGATACAAGTATGAC
Found at i:25817476 original size:16 final size:16
Alignment explanation
Indices: 25817452--25817483 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25817442 TCCTTACAAA
*
25817452 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
25817468 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
25817484 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:25819026 original size:15 final size:15
Alignment explanation
Indices: 25818998--25819038 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
25818988 AGAATGTGGA
25818998 CTATTAAT--TTTTT
1 CTATTAATCATTTTT
25819011 CTATTAATCATTTTT
1 CTATTAATCATTTTT
*
25819026 CTAATAATTCATT
1 CTATTAA-TCATT
25819039 GATTTGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
15 11 0.46
16 5 0.21
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (15 bp):
CTATTAATCATTTTT
Found at i:25820190 original size:15 final size:16
Alignment explanation
Indices: 25820154--25820187 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25820144 CTTCCTCAGA
*
25820154 TTTATAACTTGTAAGT
1 TTTATAACTTCTAAGT
*
25820170 TTTATATCTTCTAAGT
1 TTTATAACTTCTAAGT
25820186 TT
1 TT
25820188 ATAGAGTTAC
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:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (16 bp):
TTTATAACTTCTAAGT
Found at i:25825592 original size:37 final size:36
Alignment explanation
Indices: 25825530--25825604 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
25825520 TTTCAAAAAC
*
25825530 AATATTATTTTAATAGTTTAATATTAAATTTAAT-TT
1 AATATTAATTTAATAGTTTAATATT-AATTTAATATT
*
25825566 AATACTTAATTTAATAGTATT-TTATTAATTTAATATT
1 AATA-TTAATTTAATAGT-TTAATATTAATTTAATATT
25825603 AA
1 AA
25825605 AGTGATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.35
37 20 0.59
38 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
AATATTAATTTAATAGTTTAATATTAATTTAATATT
Found at i:25830693 original size:13 final size:14
Alignment explanation
Indices: 25830674--25830706 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
25830664 TCAGATTGTA
25830674 AATATTAATTATTT
1 AATATTAATTATTT
25830688 -ATATTAATTATTT
1 AATATTAATTATTT
25830701 AATATT
1 AATATT
25830707 TACGAGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATATTAATTATTT
Found at i:25832139 original size:194 final size:195
Alignment explanation
Indices: 25831789--25832234 Score: 517
Period size: 194 Copynumber: 2.3 Consensus size: 195
25831779 GAAATCGATG
* * * * * * * *
25831789 CGATGACTGGGGTACCGCGTATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAACATCGTGAATCG
1 CGATGGCTGAGGTACCGCATATATTGCGAATCCTCGACAGCTCGTGTGAGCAGCATCATGAATCG
* *
25831854 AGAAGATGAGAAATGAATCTAAGAATGGATTACATGCCCTACAATGGCTGGGATTTATGCATAAG
66 AGAAGAAGAGAAATGAATCTAAGAATGGATTACAGGCCCTACAATGGCTGGGATTTATGCATAAG
* * * * * * *
25831919 TGTATATTCTCGATAGCTCGTGTGAGCAGCATCGTT-AGTGGACAGTTATA-TGCACAGATACCA
131 TGCATATTCTCAACAGCTCATGTGAGCAGCATCGTTAAG-GGACAATT-TACAG-ACAGACACCA
*
25831982 CAT
193 CAC
* * *
25831985 CGATGGCTGAGGTACCGCATTTATTGCGAATCCTCGAAAGCTCGTGTGAGCAGCATCATGATTCG
1 CGATGGCTGAGGTACCGCATATATTGCGAATCCTCGACAGCTCGTGTGAGCAGCATCATGAATCG
* * *
25832050 A-AA-AAGAGATATGAAATCCT-A-AATGGATTACAGGCCTTACGATGGCTGGGATTTATGCATA
66 AGAAGAAGAGAAATG-AAT-CTAAGAATGGATTACAGGCCCTACAATGGCTGGGATTTATGCATA
* **
25832111 AGTGCATATTCTCAACAGCTCATGTGAGCAGCATCGTTAAGGGACAATTTACAGACAGACATCGT
129 AGTGCATATTCTCAACAGCTCATGTGAGCAGCATCGTTAAGGGACAATTTACAGACAGACACCAC
25832176 AC
194 AC
* * * * *
25832178 CGATGGCTGGGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGAAGCATC
1 CGATGGCTGAGGTACCGCATATATTGCGAATCCTCGACAGCTCGTGTGAGCAGCATC
25832235 GGGTACTGGT
Statistics
Matches: 212, Mismatches: 34, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
193 60 0.28
194 87 0.41
195 8 0.04
196 57 0.27
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATATTGCGAATCCTCGACAGCTCGTGTGAGCAGCATCATGAATCG
AGAAGAAGAGAAATGAATCTAAGAATGGATTACAGGCCCTACAATGGCTGGGATTTATGCATAAG
TGCATATTCTCAACAGCTCATGTGAGCAGCATCGTTAAGGGACAATTTACAGACAGACACCACAC
Found at i:25832988 original size:21 final size:21
Alignment explanation
Indices: 25832950--25833023 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
25832940 GTGTTTAGTA
*
25832950 TCGGTAGAAGTAGGACTTGTT
1 TCGGTAGAAGTAGCACTTGTT
*
25832971 TCGGTAGAAG-AGTCACTTGTA
1 TCGGTAGAAGTAG-CACTTGTT
** * * *
25832992 TAAGTAGAACTATCACTTGTA
1 TCGGTAGAAGTAGCACTTGTT
*
25833013 TCGATAGAAGT
1 TCGGTAGAAGT
25833024 CTGCACTATT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGGTAGAAGTAGCACTTGTT
Found at i:25838067 original size:21 final size:21
Alignment explanation
Indices: 25838043--25838102 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
25838033 TAGAAGCATG
*
25838043 ACTTGTTTCGGTAGAAGTTTC
1 ACTTGTATCGGTAGAAGTTTC
* *
25838064 ACTTGTATCGGTAAAATTTTC
1 ACTTGTATCGGTAGAAGTTTC
*
25838085 A-TAGGTATCGGTAGAAGT
1 ACT-TGTATCGGTAGAAGT
25838103 CTGCGCTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGTTTC
Found at i:25841795 original size:17 final size:18
Alignment explanation
Indices: 25841773--25841812 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
25841763 TTAATTAGAC
*
25841773 TAAATTTTAAT-AAATTT
1 TAAATTTGAATGAAATTT
25841790 TAAATTTGAATGAAATTT
1 TAAATTTGAATGAAATTT
*
25841808 AAAAT
1 TAAAT
25841813 ATAACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TAAATTTGAATGAAATTT
Found at i:25843075 original size:41 final size:40
Alignment explanation
Indices: 25843012--25843386 Score: 462
Period size: 41 Copynumber: 9.2 Consensus size: 40
25843002 TAATGACCCG
* * ** *
25843012 GCCGCTAATGACCTGATGTTTAGCGGCGCTTGTGGGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTG-GGGAAAGC
* *
25843053 ACCGCGAATGACCCGACCTTTAGCGGCGCTTGGGGAAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGGG-AAAGC
* *
25843094 GCCGTGAATGACCCGACCTTTAGCAGTGCTTGGGTGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGG-GAAAGC
25843135 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGGTGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGG-GAAAGC
* *
25843176 TCCACGAATGACCCGACCTTTAGCGGTGCTTGGGGGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTT-GGGGAAAGC
* **
25843217 GCCACGAATGACCCGACCTTTAGCGACGCTTGGGTGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGG-GAAAGC
* * * *
25843258 ACCGCTAATGACCCGAGCTTTAGCGGTGCTTGGGGGAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGGGAAAGC
* * * *
25843298 GCCACGAATGACCTGACCTTTAGTGGCGCTTGAGGGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTTG-GGGAAAGC
* *
25843339 GCCGCTAATGACCTGACCTTTAGCGGTGCTTGGGGGAAAGC
1 GCCGCGAATGACCCGACCTTTAGCGGTGCTT-GGGGAAAGC
25843380 GCCGCGA
1 GCCGCGA
25843387 GTGCTTTACC
Statistics
Matches: 292, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
40 36 0.12
41 251 0.86
42 5 0.02
ACGTcount: A:0.22, C:0.26, G:0.33, T:0.19
Consensus pattern (40 bp):
GCCGCGAATGACCCGACCTTTAGCGGTGCTTGGGGAAAGC
Found at i:25843419 original size:40 final size:40
Alignment explanation
Indices: 25843375--25843485 Score: 177
Period size: 40 Copynumber: 2.8 Consensus size: 40
25843365 TGCTTGGGGG
* *
25843375 AAAGCGCCGCGAGTGCTTTACCTTTTGCGGCGTTTATGGA
1 AAAGCGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGA
25843415 AAAGCGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGA
1 AAAGCGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGA
* * *
25843455 AAAGCTCCGCTATTACTTTACCTTTTACGGC
1 AAAGCGCCGCTATTGCTTTACCTTTTGCGGC
25843486 ATTTTCTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (40 bp):
AAAGCGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGA
Found at i:25845619 original size:31 final size:29
Alignment explanation
Indices: 25845584--25845641 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
25845574 AATGGTGTTT
*
25845584 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
25845615 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
25845642 GTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:25846369 original size:19 final size:18
Alignment explanation
Indices: 25846342--25846385 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25846332 TGATAAATTG
*
25846342 TTGAAAAAATTAAAACAA
1 TTGAAAAAAATAAAACAA
* *
25846360 TTGAAAAAAATAAATCTA
1 TTGAAAAAAATAAAACAA
25846378 TTGAAAAA
1 TTGAAAAA
25846386 TAATGATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (18 bp):
TTGAAAAAAATAAAACAA
Found at i:25857753 original size:9 final size:9
Alignment explanation
Indices: 25857730--25857763 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25857720 ACAGTGTAAG
25857730 TTAAAGAAAA
1 TTAAA-AAAA
*
25857740 ATAAAAAAA
1 TTAAAAAAA
25857749 TTAAAAAAA
1 TTAAAAAAA
25857758 TTAAAA
1 TTAAAA
25857764 TGCAAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:25859493 original size:46 final size:40
Alignment explanation
Indices: 25859440--25860917 Score: 821
Period size: 39 Copynumber: 36.4 Consensus size: 40
25859430 GCTATTGTAA
* *
25859440 CTTCAATCTGCCCCTCTTGATTTAAGGGTAAAAGATTGGACGGTGT
1 CTTCAATCTGCCCCTC-TG-GTT-AGGGTAAAAGATTGGA---TGG
* *
25859486 CTTCAATCTG-TCTTCTGGTTAGGGTAAAAGATTGGATGG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * *
25859525 CTTCAATCTGCCCC-ATGG-TCGGGGAAAGAGATTGGATGTTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAA-AGATTGGATG--G
* * *
25859566 TCTTCAATCTG-CCCTCTAGTTAGGATAAAAAATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * ** * *
25859606 CTTCAATTTGCCCC-ATGGTCGGGGTAAGAGATTGGATATTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGG--ATGG
* * * *
25859647 -TCTCTAATTTG-CCCTCTGGTTAAGGTAAAATATTGGACGG
1 CT-TC-AATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25859687 CTTCAATCTACCCC-ATGGTCAGGGTAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* * *
25859728 ACTTCAGTTTG-CCCTCTAGTTAGGGTAAAAGATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * *
25859768 CTTCAATCTGCCCC-ATGGTAAGGGTAAGAGATTGGATGG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
*
25859807 TATCTTCAATCTG-CCCTCTGATTAGGGTAAAAGATTGGATGG
1 ---CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25859849 CTTCAATCTGCCCC-ATGGTCAGGGGAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* *** *
25859890 TCTTCAATTTG-CCCTCCAATTAGGATAAAAGATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * *
25859930 CTTTAATCTG--CCTCATGG-TCGAGGTAAGAGATTGGATGTTG
1 CTTCAATCTGCCCCTC-TGGTTAG-GGTAAAAGATTGGATG--G
**
25859971 TCTTCAATCTG-CCCTCTAATTAGGGTAAAAGATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * *
25860011 CTTCAATCTGCCCC-ATGG-TCGAGGTAAGA-ATTGGATGGCG
1 CTTCAATCTGCCCCTCTGGTTAG-GGTAAAAGATTGGAT-G-G
* * *
25860051 TCTTTAATCT-ACCCTCTGGTTAGGGTAAAAGATTGGATGC
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * * ** *
25860091 CTTCACTCTACCCC-ATGATCGGGGTAAGAGATTGGATGATG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATG--G
* * *
25860132 TCTTTAATCTG-CCCTCTAGTTAGGGTAAAAGATTGGATTG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25860172 CTTCAATTTGCCCC-ATGG-TCGAGGTAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAG-GGTAAAAGATTGGAT-G-G
* * *
25860213 TCTTCAATCT-ACCCTCTAGTTAGGGTAAAAGAATGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * ** *
25860253 CTTCAA-CTACCCC-ATGGTCGGGGTAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* ***
25860293 TCTTCAATTTG-CCCTCCATTTAGGGTAAAAGATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25860333 CTTCAATCTGCCTCATCATCG--A-GGTAAGAGATTGAATGTTG
1 CTTCAATCTGCC-CCTC-TGGTTAGGGTAAAAGATTGGATG--G
* *
25860374 TCTTCAATCTG-CCCTCTGATTAGGGTAAAAGATTAGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* ** * *
25860414 CTTCAATCTGCCCC-ATGGTCGGGGTAAGATATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* *
25860455 TCTTTAATCTG-CCCTCTAGTTAGGGTAAAAGATTGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * * * ** *
25860495 CTTCATTTTACCCC-ATGATCGGGGTAAGAGATTGGATGATG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATG--G
* * * *
25860536 TCTTTAATCT-TCCCTCTAGTTAGGGTAAAAGATTGGATTG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25860576 CTTCAATCTGCCCC-ATGGTCAAGGTAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* * * *
25860617 TCTTCAATTTG-CGCTCTAGTTAGGGTAAAAGAATGGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * * *
25860657 CTTCAATCTACCCC-ATGGTTGGGGTAAGAGATTAGATGG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* ** *
25860696 TATCTCCAATCAATTTTCCCTCTGGTTAGGGTAAAAGATTGGATAG
1 ---CTTCAATC---TGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* ** * * * *
25860742 CTTCAATTTG-CCCAATAGTTGGGGCAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
*
25860783 TCTTCAATCTG-CCCTCTGGTTAGGGTAAAAGATTAGATGG
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * *
25860823 CTTCAATCTGCCCC-ATGGTCAAGGTAAGAGATTGGATGGTG
1 CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G
* * *
25860864 TCTTCAATCTGCCCGT-TGGTTAGGGTAAAATATTGGATGA
1 -CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
*
25860904 CTTCAATCTACCCC
1 CTTCAATCTGCCCC
25860918 ATGGTGTAAC
Statistics
Matches: 1074, Mismatches: 256, Indels: 211
0.70 0.17 0.14
Matches are distributed among these distances:
38 43 0.04
39 414 0.39
40 68 0.06
41 86 0.08
42 402 0.37
43 22 0.02
44 2 0.00
45 7 0.01
46 30 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
CTTCAATCTGCCCCTCTGGTTAGGGTAAAAGATTGGATGG
Found at i:25859588 original size:81 final size:81
Alignment explanation
Indices: 25859465--25860922 Score: 1913
Period size: 81 Copynumber: 18.0 Consensus size: 81
25859455 CTTGATTTAA
* * * * *
25859465 GGGTAAAAGATTGGACGGTGTCTTCAATCTGTCTTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
25859530 ATCTGCCCCATGGTCG
66 ATCTGCCCCATGGTCG
* * * *
25859546 GGGAAAGAGATTGGATGTTGTCTTCAATCTGCCCTCTAGTTAGGATAAAAAATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25859611 ATTTGCCCCATGGTCG
66 ATCTGCCCCATGGTCG
** * * * * *
25859627 GGGTAAGAGATTGGATATTGTC-TCTAATTTGCCCTCTGGTTAAGGTAAAATATTGGACGGCTTC
1 GGGTAAGAGATTGGATGGTGTCTTC-AATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTC
* *
25859691 AATCTACCCCATGGTCA
65 AATCTGCCCCATGGTCG
* * *
25859708 GGGTAAGAGATTGGATGGTGACTTCAGTTTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
**
25859773 ATCTGCCCCATGGTAA
66 ATCTGCCCCATGGTCG
*
25859789 GGGTAAGAGATTGGATGGTATCTTCAATCTGCCCTCT-GATTAGGGTAAAAGATTGGATGGCTTC
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAG-TTAGGGTAAAAGATTGGATGGCTTC
25859853 AATCTGCCCCATGGTCAG
65 AATCTGCCCCATGGTC-G
* * * * *
25859871 GGG-AAGAGATTGGATGGTGTCTTCAATTTGCCCTCCAATTAGGATAAAAGATTGGATGGCTTTA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25859935 ATCTGCCTCATGGTCG
66 ATCTGCCCCATGGTCG
* * *
25859951 AGGTAAGAGATTGGATGTTGTCTTCAATCTGCCCTCTAATTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
25860016 ATCTGCCCCATGGTCG
66 ATCTGCCCCATGGTCG
* * * * * *
25860032 AGGTAAGA-ATTGGATGGCGTCTTTAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGCCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* * *
25860096 CTCTACCCCATGATCG
66 ATCTGCCCCATGGTCG
* * *
25860112 GGGTAAGAGATTGGATGATGTCTTTAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25860177 ATTTGCCCCATGGTCG
66 ATCTGCCCCATGGTCG
* * *
25860193 AGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGAATGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25860258 A-CTACCCCATGGTCG
66 ATCTGCCCCATGGTCG
* * *
25860273 GGGTAAGAGATTGGATGGTGTCTTCAATTTGCCCTCCATTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* **
25860338 ATCTGCCTCATCATCG
66 ATCTGCCCCATGGTCG
* * * *
25860354 AGGTAAGAGATTGAATGTTGTCTTCAATCTGCCCTCT-GATTAGGGTAAAAGATTAGATGGCTTC
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAG-TTAGGGTAAAAGATTGGATGGCTTC
25860418 AATCTGCCCCATGGTCG
65 AATCTGCCCCATGGTCG
* *
25860435 GGGTAAGATATTGGATGGTGTCTTTAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* * * *
25860500 TTTTACCCCATGATCG
66 ATCTGCCCCATGGTCG
* * * *
25860516 GGGTAAGAGATTGGATGATGTCTTTAATCTTCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25860581 ATCTGCCCCATGGTCA
66 ATCTGCCCCATGGTCG
* * * *
25860597 AGGTAAGAGATTGGATGGTGTCTTCAATTTGCGCTCTAGTTAGGGTAAAAGAATGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* *
25860662 ATCTACCCCATGGTTG
66 ATCTGCCCCATGGTCG
* * * * * *
25860678 GGGTAAGAGATTAGATGGTATCTCCAATCAATTTTCCCTCTGGTTAGGGTAAAAGATTGGATAGC
1 GGGTAAGAGATTGGATGGTGTCT----TCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGC
* * * *
25860743 TTCAATTTGCCCAATAGTTG
62 TTCAATCTGCCCCATGGTCG
* * *
25860763 GGGCAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTAGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
25860828 ATCTGCCCCATGGTCA
66 ATCTGCCCCATGGTCG
* * * *
25860844 AGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCGT-TGGTTAGGGTAAAATATTGGATGACTTC
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCC-TCTAGTTAGGGTAAAAGATTGGATGGCTTC
*
25860908 AATCTACCCCATGGT
65 AATCTGCCCCATGGT
25860923 GTAACACCCA
Statistics
Matches: 1202, Mismatches: 160, Indels: 30
0.86 0.11 0.02
Matches are distributed among these distances:
80 147 0.12
81 979 0.81
82 7 0.01
85 69 0.06
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (81 bp):
GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
ATCTGCCCCATGGTCG
Found at i:25862122 original size:26 final size:26
Alignment explanation
Indices: 25862071--25862141 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
25862061 GTCTTCCAGA
* * * *
25862071 AATTTAGCTCATATGAGCCTAGACAG
1 AATTTAGCTCTTACGAGCCCAAACAG
*
25862097 AGTTTAGCTCTTACGAGCCCAAACAG
1 AATTTAGCTCTTACGAGCCCAAACAG
25862123 AATATT-GCTCTTACGAGCC
1 AAT-TTAGCTCTTACGAGCC
25862142 AGAGTTTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (26 bp):
AATTTAGCTCTTACGAGCCCAAACAG
Found at i:25862196 original size:28 final size:28
Alignment explanation
Indices: 25862164--25862234 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
25862154 ACTTCTCCAC
*
25862164 CGAGCCAGAATCAGAACATTGCTC-TTT
1 CGAGCCAGAATCAGAACATCGCTCTTTT
*
25862191 CTGAGCCAGAATCAAAACATCGCTCTTTT
1 C-GAGCCAGAATCAGAACATCGCTCTTTT
25862220 CGAGCCAGAATCAGA
1 CGAGCCAGAATCAGA
25862235 GTAGTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 34 0.87
29 4 0.10
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (28 bp):
CGAGCCAGAATCAGAACATCGCTCTTTT
Found at i:25867115 original size:25 final size:25
Alignment explanation
Indices: 25866980--25867119 Score: 145
Period size: 25 Copynumber: 5.5 Consensus size: 25
25866970 ATAGAGTTTA
* * *
25866980 GCTCTTACGAGCCCAAACAGAATATC
1 GCTCTTACGAG-CTAGACAGAATATT
* *
25867006 GCTCTTACGAGCTAGTCAGAATATC
1 GCTCTTACGAGCTAGACAGAATATT
* *
25867031 GCTCTTACGAGCCAAACAGAATATT
1 GCTCTTACGAGCTAGACAGAATATT
** *
25867056 GCAGTTACGAGCTAGAATCAGAACATT
1 GCTCTTACGAGCTAG-A-CAGAATATT
25867083 GCTCTTACGAGCTAGACAGAATATT
1 GCTCTTACGAGCTAGACAGAATATT
* *
25867108 ACTTTTACGAGC
1 GCTCTTACGAGC
25867120 CGGAGTTTAG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
25 61 0.64
26 13 0.14
27 21 0.22
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (25 bp):
GCTCTTACGAGCTAGACAGAATATT
Found at i:25867116 original size:52 final size:50
Alignment explanation
Indices: 25866980--25867119 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 50
25866970 ATAGAGTTTA
* *
25866980 GCTCTTACGAGCCCAAACAGAATATCGCTCTTACGAGCTAGTCAGAATATC
1 GCTCTTACGAG-CCAAACAGAATATTGCTCTTACGAGCTAGTCAGAACATC
** *
25867031 GCTCTTACGAGCCAAACAGAATATTGCAGTTACGAGCTAGAATCAGAACATT
1 GCTCTTACGAGCCAAACAGAATATTGCTCTTACGAGCTAG--TCAGAACATC
* * * *
25867083 GCTCTTACGAGCTAGACAGAATATTACTTTTACGAGC
1 GCTCTTACGAGCCAAACAGAATATTGCTCTTACGAGC
25867120 CGGAGTTTAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 26 0.34
51 11 0.14
52 40 0.52
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (50 bp):
GCTCTTACGAGCCAAACAGAATATTGCTCTTACGAGCTAGTCAGAACATC
Found at i:25867369 original size:18 final size:18
Alignment explanation
Indices: 25867343--25867377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25867333 TTTTCTCTTT
25867343 TTCTCGATCTATGACAAG
1 TTCTCGATCTATGACAAG
* *
25867361 TTCTTGATCTATTACAA
1 TTCTCGATCTATGACAA
25867378 TAATTCATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (18 bp):
TTCTCGATCTATGACAAG
Found at i:25869038 original size:39 final size:38
Alignment explanation
Indices: 25868993--25869199 Score: 166
Period size: 39 Copynumber: 5.2 Consensus size: 38
25868983 GAACGGTGTC
* *
25868993 TTCAATCTGCCCTCTAGTTAGGGTAAAAGATAGGATGAG
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG-G
** *
25869032 TTCAATCTGCCC-CATGGTCGGGGTAAGAGATTGGATGG
1 TTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGG
* *
25869070 TGTCTTTAATCTACCATCTGGTTAGGGTAAAAGATTGGATGG
1 T-TC---AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG
** * *
25869112 CTTCAATCTGCCC-CATGGTCGGGGTAAGATATTGGATGG
1 -TTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGG
**
25869151 TGTCTTTAATCTGCTATCTGGTTAGGGTAAAAGATTGGATGG
1 T-TC---AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG
25869193 CTTCAAT
1 -TTCAAT
25869200 TTATCCCATG
Statistics
Matches: 132, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
38 5 0.04
39 64 0.48
42 59 0.45
43 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (38 bp):
TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG
Found at i:25869098 original size:42 final size:41
Alignment explanation
Indices: 25868965--25869192 Score: 189
Period size: 42 Copynumber: 5.6 Consensus size: 41
25868955 CTGTTACACA
* * *
25868965 TGGTCAGGGTAAGAGATTGAACGGTGTCTTCAATCTGCCCTC
1 TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTG-CCTC
* * * * *
25869007 TAGTTAGGGTAAAAGATAGGAT-GAG--TTCAATCTGCCCC
1 TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTGCCTC
* * * *
25869045 ATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTACCATC
1 -TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTGCC-TC
* *
25869088 TGGTTAGGGTAAAAGATTGGAT-G-G-CTTCAATCTGCCCC
1 TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTGCCTC
* * * * *
25869126 ATGGTCGGGGTAAGATATTGGATGGTGTCTTTAATCTGCTATC
1 -TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTGC-CTC
*
25869169 TGGTTAGGGTAAAAGATTGGATGG
1 TGGTCAGGGTAAAAGATTGGATGG
25869193 CTTCAATTTA
Statistics
Matches: 142, Mismatches: 34, Indels: 20
0.72 0.17 0.10
Matches are distributed among these distances:
38 4 0.03
39 54 0.38
40 4 0.03
41 4 0.03
42 74 0.52
43 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (41 bp):
TGGTCAGGGTAAAAGATTGGATGGTGTCTTCAATCTGCCTC
Found at i:25869098 original size:81 final size:81
Alignment explanation
Indices: 25868963--25869229 Score: 401
Period size: 81 Copynumber: 3.3 Consensus size: 81
25868953 AGCTGTTACA
* * * * * * *
25868963 CATGGTCAGGGTAAGAGATTGAACGGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATAGGA
1 CATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTGCCATCTGGTTAGGGTAAAAGATTGGA
25869028 TGAG-TTCAATCTGCCC
66 TG-GCTTCAATCTGCCC
*
25869044 CATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTACCATCTGGTTAGGGTAAAAGATTGGA
1 CATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTGCCATCTGGTTAGGGTAAAAGATTGGA
25869109 TGGCTTCAATCTGCCC
66 TGGCTTCAATCTGCCC
* *
25869125 CATGGTCGGGGTAAGATATTGGATGGTGTCTTTAATCTGCTATCTGGTTAGGGTAAAAGATTGGA
1 CATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTGCCATCTGGTTAGGGTAAAAGATTGGA
* **
25869190 TGGCTTCAATTTATCC
66 TGGCTTCAATCTGCCC
25869206 CATGGTCGGGGTAAGAGATTGGAT
1 CATGGTCGGGGTAAGAGATTGGAT
25869230 AGTAGCTTTG
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.01
81 169 0.99
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (81 bp):
CATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAATCTGCCATCTGGTTAGGGTAAAAGATTGGA
TGGCTTCAATCTGCCC
Found at i:25869225 original size:39 final size:38
Alignment explanation
Indices: 25869042--25869229 Score: 125
Period size: 42 Copynumber: 4.7 Consensus size: 38
25869032 TTCAATCTGC
25869042 CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAAT
1 CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAAT
** * *
25869080 CTACCATCTGGTTAGGGTAAAAGATTGGAT-G-G-CTTCAATCT
1 C--CCA--TGGTCGGGGTAAGAGATTGGATGGTGTCTTTAA--T
*
25869121 GCCCCATGGTCGGGGTAAGATATTGGATGGTGTCTTTAAT
1 --CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAAT
* ** *
25869161 CTGCTATCTGGTTAGGGTAAAAGATTGGATGGCT-TCAATTT-AT
1 C--CCA--TGGTCGGGGTAAGAGATTGGATGG-TGTC--TTTAAT
25869204 CCCATGGTCGGGGTAAGAGATTGGAT
1 CCCATGGTCGGGGTAAGAGATTGGAT
25869230 AGTAGCTTTG
Statistics
Matches: 114, Mismatches: 18, Indels: 35
0.68 0.11 0.21
Matches are distributed among these distances:
38 2 0.02
39 42 0.37
40 8 0.07
41 8 0.07
42 46 0.40
43 5 0.04
44 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.32
Consensus pattern (38 bp):
CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTTAAT
Found at i:25869362 original size:95 final size:95
Alignment explanation
Indices: 25869241--25870036 Score: 628
Period size: 95 Copynumber: 8.2 Consensus size: 95
25869231 GTAGCTTTGC
* ** * * *
25869241 CTTGCTCTACTGCAACTT-TTGAGAGATAAAAACTTGCTACTGTTTTAATCCGCTTCACTGCAAC
1 CTTGCTCCACTGCAACTTCAAG-GAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
*
25869305 TTCAGGAAGATAAGATTTGGTGTGGCTTCAT
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCAT
* * * ** * **
25869336 TTTGCTCCACTGTAACTTCAAGGAGATAAAGATCTGCCAATGTTAGTTTTAATCCG-AAC-CTTG
1 CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTG-C--TACT-GCTTTAATCCGCTTCAC-TG
* * * * * *
25869399 TAACTTAAAGG-ATATATGATTTGGTGTTATAGATTCAT
61 CAACTT-CAGGAAGATAGGATTTGGTG---TGGCTTCAT
* *
25869437 CTTGCTCCACTGCAACTTTAAGGAGATAAAGATTTACTACTGCTTTAATCCGCTTCACTGCAACT
1 CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAACT
25869502 TCAGGAAGATAGGATTTGGTGTGGCTTCAT
66 TCAGGAAGATAGGATTTGGTGTGGCTTCAT
* * * * * ** ** *
25869532 CCTGCTCCACTACAACTTCAGGGAGATAAAGATCTGCCAATCTTATTTTTAATATG-ATC-CTTG
1 CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTG-CTA-C-T-GCTTTAATCCGCTTCAC-TG
**
25869595 CAACTTCAAGG-ATTTAGGATTTGGTGTTGTAGCTTCAT
61 CAACTTC-AGGAAGATAGGATTTGGTG-TG--GCTTCAT
* * * * * * * *
25869633 CTTGCTCTATTACAACTTTATGGAGATAAATATTTGTTACTGCTTTAATCCGCTTCACTGCCACT
1 CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAACT
25869698 TCAGGAAGATAGGATTTGGTGTGGCTTCAT
66 TCAGGAAGATAGGATTTGGTGTGGCTTCAT
* * * * ** *
25869728 TTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTACCAATGTTAGTTTTAAT-C-CTATC-CTT
1 CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTT-GC--TACT-GCTTTAATCCGCT-TCAC-T
* * *
25869790 GCAACTTCAAGG-ATATAAGATTTGGTGTTGTAGTTTCAT
60 GCAACTTC-AGGAAGATAGGATTTGGTG-TG--GCTTCAT
* * *
25869829 CTTGCTCTACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAAT-CGCTTCACTACAAC
1 CTTGCTCCACTGCAACTTCAAG-GAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
* * *
25869893 TTCAGGAAGATAGGTTTTGGTATGGTTTCAT
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCAT
* *
25869924 CTTGCTCTACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAAT-CGCTTCACTGCAAC
1 CTTGCTCCACTGCAACTTCAAG-GAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
* * * *
25869988 TTCAAGAAGATAGGTTTTGGTATGGTTTCAT
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCAT
*
25870019 CTTGCTCTACTGCAACTT
1 CTTGCTCCACTGCAACTT
25870037 TAGGGGGTTA
Statistics
Matches: 564, Mismatches: 98, Indels: 78
0.76 0.13 0.11
Matches are distributed among these distances:
95 215 0.38
96 4 0.01
97 36 0.06
98 150 0.27
99 46 0.08
100 2 0.00
101 98 0.17
102 13 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (95 bp):
CTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAACT
TCAGGAAGATAGGATTTGGTGTGGCTTCAT
Found at i:25869447 original size:101 final size:97
Alignment explanation
Indices: 25869282--25869863 Score: 402
Period size: 98 Copynumber: 5.9 Consensus size: 97
25869272 ACTTGCTACT
* * * * * *
25869282 GTTTTAATCCGCTTCAC-TGCAACTTCAGGAAGATAAGATTTGGTG--TGGCTTCATTTTGCTCC
1 GTTTTAATCCG-ATC-CTTGCAACTTAAGG-ATATAGGATTTGGTGTTTAGCTTCATCTTGCTCC
*
25869344 ACTGTAACTTCAAGGAGATAAAGATCTGCCAATGTTA
63 ACTGCAACTTCAAGGAGATAAAGAT-T-CCAATGTTA
* * * *
25869381 GTTTTAATCCGAACCTTGTAACTTAAAGGATATATGATTTGGTGTTATAGATTCATCTTGCTCCA
1 GTTTTAATCCGATCCTTGCAACTT-AAGGATATAGGATTTGGTGTT-TAGCTTCATCTTGCTCCA
* * * **
25869446 CTGCAACTTTAAGGAGATAAAGATT-TACTACT-
64 CTGCAACTTCAAGGAGATAAAGATTCCAATGTTA
* * * * * *
25869478 GCTTTAATCCGCTTCAC-TGCAACTTCAGGAAGATAGGATTTGGTG--TGGCTTCATCCTGCTCC
1 GTTTTAATCCG-ATC-CTTGCAACTTAAGG-ATATAGGATTTGGTGTTTAGCTTCATCTTGCTCC
* * *
25869540 ACTACAACTTCAGGGAGATAAAGATCTGCCAATCTTA
63 ACTGCAACTTCAAGGAGATAAAGAT-T-CCAATGTTA
* ** * *
25869577 TTTTTAATATGATCCTTGCAACTTCAAGGATTTAGGATTTGGTGTTGTAGCTTCATCTTGCTCTA
1 GTTTTAATCCGATCCTTGCAACTT-AAGGATATAGGATTTGGTGTT-TAGCTTCATCTTGCTCCA
* * * * *
25869642 TTACAACTTTATGGAGATAAATATT----TGTTA
64 CTGCAACTTCAAGGAGATAAAGATTCCAATGTTA
* * * * * * *
25869672 CTGCTTTAATCCGCTTCAC-TGCCACTTCAGGAAGATAGGATTTGGTG--TGGCTTCATTTTGCT
1 --GTTTTAATCCG-ATC-CTTGCAACTTAAGG-ATATAGGATTTGGTGTTTAGCTTCATCTTGCT
* *
25869734 CCACTGTAACTTCAGGGAGATAAAGATTTACCAATGTTA
61 CCACTGCAACTTCAAGGAGATAAAGA-TT-CCAATGTTA
* * * *
25869773 GTTTTAATCCTATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGTTTCATCTTGCTCTA
1 GTTTTAATCCGATCCTTGCAACTT-AAGGATATAGGATTTGGTGTT-TAGCTTCATCTTGCTCCA
*
25869838 CTGCAACTTCTAGAGAGATAAAGATT
64 CTGCAACTTCAAG-GAGATAAAGATT
25869864 TGCTACTGCT
Statistics
Matches: 369, Mismatches: 80, Indels: 66
0.72 0.16 0.13
Matches are distributed among these distances:
95 72 0.20
96 3 0.01
97 26 0.07
98 115 0.31
99 38 0.10
100 2 0.01
101 103 0.28
102 10 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (97 bp):
GTTTTAATCCGATCCTTGCAACTTAAGGATATAGGATTTGGTGTTTAGCTTCATCTTGCTCCACT
GCAACTTCAAGGAGATAAAGATTCCAATGTTA
Found at i:25869584 original size:196 final size:196
Alignment explanation
Indices: 25869241--25869957 Score: 1008
Period size: 196 Copynumber: 3.7 Consensus size: 196
25869231 GTAGCTTTGC
* * * *
25869241 CTTGCTCTACTGCAACTTTTGAGAGATAAAAACTTGCTACTGTTTTAATCCGCTTCACTGCAACT
1 CTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAACT
* * * *
25869306 TCAGGAAGATAAGATTTGGTGTGGCTTCATTTTGCTCCACTGTAACTTCAAGGAGATAAAGATCT
66 TCAGGAAGATAGGATTTGGTGTGGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATCT
* * * * *
25869371 GCCAATGTTAGTTTTAATCCGAACCTTGTAACTTAAAGGATATATGATTTGGTGTTATAGATTCA
131 GCCAATGTTAGTTTTAATCCGATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGATTCA
25869436 T
196 T
* *
25869437 CTTGCTCCACTGCAACTTTA-AGGAGATAAAGATTTACTACTGCTTTAATCCGCTTCACTGCAAC
1 CTTGCTCTACTGCAACTTTAGA-GAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
* *
25869501 TTCAGGAAGATAGGATTTGGTGTGGCTTCATCCTGCTCCACTACAACTTCAGGGAGATAAAGATC
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATC
* * ** * * *
25869566 TGCCAATCTTATTTTTAATATGATCCTTGCAACTTCAAGGATTTAGGATTTGGTGTTGTAGCTTC
130 TGCCAATGTTAGTTTTAATCCGATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGATTC
25869631 AT
195 AT
* * * * *
25869633 CTTGCTCTATTACAACTTTATG-GAGATAAATATTTGTTACTGCTTTAATCCGCTTCACTGCCAC
1 CTTGCTCTACTGCAACTTTA-GAGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
* * *
25869697 TTCAGGAAGATAGGATTTGGTGTGGCTTCATTTTGCTCCACTGTAACTTCAGGGAGATAAAGATT
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATC
* * *
25869762 TACCAATGTTAGTTTTAATCCTATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGTTTC
130 TGCCAATGTTAGTTTTAATCCGATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGATTC
25869827 AT
195 AT
*
25869829 CTTGCTCTACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAAT-CGCTTCACTACAAC
1 CTTGCTCTACTGCAACTT-TAGAGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAAC
* * * * *
25869893 TTCAGGAAGATAGGTTTTGGTATGGTTTCATCTTGCTCTACTGCAACTTCTAGAGAGATAAAGAT
65 TTCAGGAAGATAGGATTTGGTGTGGCTTCATCTTGCTCCACTGCAACTTC-AGGGAGATAAAGAT
25869958 TTGCTACTGC
Statistics
Matches: 458, Mismatches: 57, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
195 1 0.00
196 417 0.91
197 40 0.09
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (196 bp):
CTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTACTGCTTTAATCCGCTTCACTGCAACT
TCAGGAAGATAGGATTTGGTGTGGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAAGATCT
GCCAATGTTAGTTTTAATCCGATCCTTGCAACTTCAAGGATATAAGATTTGGTGTTGTAGATTCA
T
Found at i:25869984 original size:48 final size:48
Alignment explanation
Indices: 25869837--25869999 Score: 185
Period size: 48 Copynumber: 3.4 Consensus size: 48
25869827 ATCTTGCTCT
25869837 ACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAATCGCTTC
1 ACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAATCGCTTC
* * * * * *
25869885 ACTACAACTTC-AG-GAAGAT-AGGTTTTGGTA-TGGTTTCATCTTGC-TC
1 ACTGCAACTTCTAGAG-AGATAAAGATTTGCTACTGCTTTAATC--GCTTC
25869931 TACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAATCGCTTC
1 -ACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAATCGCTTC
*
25869980 ACTGCAACTTCAAGA-AGATA
1 ACTGCAACTTCTAGAGAGATA
25870000 GGTTTTGGTA
Statistics
Matches: 93, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
45 8 0.09
46 11 0.12
47 23 0.25
48 32 0.34
49 11 0.12
50 8 0.09
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (48 bp):
ACTGCAACTTCTAGAGAGATAAAGATTTGCTACTGCTTTAATCGCTTC
Found at i:25870656 original size:20 final size:20
Alignment explanation
Indices: 25870618--25870657 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25870608 TGAATGAGAA
* **
25870618 AATGTCAAACATTGGTTAAT
1 AATGACAAACATTAATTAAT
25870638 AATGACAAACATTAATTAAT
1 AATGACAAACATTAATTAAT
25870658 GGCCAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AATGACAAACATTAATTAAT
Found at i:25871848 original size:14 final size:14
Alignment explanation
Indices: 25871812--25871850 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25871802 AGGGTTTAAA
*
25871812 TTTGGGTTGTAGTG
1 TTTGGGTTTTAGTG
25871826 TTTGGGTTTTAG-G
1 TTTGGGTTTTAGTG
25871839 TTGTGGGTTTTA
1 TT-TGGGTTTTA
25871851 ATTTTTGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.08, C:0.00, G:0.38, T:0.54
Consensus pattern (14 bp):
TTTGGGTTTTAGTG
Found at i:25873144 original size:11 final size:12
Alignment explanation
Indices: 25873115--25873147 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25873105 AGTGTATTTT
25873115 TTATTTTATAAA
1 TTATTTTATAAA
25873127 TTATTTTA-AAA
1 TTATTTTATAAA
*
25873138 TTTTTTTATA
1 TTATTTTATA
25873148 TGTCTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTTTATAAA
Found at i:25873798 original size:3 final size:3
Alignment explanation
Indices: 25873790--25873838 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
25873780 GTAAGTTTAG
25873790 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25873838 T
1 T
25873839 TTTTCATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25874444 original size:66 final size:67
Alignment explanation
Indices: 25874358--25874525 Score: 230
Period size: 66 Copynumber: 2.5 Consensus size: 67
25874348 CACAGCTAAA
* * * *
25874358 ATTATTAAAGCTTGTTGATTTAATATCGTAGTCTCCAAATAGCTTACTGACCTACGTTC-AGTTG
1 ATTATTAAAGCTCGTTGATTTAATATCGTAATCTCCAAACAGCTTACTGACCTACATTCAAGTTG
25874422 AC
66 AC
* * **
25874424 ATTATTAAGGCTCGTTGATTTAAGATCGTAATCTCCAAACAGCTTGTTGACCTACATTCATAGTT
1 ATTATTAAAGCTCGTTGATTTAATATCGTAATCTCCAAACAGCTTACTGACCTACATTCA-AGTT
25874489 GAC
65 GAC
* *
25874492 ATTATTAACGCTCGTTGATTTAATATCGCAATCT
1 ATTATTAAAGCTCGTTGATTTAATATCGTAATCT
25874526 TCGGTATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 51 0.57
68 38 0.43
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (67 bp):
ATTATTAAAGCTCGTTGATTTAATATCGTAATCTCCAAACAGCTTACTGACCTACATTCAAGTTG
AC
Found at i:25876833 original size:30 final size:31
Alignment explanation
Indices: 25876797--25876868 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
25876787 GTTACGTTTA
* *
25876797 ACAAAACAGTCACTCAACTT-T-GAAAATGTG
1 ACAAAACAGTCACTAAAATTATCGAAAA-GTG
25876827 ACAAAACAGTCACTAAAATTATCGAAAAGTG
1 ACAAAACAGTCACTAAAATTATCGAAAAGTG
*
25876858 ACAAAATAGTC
1 ACAAAACAGTC
25876869 CTCTTGTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.49
31 14 0.38
32 5 0.14
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.21
Consensus pattern (31 bp):
ACAAAACAGTCACTAAAATTATCGAAAAGTG
Found at i:25876975 original size:27 final size:26
Alignment explanation
Indices: 25876944--25876998 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
25876934 TTCTTCCTTT
*
25876944 TTCATCCACTACCAGTTATTCCTCATC
1 TTCATCCACTACCACTT-TTCCTCATC
*
25876971 TTCATCCACTACCACTTTTTCTCATC
1 TTCATCCACTACCACTTTTCCTCATC
25876997 TT
1 TT
25876999 TTTTCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.42
Consensus pattern (26 bp):
TTCATCCACTACCACTTTTCCTCATC
Found at i:25877894 original size:30 final size:31
Alignment explanation
Indices: 25877835--25877901 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
25877825 AAGAGAGTTA
*
25877835 TTTTGTCACTTTTCGATAACTTTAGTGACTG
1 TTTTGTCACTTTTCGATAACTTGAGTGACTG
*
25877866 TTTTGTCACATTTTC-A-AAGTTGAGTGACTG
1 TTTTGTCAC-TTTTCGATAACTTGAGTGACTG
25877896 TTTTGT
1 TTTTGT
25877902 TAAACGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 18 0.55
31 10 0.30
32 5 0.15
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.49
Consensus pattern (31 bp):
TTTTGTCACTTTTCGATAACTTGAGTGACTG
Found at i:25880570 original size:34 final size:34
Alignment explanation
Indices: 25880527--25880594 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
25880517 GATTTGCCCT
25880527 TGGTCCCTATATATATATATACTAATACCTGAAA
1 TGGTCCCTATATATATATATACTAATACCTGAAA
25880561 TGGTCCCTATATATATATATACTAATACCTGAAA
1 TGGTCCCTATATATATATATACTAATACCTGAAA
25880595 AAATACAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (34 bp):
TGGTCCCTATATATATATATACTAATACCTGAAA
Found at i:25886752 original size:26 final size:26
Alignment explanation
Indices: 25886713--25886931 Score: 241
Period size: 26 Copynumber: 8.6 Consensus size: 26
25886703 ATGTGAGATA
*
25886713 AATGTTTAGTAGGCTTCGAGCCGGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
*
25886739 AATGTTTAGCAGGCTTTGAGCCGGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
*
25886765 AATGTTTAGCAGGCTTCAAGCCGGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
* * * * *
25886791 ACT-TTTAGCAGGTTTTGAGCTGCTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
* *
25886816 -ATTTTTAGCACGCTTCGAGCCGGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
* * *
25886841 AATGTTTAGCAGGTTTTGAGCCAGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
* *
25886867 ACT-TTTAGCATGCTTCGAGCCGGTG
1 AATGTTTAGCAGGCTTCGAGCCGGTG
* *
25886892 AATGTTTAGCAGGCTTTGAGCTGGT-
1 AATGTTTAGCAGGCTTCGAGCCGGTG
25886917 AACT-TTTAGCAGGCT
1 AA-TGTTTAGCAGGCT
25886932 ATAACTGGTT
Statistics
Matches: 159, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 67 0.42
26 91 0.57
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (26 bp):
AATGTTTAGCAGGCTTCGAGCCGGTG
Found at i:25886900 original size:102 final size:102
Alignment explanation
Indices: 25886725--25886914 Score: 301
Period size: 102 Copynumber: 1.9 Consensus size: 102
25886715 TGTTTAGTAG
*
25886725 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAATGTTTAGCAGGCTTCAAGCCGGT
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCAGTGAATGTTTAGCAGGCTTCAAGCCGGT
* *
25886790 GACTTTTAGCAGGTTTTGAGCTGCTGATTTTTAGCAC
66 GAATTTTAGCAGGCTTTGAGCTGCTGATTTTTAGCAC
* * * *
25886827 GCTTCGAGCCGGTGAATGTTTAGCAGGTTTTGAGCCAGTGACT-TTTAGCATGCTTCGAGCCGGT
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCAGTGAATGTTTAGCAGGCTTCAAGCCGGT
25886891 GAATGTTTAGCAGGCTTTGAGCTG
66 GAAT-TTTAGCAGGCTTTGAGCTG
25886915 GTAACTTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 22 0.28
102 58 0.73
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.32
Consensus pattern (102 bp):
GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCAGTGAATGTTTAGCAGGCTTCAAGCCGGT
GAATTTTAGCAGGCTTTGAGCTGCTGATTTTTAGCAC
Found at i:25886922 original size:51 final size:51
Alignment explanation
Indices: 25886725--25886927 Score: 257
Period size: 51 Copynumber: 4.0 Consensus size: 51
25886715 TGTTTAGTAG
*
25886725 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAA-TGTTTAGCAG
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGT-AACT-TTTAGCAC
* * * * * * *
25886777 GCTTCAAGCCGGTGACT-TTTAGCAGGTTTTGAGCTGCTGATTTTTAGCAC
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTAACTTTTAGCAC
* * * *
25886827 GCTTCGAGCCGGTGAATGTTTAGCAGGTTTTGAGCCAGTGACTTTTAGCAT
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTAACTTTTAGCAC
*
25886878 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCTGGTAACTTTTAGCA
1 GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTAACTTTTAGCA
25886928 GGCTATAACT
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
50 23 0.18
51 93 0.71
52 15 0.11
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (51 bp):
GCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTAACTTTTAGCAC
Found at i:25886925 original size:76 final size:77
Alignment explanation
Indices: 25886717--25886931 Score: 274
Period size: 76 Copynumber: 2.8 Consensus size: 77
25886707 GAGATAAATG
*
25886717 TTTAGTAGGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAATGTTTAGCAGGCTTC
1 TTTAGCAGGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAATGTTTAGCAGGCTTC
*
25886782 AAGCCGGTGACT
66 AAGCCAGTGACT
* * * * * * * * *
25886794 TTTAGCAGGTTTTGAGCTGCTG-ATTTTTAGCACGCTTCGAGCCGGTGAATGTTTAGCAGGTTTT
1 TTTAGCAGGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAATGTTTAGCAGGCTTC
*
25886858 GAGCCAGTGACT
66 AAGCCAGTGACT
* *
25886870 TTTAGCATGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCTGGT-AACT-TTTAGCAGGCT
1 TTTAGCAGGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAA-TGTTTAGCAGGCT
25886932 ATAACTGGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
76 76 0.67
77 38 0.33
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (77 bp):
TTTAGCAGGCTTCGAGCCGGTGAATGTTTAGCAGGCTTTGAGCCGGTGAATGTTTAGCAGGCTTC
AAGCCAGTGACT
Found at i:25890163 original size:24 final size:24
Alignment explanation
Indices: 25890136--25890228 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 24
25890126 TTAAACTCTG
25890136 TCTAGGCTCGAATGAGCTAACTTA
1 TCTAGGCTCGAATGAGCTAACTTA
*
25890160 TCTAGGCTCGTAA-GAGCTAACCTA
1 TCTAGGCTCG-AATGAGCTAACTTA
* * *
25890184 TCTAGGCTCGTATGAGCTAATTTTG
1 TCTAGGCTCGAATGAGCTAA-CTTA
* *
25890209 TCTAGGCTTGTATGAGCTAA
1 TCTAGGCTCGAATGAGCTAA
25890229 ATTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
23 1 0.02
24 37 0.62
25 22 0.37
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (24 bp):
TCTAGGCTCGAATGAGCTAACTTA
Found at i:25890192 original size:48 final size:49
Alignment explanation
Indices: 25890136--25890228 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
25890126 TTAAACTCTG
25890136 TCTAGGCTCGAATGAGCTAA-CTTATCTAGGCTCGTAAGAGCTAACCTA
1 TCTAGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAACCTA
* * * * *
25890184 TCTAGGCTCGTATGAGCTAATTTTGTCTAGGCTTGTATGAGCTAA
1 TCTAGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAA
25890229 ATTTCTGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 19 0.49
49 20 0.51
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (49 bp):
TCTAGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAACCTA
Found at i:25897228 original size:25 final size:25
Alignment explanation
Indices: 25897192--25897366 Score: 136
Period size: 25 Copynumber: 6.9 Consensus size: 25
25897182 CTAGTGAATG
*
25897192 TTTAGCAAGCTTTGAGCCGGTGACT
1 TTTAGCAGGCTTTGAGCCGGTGACT
**
25897217 TTTAGCAGGCTTTGAGTTGGTGACT
1 TTTAGCAGGCTTTGAGCCGGTGACT
* ** *
25897242 TTTAGTAGGCTTCAAGCCGGTGAAT
1 TTTAGCAGGCTTTGAGCCGGTGACT
* **
25897267 GCTTAGCAGGCTTTGAGCTAGTGACT
1 -TTTAGCAGGCTTTGAGCCGGTGACT
* * * * *
25897293 TTTAGCAAG-TATCGAACCAGTGAAT
1 TTTAGCAGGCT-TTGAGCCGGTGACT
* * *
25897318 GTTTAGCAGGCTCTGAGCCAGTAACT
1 -TTTAGCAGGCTTTGAGCCGGTGACT
* *
25897344 TTTAGCAGGCTATGAGACGGTGA
1 TTTAGCAGGCTTTGAGCCGGTGA
25897367 TTAATTAGCA
Statistics
Matches: 114, Mismatches: 32, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
24 1 0.01
25 77 0.68
26 35 0.31
27 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (25 bp):
TTTAGCAGGCTTTGAGCCGGTGACT
Found at i:25897316 original size:51 final size:51
Alignment explanation
Indices: 25897162--25897350 Score: 186
Period size: 51 Copynumber: 3.7 Consensus size: 51
25897152 ATGTGAGATA
* * * * *
25897162 AATGCTTAGCAGACTTCGAGCTAGTGAATGTTTAGCAAGCTTTGAGCCGGTG
1 AATGCTTAGCAGGCTTTGAGCTAGTGACT-TTTAGCAAGCTTCGAACCGGTG
* * * * * *
25897214 ACT-TTTAGCAGGCTTTGAGTTGGTGACTTTTAGTAGGCTTC-AAGCCGGTG
1 AATGCTTAGCAGGCTTTGAGCTAGTGACTTTTAGCAAGCTTCGAA-CCGGTG
*
25897264 AATGCTTAGCAGGCTTTGAGCTAGTGACTTTTAGCAAG-TATCGAACCAGTG
1 AATGCTTAGCAGGCTTTGAGCTAGTGACTTTTAGCAAGCT-TCGAACCGGTG
* * * *
25897315 AATGTTTAGCAGGCTCTGAGCCAGTAACTTTTAGCA
1 AATGCTTAGCAGGCTTTGAGCTAGTGACTTTTAGCA
25897351 GGCTATGAGA
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 19 0.17
51 87 0.78
52 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
AATGCTTAGCAGGCTTTGAGCTAGTGACTTTTAGCAAGCTTCGAACCGGTG
Found at i:25902482 original size:19 final size:19
Alignment explanation
Indices: 25902458--25902495 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25902448 AAAAGTTAAT
25902458 AACAAATTTGATTATGATG
1 AACAAATTTGATTATGATG
25902477 AACAAATTTGATTATGATG
1 AACAAATTTGATTATGATG
25902496 TGTGGCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (19 bp):
AACAAATTTGATTATGATG
Found at i:25904254 original size:18 final size:17
Alignment explanation
Indices: 25904231--25904264 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25904221 ATTTTACTGT
25904231 GGAATTAGTTAATTGAAG
1 GGAATTA-TTAATTGAAG
*
25904249 GGAATTATTATTTGAA
1 GGAATTATTAATTGAA
25904265 ATCAAGAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (17 bp):
GGAATTATTAATTGAAG
Found at i:25905339 original size:81 final size:79
Alignment explanation
Indices: 25905136--25905356 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 79
25905126 TACGAACCCC
* * * * * * *
25905136 TACGATTGCTAAGATCCTACGTACATTGCGGATTCTTGACAGCTTGTGTGAGCAGCATCATGATT
1 TACGATGGCTGAGATCCTGCATACATTGCGGATTCTTGACAACTTGTGTGAGCAGCATCGTGAGT
*
25905201 GGTAATATGGACCT
66 GGTAATATGGACCG
* * *
25905215 TACGATGGTTGAGATCCTGCATACGTTGCGGATTCTTGACAACTTGTGTGAGCAACATCGTGAGT
1 TACGATGGCTGAGATCCTGCATACATTGCGGATTCTTGACAACTTGTGTGAGCAGCATCGTGAGT
25905280 GAGTAATATGGACCG
66 G-GTAATATGGACCG
* * *
25905295 TATCGATGGCTGAGGTTCTAG-ATACATTGCGGATTC-TCATCAACTTGTGTGAGCAGCATCGT
1 TA-CGATGGCTGAGATCCT-GCATACATTGCGGATTCTTGA-CAACTTGTGTGAGCAGCATCGT
25905357 ATATTGGTTA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 56 0.46
80 16 0.13
81 48 0.40
82 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (79 bp):
TACGATGGCTGAGATCCTGCATACATTGCGGATTCTTGACAACTTGTGTGAGCAGCATCGTGAGT
GGTAATATGGACCG
Found at i:25917011 original size:69 final size:69
Alignment explanation
Indices: 25916916--25917166 Score: 166
Period size: 69 Copynumber: 3.6 Consensus size: 69
25916906 CATTTCAAGA
* * ** *
25916916 TGATATCATAAAGGCTCGCCAATTTATGGTCACAGTCTCCAAAAAAGCTAGCGAACCAATGTTCC
1 TGATATCATAAAGGCTCACCAATTTATGATCACAACCTCCAAAAAAGCTAGCGAACCAACGTTCC
*
25916981 TAGC
66 CAGC
* * * * ** * * *
25916985 TGATATCATAAAGGTTCACTAGTTTATGATCATAACCTCTGAAATAGCTAGCGGACCTACGTTCC
1 TGATATCATAAAGGCTCACCAATTTATGATCACAACCTCCAAAAAAGCTAGCGAACCAACGTTCC
25917050 CAGC
66 CAGC
* * * ** * * * * *
25917054 TGATATTATAAAGGCTC-TCAAGTTTTTGATCGTATCCTCCGACACAA-CTAGCTG-ACCTATGT
1 TGATATCATAAAGGCTCACCAA-TTTATGATCACAACCTCC-AAAAAAGCTAGC-GAACCAACGT
25917116 TCCCAGC
63 TCCCAGC
* * *** * *
25917123 TGATATTATAAAGACTCGTTAGTTTATGATCGCAACCTCCAAAA
1 TGATATCATAAAGGCTCACCAATTTATGATCACAACCTCCAAAA
25917167 CAATTAGCGG
Statistics
Matches: 141, Mismatches: 37, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
68 3 0.02
69 133 0.94
70 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (69 bp):
TGATATCATAAAGGCTCACCAATTTATGATCACAACCTCCAAAAAAGCTAGCGAACCAACGTTCC
CAGC
Found at i:25917180 original size:69 final size:68
Alignment explanation
Indices: 25916963--25917187 Score: 234
Period size: 69 Copynumber: 3.3 Consensus size: 68
25916953 TCCAAAAAAG
* * * * * * * *
25916963 CTAGCGAACCAATGTTCCTAGCTGATATCATAAAGGTTCACTAGTTTATGATCATAACCTCTGAA
1 CTAGCGGACCTATGTTCCCAGCTGATATTATAAAGGCTC-TTAGTTTATGATCGTAACCTCCGAA
* *
25917028 ATAG
65 ACAA
* * * * *
25917032 CTAGCGGACCTACGTTCCCAGCTGATATTATAAAGGCTCTCAAGTTTTTGATCGTATCCTCCGAC
1 CTAGCGGACCTATGTTCCCAGCTGATATTATAAAGGCTCT-TAGTTTATGATCGTAACCTCCGAA
25917097 ACAA
65 ACAA
* * * *
25917101 CTAGCTGACCTATGTTCCCAGCTGATATTATAAAGACTCGTTAGTTTATGATCGCAACCTCCAAA
1 CTAGCGGACCTATGTTCCCAGCTGATATTATAAAGGCTC-TTAGTTTATGATCGTAACCTCCGAA
25917166 ACAA
65 ACAA
* *
25917170 TTAGCGGACCTAAGTTCC
1 CTAGCGGACCTATGTTCC
25917188 TAGTTTATGC
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
69 126 0.99
70 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (68 bp):
CTAGCGGACCTATGTTCCCAGCTGATATTATAAAGGCTCTTAGTTTATGATCGTAACCTCCGAAA
CAA
Found at i:25923152 original size:29 final size:28
Alignment explanation
Indices: 25923119--25923247 Score: 125
Period size: 28 Copynumber: 4.5 Consensus size: 28
25923109 TTTGGTTTAT
25923119 GTTTAGGGTTTTTAAGTTTGGGGATTTTG
1 GTTTAGGGTTTTTAA-TTTGGGGATTTTG
25923148 GTTTA-GGTTTTTGAATTTGGGGATTTTG
1 GTTTAGGGTTTTT-AATTTGGGGATTTTG
* * * *
25923176 GGTTAGAGGTTTTGATTTTGGGGATTTTT
1 GTTTAG-GGTTTTTAATTTGGGGATTTTG
* * *
25923205 GTTTAGGGTAATCTTATTTTGGGGATTTTC
1 GTTTAGGGT--TTTTAATTTGGGGATTTTG
* *
25923235 ATTTAGGATTTTT
1 GTTTAGGGTTTTT
25923248 TTTAATTTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
28 30 0.36
29 25 0.30
30 29 0.35
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.53
Consensus pattern (28 bp):
GTTTAGGGTTTTTAATTTGGGGATTTTG
Found at i:25924357 original size:57 final size:58
Alignment explanation
Indices: 25924264--25924408 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 58
25924254 TGGTAATAAT
* * * * *
25924264 GGTGTTAAGGTTGCTGGCAGTAAAGGTGG-GGAGGGTGTTGAAGGTTTAAATGGGGAA
1 GGTGTTGAGGTTGCTAGCAGTCAAGGTGGTGGAGGGTGGTGAAGGTTTAAATGAGGAA
* ** *
25924321 GGTGTTGAGGTTGCTAGCAGTCAAGGTGGTGG-GGGTGGTGAAGTTTTAGGTGAGGAG
1 GGTGTTGAGGTTGCTAGCAGTCAAGGTGGTGGAGGGTGGTGAAGGTTTAAATGAGGAA
* *
25924378 GGTGTTGAGGTTGCTAACAATCAAGGTGGTG
1 GGTGTTGAGGTTGCTAGCAGTCAAGGTGGTG
25924409 AGTGTGATGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
57 74 0.97
58 2 0.03
ACGTcount: A:0.21, C:0.06, G:0.46, T:0.28
Consensus pattern (58 bp):
GGTGTTGAGGTTGCTAGCAGTCAAGGTGGTGGAGGGTGGTGAAGGTTTAAATGAGGAA
Found at i:25925759 original size:31 final size:31
Alignment explanation
Indices: 25925721--25925783 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
25925711 TAAATAATGT
*
25925721 TATTTATTTTGCATTAATTTATTACTGATGC
1 TATTTATTTTGCATCAATTTATTACTGATGC
* * *
25925752 TATTTATTTTTCATCAATTTTTTACTTATGC
1 TATTTATTTTGCATCAATTTATTACTGATGC
25925783 T
1 T
25925784 TTATTTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (31 bp):
TATTTATTTTGCATCAATTTATTACTGATGC
Found at i:25927012 original size:157 final size:156
Alignment explanation
Indices: 25926713--25927014 Score: 392
Period size: 157 Copynumber: 1.9 Consensus size: 156
25926703 AACAAAATAT
* * * * *
25926713 CATGCATTCAACCTAACACAATTGGATCACAAGTATATCGTAAACACTTTTTCACTGTCAATTCC
1 CATGCATTCAACCTAACACAACTAGATCACAAGTATACCATAAACACTTTTTCACTGTCAATTCA
* *
25926778 AAAATATTTAAATCTAATTTACGGTTGTATTTTTTCATCTCAGCCTGGTACGAGTACAAGAACTA
66 AAAATATTTAAATCTAATTTACGGTTGTATTTTTTCATCTCAGCCCGGTACGAGTAAAAGAACTA
25926843 GAAGCCAAAAAAAGAACAATAGAAGAC
131 GAAGCC-AAAAAAGAACAATAGAAGAC
* * * *
25926870 CATGTATTCAACCTAACACAACTAGATCATAGGTATACCATAAACACCTTTTT-GCTGTCAAGTT
1 CATGCATTCAACCTAACACAACTAGATCACAAGTATACCATAAACA-CTTTTTCACTGTCAA-TT
** ** * *
25926934 -AAACAATATTTAAATCTAATTTGGGGTTGTGATTTTTTTGTCTGAGCCCGGTATGAGTAAAAGA
64 CAAA-AATATTTAAATCTAATTTACGGTTGT-ATTTTTTCATCTCAGCCCGGTACGAGTAAAAGA
25926998 ACTAGAAGCCAAAAAAG
127 ACTAGAAGCCAAAAAAG
25927015 GATGGTACAT
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
157 48 0.39
158 39 0.31
159 37 0.30
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (156 bp):
CATGCATTCAACCTAACACAACTAGATCACAAGTATACCATAAACACTTTTTCACTGTCAATTCA
AAAATATTTAAATCTAATTTACGGTTGTATTTTTTCATCTCAGCCCGGTACGAGTAAAAGAACTA
GAAGCCAAAAAAGAACAATAGAAGAC
Found at i:25928989 original size:21 final size:20
Alignment explanation
Indices: 25928946--25928989 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
25928936 TTCTTTTGTC
*
25928946 AAATTAAATTAAATTACATT
1 AAATTAAATTAAATTACACT
* *
25928966 AAATTCAAATTTAATTTCACT
1 AAATT-AAATTAAATTACACT
25928987 AAA
1 AAA
25928990 AAATTATAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTAAATTAAATTACACT
Found at i:25929269 original size:16 final size:18
Alignment explanation
Indices: 25929248--25929281 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
25929238 TAAAAATATA
25929248 AATTTAT-TATTT-TAAT
1 AATTTATATATTTATAAT
25929264 AATTTATATATTTATAAT
1 AATTTATATATTTATAAT
25929282 TTTTAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATATATTTATAAT
Found at i:25930194 original size:18 final size:18
Alignment explanation
Indices: 25930138--25930197 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
25930128 TATGGCAGAA
25930138 TTAAAATATTAAATTT-T
1 TTAAAATATTAAATTTAT
* *
25930155 TGAAAA-A-TAAATTTAA
1 TTAAAATATTAAATTTAT
**
25930171 CAAAAATATTAAATTTAT
1 TTAAAATATTAAATTTAT
25930189 TTAAAATAT
1 TTAAAATAT
25930198 GAGTTAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 6 0.18
18 15 0.45
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAAATATTAAATTTAT
Found at i:25930222 original size:23 final size:22
Alignment explanation
Indices: 25930179--25930237 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
25930169 AACAAAAATA
25930179 TTAAATTTATTTAAAATATGAG
1 TTAAATTTATTTAAAATATGAG
25930201 TTAAATTTAAATTT-AAATATGAG
1 TTAAATTT--ATTTAAAATATGAG
* *
25930224 TTAAGTTCATTTAA
1 TTAAATTTATTTAA
25930238 CTTTATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 4 0.12
22 9 0.28
23 15 0.47
24 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (22 bp):
TTAAATTTATTTAAAATATGAG
Found at i:25930920 original size:15 final size:15
Alignment explanation
Indices: 25930881--25930910 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25930871 ATAACTAAAG
25930881 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
25930896 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
25930911 GAGAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:25932873 original size:19 final size:20
Alignment explanation
Indices: 25932849--25932896 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
25932839 GATCAGTTGG
25932849 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
25932868 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
25932891 ACCTTT
1 ACCTTT
25932897 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 16 0.64
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:25932881 original size:23 final size:23
Alignment explanation
Indices: 25932855--25932899 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
25932845 TTGGACCTTT
25932855 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
25932878 GATTAATTAACATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
25932900 TGACTGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:25934198 original size:13 final size:13
Alignment explanation
Indices: 25934180--25934204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25934170 TACTATAAAT
25934180 CTATATTGATTTA
1 CTATATTGATTTA
25934193 CTATATTGATTT
1 CTATATTGATTT
25934205 CAACGAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
CTATATTGATTTA
Found at i:25934680 original size:23 final size:22
Alignment explanation
Indices: 25934652--25934753 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 22
25934642 CATATTTTCT
25934652 TTATATATTTATTTATATATTA
1 TTATATATTTATTTATATATTA
25934674 TTA-ATA-TTATTTATATATTA
1 TTATATATTTATTTATATATTA
* *
25934694 TTCTATA-TTATTAATATATT-
1 TTATATATTTATTTATATATTA
* *
25934714 TTAATTTATATAATTTATATA-TA
1 TT-ATATAT-TTATTTATATATTA
*
25934737 TTAAATATATATATTTA
1 TT--ATATATTTATTTA
25934754 AATGATAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 18 0.28
21 21 0.32
22 4 0.06
23 16 0.25
24 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATATTTATTTATATATTA
Found at i:25934682 original size:9 final size:9
Alignment explanation
Indices: 25934668--25934731 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
25934658 ATTTATTTAT
25934668 ATATTATTA
1 ATATTATTA
25934677 ATATTATTTA
1 ATATTA-TTA
*
25934687 TATATTATTCT
1 -ATATTATT-A
25934698 ATATTATTA
1 ATATTATTA
*
25934707 ATATATTTTA
1 ATAT-TATTA
25934717 AT-TTATATA
1 ATATTAT-TA
25934726 AT-TTAT
1 ATATTAT
25934732 ATATATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 2 0.04
9 19 0.41
10 19 0.41
11 6 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTATTA
Found at i:25934685 original size:20 final size:20
Alignment explanation
Indices: 25934660--25934722 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
25934650 CTTTATATAT
25934660 TTATTTATATATTATTAATA
1 TTATTTATATATTATTAATA
*
25934680 TTATTTATATATTATTCTATA
1 TTATTTATATATTATT-AATA
*
25934701 TTATTAATATATT-TTAAT-
1 TTATTTATATATTATTAATA
25934719 TTAT
1 TTAT
25934723 ATAATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 4 0.10
19 2 0.05
20 18 0.46
21 15 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATATATTATTAATA
Found at i:25934701 original size:21 final size:20
Alignment explanation
Indices: 25934655--25934735 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 20
25934645 ATTTTCTTTA
25934655 TATATTTATTTATATATTATT
1 TATA-TTATTTATATATTATT
*
25934676 AATATTATTTATATATTATT
1 TATATTATTTATATATTATT
*
25934696 CTATATTATTAATATATTTTAATT
1 -TATATTATT--TATATATT-ATT
*
25934720 TATATAATTTATATAT
1 TATATTATTTATATAT
25934736 ATTAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 16 0.31
21 17 0.33
23 15 0.29
24 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTATTTATATATTATT
Found at i:25934701 original size:30 final size:31
Alignment explanation
Indices: 25934651--25934753 Score: 101
Period size: 30 Copynumber: 3.4 Consensus size: 31
25934641 GCATATTTTC
25934651 TTTATATATTTATTTATATATTATTAATATTA
1 TTTATATATTTATTTATATATTATTAATA-TA
*
25934683 TTTATATA-TTA-TTCTATATTATTAATATA
1 TTTATATATTTATTTATATATTATTAATATA
* *
25934712 TTTTAATTTATATAATTTATATA-TATTAA-ATA
1 -TTT-ATATAT-TTATTTATATATTATTAATATA
25934744 --TATATATTTA
1 TTTATATATTTA
25934754 AATGATAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 3 0.05
30 18 0.30
31 7 0.12
32 11 0.18
33 8 0.13
34 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTATATATTTATTTATATATTATTAATATA
Found at i:25934782 original size:15 final size:15
Alignment explanation
Indices: 25934758--25934792 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
25934748 TATTTAAATG
*
25934758 ATAAATAATAATAAA
1 ATAAAAAATAATAAA
25934773 ATAAAAAATAATAAA
1 ATAAAAAATAATAAA
25934788 ATAAA
1 ATAAA
25934793 CAAACCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAAATAATAAA
Found at i:25934949 original size:21 final size:21
Alignment explanation
Indices: 25934909--25934947 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25934899 AAATCATGGA
25934909 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
25934930 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
25934948 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:25937567 original size:12 final size:12
Alignment explanation
Indices: 25937550--25937574 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25937540 ATTTTATAAC
25937550 ATAAATATTGTT
1 ATAAATATTGTT
25937562 ATAAATATTGTT
1 ATAAATATTGTT
25937574 A
1 A
25937575 ATAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:25942277 original size:27 final size:27
Alignment explanation
Indices: 25942247--25942299 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
25942237 TAACTACCCA
*
25942247 TGTTTAACATCCCATCATACTATCTAG
1 TGTTTAACATCCCATCAGACTATCTAG
* * *
25942274 TGTTTAACGTCCTATCGGACTATCTA
1 TGTTTAACATCCCATCAGACTATCTA
25942300 CGATGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (27 bp):
TGTTTAACATCCCATCAGACTATCTAG
Found at i:25942518 original size:13 final size:13
Alignment explanation
Indices: 25942502--25942527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25942492 TTTTGAAGAA
25942502 TATTAATCTAAAC
1 TATTAATCTAAAC
25942515 TATTAATCTAAAC
1 TATTAATCTAAAC
25942528 CAACTTAATC
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATCTAAAC
Found at i:25966458 original size:29 final size:29
Alignment explanation
Indices: 25966398--25966454 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
25966388 TGAATTGTAA
* **
25966398 AGGGTTTCTAGTTGAGCCATAAAAGTTAG
1 AGGGTTTCTAGTTAAGCCATAAAAACTAG
25966427 AGGGTTT-TAGTTAAGCCATAAAAACTAG
1 AGGGTTTCTAGTTAAGCCATAAAAACTAG
25966455 GAGGAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (29 bp):
AGGGTTTCTAGTTAAGCCATAAAAACTAG
Found at i:25971321 original size:45 final size:45
Alignment explanation
Indices: 25971253--25971440 Score: 241
Period size: 45 Copynumber: 4.2 Consensus size: 45
25971243 ACATCTTCAT
* * * *
25971253 GGGTTTGTCGCAACACAAGCATTCTGTGTTGCAACATAGTACATA
1 GGGTATGTCGCGACACAAACATTCTGTGTTGCGACATAGTACATA
* * * *
25971298 TGGTATGTCGCGACATAAACATTCAGTGTTACGACATAGTACATA
1 GGGTATGTCGCGACACAAACATTCTGTGTTGCGACATAGTACATA
* * **
25971343 GGGTTTGTCGTGACACAGGCATTCTGTGTTGCGACATAGTACATA
1 GGGTATGTCGCGACACAAACATTCTGTGTTGCGACATAGTACATA
* * *
25971388 GGGTATGTCGCGACAGAGACATTCTGTGTTGTGACATAGTACATA
1 GGGTATGTCGCGACACAAACATTCTGTGTTGCGACATAGTACATA
25971433 GGGTATGT
1 GGGTATGT
25971441 TATGACATAG
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
GGGTATGTCGCGACACAAACATTCTGTGTTGCGACATAGTACATA
Found at i:25971365 original size:90 final size:90
Alignment explanation
Indices: 25971253--25971436 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 90
25971243 ACATCTTCAT
* *
25971253 GGGTTTGTCGCAACACAAGCATTCTGTGTTGCAACATAGTACATATGGTATGTCGCGACATAAAC
1 GGGTTTGTCGCAACACAAGCATTCTGTGTTGCAACATAGTACATAGGGTATGTCGCGACAGAAAC
25971318 ATTCAGTGTTACGACATAGTACATA
66 ATTCAGTGTTACGACATAGTACATA
** * * *
25971343 GGGTTTGTCGTGACACAGGCATTCTGTGTTGCGACATAGTACATAGGGTATGTCGCGACAGAGAC
1 GGGTTTGTCGCAACACAAGCATTCTGTGTTGCAACATAGTACATAGGGTATGTCGCGACAGAAAC
* **
25971408 ATTCTGTGTTGTGACATAGTACATA
66 ATTCAGTGTTACGACATAGTACATA
25971433 GGGT
1 GGGT
25971437 ATGTTATGAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (90 bp):
GGGTTTGTCGCAACACAAGCATTCTGTGTTGCAACATAGTACATAGGGTATGTCGCGACAGAAAC
ATTCAGTGTTACGACATAGTACATA
Found at i:25971441 original size:24 final size:24
Alignment explanation
Indices: 25971369--25971450 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
25971359 AGGCATTCTG
25971369 TGTTGCGACATAGTACATAGGGTA
1 TGTTGCGACATAGTACATAGGGTA
* * ** *
25971393 TGTCGCGACAGAG-ACAT--TCTG
1 TGTTGCGACATAGTACATAGGGTA
*
25971414 TGTTGTGACATAGTACATAGGGTA
1 TGTTGCGACATAGTACATAGGGTA
**
25971438 TGTTATGACATAG
1 TGTTGCGACATAG
25971451 AAGGCAAATT
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
21 11 0.26
22 4 0.09
23 4 0.09
24 24 0.56
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (24 bp):
TGTTGCGACATAGTACATAGGGTA
Found at i:25976272 original size:45 final size:45
Alignment explanation
Indices: 25976218--25976327 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
25976208 ATGACACAAG
*
25976218 CATTTCGTGTTACGACATAGTACATAGGGTATGTCGCGACATAAA
1 CATTTCGTGTTGCGACATAGTACATAGGGTATGTCGCGACATAAA
* * * * *
25976263 CATTCCGTGTTGTGACATAGTACATAGGGTTTTTCGCGACATAGA
1 CATTTCGTGTTGCGACATAGTACATAGGGTATGTCGCGACATAAA
*
25976308 CATTTTGTGTTGCGACATAG
1 CATTTCGTGTTGCGACATAG
25976328 AAGGCAGATT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
CATTTCGTGTTGCGACATAGTACATAGGGTATGTCGCGACATAAA
Found at i:25985308 original size:23 final size:25
Alignment explanation
Indices: 25985282--25985327 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25985272 CAAATTAGGG
25985282 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
25985305 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
25985328 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:25986666 original size:2 final size:2
Alignment explanation
Indices: 25986659--25986683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25986649 TCTTAAATGT
25986659 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25986684 GTTTGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25987161 original size:35 final size:35
Alignment explanation
Indices: 25987117--25987190 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
25987107 ATATAATCAC
25987117 TGAACTAATAATGGTTTAATAAGAAACTGTGATAG
1 TGAACTAATAATGGTTTAATAAGAAACTGTGATAG
* *
25987152 TGAAGTAATAATGGTTTAATAAGAAATTGTGATAG
1 TGAACTAATAATGGTTTAATAAGAAACTGTGATAG
25987187 TGAA
1 TGAA
25987191 ATTGTATGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (35 bp):
TGAACTAATAATGGTTTAATAAGAAACTGTGATAG
Found at i:25990330 original size:21 final size:22
Alignment explanation
Indices: 25990283--25990333 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
25990273 AATAGTGCAG
*
25990283 GCTTCTACCGATACCTATGACA
1 GCTTCTACCGATACCAATGACA
25990305 G-TTCTACCGATA-CAAGTGA-A
1 GCTTCTACCGATACCAA-TGACA
25990325 GCTTCTACC
1 GCTTCTACC
25990334 AAAACAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (22 bp):
GCTTCTACCGATACCAATGACA
Found at i:25998603 original size:23 final size:22
Alignment explanation
Indices: 25998573--25998616 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
25998563 AAAGAAATAA
*
25998573 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
25998595 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
25998617 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:25999366 original size:5 final size:5
Alignment explanation
Indices: 25999356--25999381 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25999346 GAGGATATTT
25999356 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
25999382 GGTTTAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:26005501 original size:5 final size:5
Alignment explanation
Indices: 26005491--26005526 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
26005481 TGTGAGGATA
26005491 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
26005527 GATTTGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:26022526 original size:15 final size:15
Alignment explanation
Indices: 26022508--26022538 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26022498 TGTGTGATAA
*
26022508 TATTTTTTTCTTTTC
1 TATTCTTTTCTTTTC
26022523 TATTCTTTTCTTTTC
1 TATTCTTTTCTTTTC
26022538 T
1 T
26022539 GGTTTGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTCTTTTCTTTTC
Found at i:26028128 original size:195 final size:194
Alignment explanation
Indices: 26027797--26028170 Score: 570
Period size: 195 Copynumber: 1.9 Consensus size: 194
26027787 AAACTAACGT
* * * * * **
26027797 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGAGTCGG
1 GATGGCTGAGGTACCGCATATATTGCAAGTCCTCAACAGCTCGTGTGAGCACCATCGTGAGTCAA
* * * *
26027862 GAAATGAAAATGAATCCTAGAATGGATTACAGACCCTGCGATGGCTGGGATTTATGCATAAGTGT
66 AAAAAGAAAATGAATCCTAGAATGGATTACAGACCCTACGATGGCTGGGATTTATGCATAAGTGC
*
26027927 ATATTCTCGACAGTTCATGTGAGTAGCATCGTTAGG-GAACAGTTATATACACAGATACCGTAGC
131 ATATTCTCGACAGCTCATGTGAGTAGCATCGTTAGGAG-ACAGTTATATACACAGATACCGTAGC
*
26027991 GATGGCTGAGGTACCGTATATATTGCAAGTCCTCAACAGCTCGTGTGAGCACCATCGTGAGTCAA
1 GATGGCTGAGGTACCGCATATATTGCAAGTCCTCAACAGCTCGTGTGAGCACCATCGTGAGTCAA
* * *
26028056 AAAAAGAGATATGAATCCTAGAATGGATTACAGTCCCTATGATGGCTGGGATTTATGCATAAGTG
66 AAAAAGA-AAATGAATCCTAGAATGGATTACAGACCCTACGATGGCTGGGATTTATGCATAAGTG
*
26028121 CATATTCTCGACAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATA
130 CATATTCTCGACAGCTCATGTGAGTAGCATCGTTAGGAGACAGTTATATA
26028171 GACATACACC
Statistics
Matches: 161, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
194 62 0.39
195 98 0.61
196 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (194 bp):
GATGGCTGAGGTACCGCATATATTGCAAGTCCTCAACAGCTCGTGTGAGCACCATCGTGAGTCAA
AAAAAGAAAATGAATCCTAGAATGGATTACAGACCCTACGATGGCTGGGATTTATGCATAAGTGC
ATATTCTCGACAGCTCATGTGAGTAGCATCGTTAGGAGACAGTTATATACACAGATACCGTAGC
Found at i:26028547 original size:339 final size:339
Alignment explanation
Indices: 26027927--26028608 Score: 1112
Period size: 339 Copynumber: 2.0 Consensus size: 339
26027917 GCATAAGTGT
* * * *
26027927 ATATTCTCGACAGTTCATGTGAGTAGCATCGTTAGGGAACAGTTATATACACAGATACCGTAGCG
1 ATATTCTCGACAGTTCATGTGAGCAGCATCATTAGGGAACAATTATATACACAGATACCGTAGCA
* *
26027992 ATGGCTGAGGTACCGTATATATTGCAAGTCCTCAACAGCTCGTGTGAGCACCATCGTGAGTCAAA
66 ATGGCTGAGGTACCGTATATATTGCAAGTCCTCAACAGCTCGTATGAGCACCATCATGAGTCAAA
* *
26028057 AAAAGAGATATGAATCCTAGAATGGATTACAGTCCCTATGATGGCTGGGATTTATGCATAAGTGC
131 AAAAGAGATATGAATCCTAGAATGGATTACAGTCCCTACGATGGCTAGGATTTATGCATAAGTGC
*
26028122 ATATTCTCGACAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATAGACATACACCATACAG
196 ATATTCTCGACAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATAAACATACACCATACAG
* * *
26028187 ATAGCTAGGGTATCGCATATGTTGCGAGTCCTTGATGGCTCATGTGCCCAGCATCCAGTACTAGT
261 ATAGCTAGGGTACCGCATATGTTACGAGTCCTTGACGGCTCATGTGCCCAGCATCCAGTACTAGT
*
26028252 AATAGAAATGATGC
326 AATAGAAATGATAC
* *
26028266 ATATTCTCGACAGTTCGTGTGAGCAGCATCATTAGGGAACAATTATATACACAGATACCGTATCA
1 ATATTCTCGACAGTTCATGTGAGCAGCATCATTAGGGAACAATTATATACACAGATACCGTAGCA
* * * * *
26028331 ATGGTTGAGGTACCGTATATGTTGCGAGTCCTCAACAGCTCGTATGAGTAGCATCATGAGTCAAA
66 ATGGCTGAGGTACCGTATATATTGCAAGTCCTCAACAGCTCGTATGAGCACCATCATGAGTCAAA
*
26028396 AAAAGAGATATGAATCCTAGAATGGATTGCAGTCCCTACGATGGCTAGGATTTATGCATAAGTGC
131 AAAAGAGATATGAATCCTAGAATGGATTACAGTCCCTACGATGGCTAGGATTTATGCATAAGTGC
* * *
26028461 ATATTCTCGATAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATAAACATACACCGTACCG
196 ATATTCTCGACAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATAAACATACACCATACAG
* * * *
26028526 ATGGCTAGGGTACCGCATATGTTACGAGTCCTTGACGGCTCATGTGCCCAGCATTCGGTACTGGT
261 ATAGCTAGGGTACCGCATATGTTACGAGTCCTTGACGGCTCATGTGCCCAGCATCCAGTACTAGT
26028591 AATAGAAATGATAC
326 AATAGAAATGATAC
26028605 ATAT
1 ATAT
26028609 AGGGAATTTG
Statistics
Matches: 315, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
339 315 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (339 bp):
ATATTCTCGACAGTTCATGTGAGCAGCATCATTAGGGAACAATTATATACACAGATACCGTAGCA
ATGGCTGAGGTACCGTATATATTGCAAGTCCTCAACAGCTCGTATGAGCACCATCATGAGTCAAA
AAAAGAGATATGAATCCTAGAATGGATTACAGTCCCTACGATGGCTAGGATTTATGCATAAGTGC
ATATTCTCGACAGCTCGTGTGAGTAGCATCGTTAGGAGACAGTTATATAAACATACACCATACAG
ATAGCTAGGGTACCGCATATGTTACGAGTCCTTGACGGCTCATGTGCCCAGCATCCAGTACTAGT
AATAGAAATGATAC
Found at i:26037550 original size:21 final size:21
Alignment explanation
Indices: 26037511--26037557 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
26037501 TAGCTCTATG
*
26037511 GATACAAGTATGATTTCTACC
1 GATACAAGTATGATATCTACC
26037532 GATACAAGTCATGA-ATCTACC
1 GATACAAGT-ATGATATCTACC
*
26037553 AATAC
1 GATAC
26037558 CAGAAACTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (21 bp):
GATACAAGTATGATATCTACC
Found at i:26040457 original size:18 final size:18
Alignment explanation
Indices: 26040431--26040478 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
26040421 AACAAAATTA
26040431 TCGACGCAA-CTACCGATG
1 TCGACGCAACCTA-CGATG
*
26040449 TCGATGCAACCTACGATG
1 TCGACGCAACCTACGATG
* *
26040467 TCAACACAACCT
1 TCGACGCAACCT
26040479 GATGTTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (18 bp):
TCGACGCAACCTACGATG
Found at i:26044025 original size:36 final size:36
Alignment explanation
Indices: 26043978--26044081 Score: 163
Period size: 36 Copynumber: 2.9 Consensus size: 36
26043968 TGGTAACAAG
*
26043978 CATGACCTTTGGGTCAATAGGGAGTAAAACGAGTAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
* *
26044014 CATGACCTTTGGTTCAATAGGGAGTAAAACTAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
* *
26044050 TATGACCTTTGGGTCAACAGGGAGTAAAACGA
1 CATGACCTTTGGGTCAATAGGGAGTAAAACGA
26044082 ATAACGAACG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
Found at i:26044772 original size:21 final size:21
Alignment explanation
Indices: 26044746--26044817 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
26044736 GTTTTTTATG
*
26044746 TCGGTAGAAGTAAGACTTGTA
1 TCGGTAGAAGTGAGACTTGTA
*
26044767 TCGGTAGAAGTGAGACTTGTT
1 TCGGTAGAAGTGAGACTTGTA
* * *
26044788 TTGGTAGAACTGATACTTGTA
1 TCGGTAGAAGTGAGACTTGTA
26044809 TCGGTAGAA
1 TCGGTAGAA
26044818 AATTGCACCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (21 bp):
TCGGTAGAAGTGAGACTTGTA
Found at i:26051316 original size:36 final size:36
Alignment explanation
Indices: 26051263--26051363 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 36
26051253 CTGTAACAGG
* *
26051263 CATGACCTTTGGGTCAATAGGGAGTAAAACAAGCAT
1 CATGACATCTGGGTCAATAGGGAGTAAAACAAGCAT
* *
26051299 CATGACATCTGGTTCAATAGGGAGTAAAACTAGCAT
1 CATGACATCTGGGTCAATAGGGAGTAAAACAAGCAT
* * *
26051335 TATGACCTTTGGGTCAATAGGGAGTAAAA
1 CATGACATCTGGGTCAATAGGGAGTAAAA
26051364 TGAATAACGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (36 bp):
CATGACATCTGGGTCAATAGGGAGTAAAACAAGCAT
Found at i:26052057 original size:21 final size:21
Alignment explanation
Indices: 26052033--26052095 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
26052023 TTTTGGTGTG
*
26052033 GGTAAAAGTTAGACTTGTATC
1 GGTAAAAGTGAGACTTGTATC
* *
26052054 GGTAGAAGTGAGACTTGTTTC
1 GGTAAAAGTGAGACTTGTATC
* * *
26052075 GGTAGAACTGACACTTGTATC
1 GGTAAAAGTGAGACTTGTATC
26052096 AGTAGAAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (21 bp):
GGTAAAAGTGAGACTTGTATC
Found at i:26052100 original size:21 final size:21
Alignment explanation
Indices: 26052045--26052102 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
26052035 TAAAAGTTAG
* *
26052045 ACTTGTATCGGTAGAAGTGAG
1 ACTTGTATCGGTAGAACTGAC
*
26052066 ACTTGTTTCGGTAGAACTGAC
1 ACTTGTATCGGTAGAACTGAC
*
26052087 ACTTGTATCAGTAGAA
1 ACTTGTATCGGTAGAA
26052103 AACTGCACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACTGAC
Found at i:26052832 original size:20 final size:20
Alignment explanation
Indices: 26052809--26052847 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26052799 AAGAGAAAGA
26052809 AGAAGAAGAAGAAAGAGAAT
1 AGAAGAAGAAGAAAGAGAAT
*
26052829 AGAAGGAGAAGAAAGAGAA
1 AGAAGAAGAAGAAAGAGAA
26052848 AGAGTTTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
AGAAGAAGAAGAAAGAGAAT
Found at i:26064376 original size:29 final size:30
Alignment explanation
Indices: 26064316--26064376 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
26064306 TCATCATGCG
* *
26064316 ATCACATAACTCAAATCAAGATCATACCATT
1 ATCACAT-ACTCAAATCAAGATCACACAATT
26064347 ATCACAT-CTCAAATC-AGATTCACACAATT
1 ATCACATACTCAAATCAAGA-TCACACAATT
26064376 A
1 A
26064377 ATACAGCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
31 7 0.26
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.26
Consensus pattern (30 bp):
ATCACATACTCAAATCAAGATCACACAATT
Found at i:26065525 original size:21 final size:22
Alignment explanation
Indices: 26065496--26065545 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
26065486 AACAAAATGG
* *
26065496 AAGAGAAAGGGTTTCAA-ACAA
1 AAGAAAAAGGGTTTAAATACAA
*
26065517 AAGAAAAAGGGTTTAAATACAT
1 AAGAAAAAGGGTTTAAATACAA
26065539 AAGAAAA
1 AAGAAAA
26065546 TGGGAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.58, C:0.06, G:0.20, T:0.16
Consensus pattern (22 bp):
AAGAAAAAGGGTTTAAATACAA
Found at i:26070535 original size:2 final size:2
Alignment explanation
Indices: 26070528--26070570 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
26070518 TGAAAGAGAA
26070528 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
26070570 A
1 A
26070571 GACAATGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26073963 original size:22 final size:22
Alignment explanation
Indices: 26073938--26073982 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
26073928 ACTGTTGGTT
26073938 TGGCTAAGGAGAATCAAATGTG
1 TGGCTAAGGAGAATCAAATGTG
26073960 TGGCTAAGGAGAATCAAATGTG
1 TGGCTAAGGAGAATCAAATGTG
26073982 T
1 T
26073983 TCATACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (22 bp):
TGGCTAAGGAGAATCAAATGTG
Found at i:26084643 original size:19 final size:20
Alignment explanation
Indices: 26084619--26084656 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
26084609 TTAAAATTAA
26084619 TTTTTCAAAATATT-TTTAT
1 TTTTTCAAAATATTGTTTAT
*
26084638 TTTTTCAAATTATTGTTTA
1 TTTTTCAAAATATTGTTTA
26084657 ATCGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTCAAAATATTGTTTAT
Found at i:26097830 original size:50 final size:50
Alignment explanation
Indices: 26097712--26097813 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 50
26097702 CACTCAATCA
26097712 TATCATATAACACAATTCAGTCCTTTTTGGAAAAATTACGATTTTACCCC
1 TATCATATAACACAATTCAGTCCTTTTTGGAAAAATTACGATTTTACCCC
26097762 TATCATATAACACAATTCAGTCC-TTTTGGAAAAATTACGATTTTACCCC
1 TATCATATAACACAATTCAGTCCTTTTTGGAAAAATTACGATTTTACCCC
26097811 TAT
1 TAT
26097814 TATTTTCCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 29 0.56
50 23 0.44
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (50 bp):
TATCATATAACACAATTCAGTCCTTTTTGGAAAAATTACGATTTTACCCC
Found at i:26098235 original size:44 final size:44
Alignment explanation
Indices: 26098172--26098263 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
26098162 AAGTACTAAA
26098172 AATGATCAAGGTTTGCTTACCCAAATCAAGAACACAAACTTAAC
1 AATGATCAAGGTTTGCTTACCCAAATCAAGAACACAAACTTAAC
26098216 AATGATCAAGGTTTGCTTACCCAAATCAAGAACACAAACTTAAC
1 AATGATCAAGGTTTGCTTACCCAAATCAAGAACACAAACTTAAC
26098260 AATG
1 AATG
26098264 GAAACCCTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (44 bp):
AATGATCAAGGTTTGCTTACCCAAATCAAGAACACAAACTTAAC
Found at i:26100499 original size:12 final size:12
Alignment explanation
Indices: 26100482--26100506 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26100472 TAATGCTACC
26100482 GATACAATGCAA
1 GATACAATGCAA
26100494 GATACAATGCAA
1 GATACAATGCAA
26100506 G
1 G
26100507 TCAGTAACCA
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:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (12 bp):
GATACAATGCAA
Found at i:26101447 original size:196 final size:196
Alignment explanation
Indices: 26101108--26101552 Score: 660
Period size: 196 Copynumber: 2.3 Consensus size: 196
26101098 GTATACGATA
* * ** *
26101108 CTGCTCACACGAGCTATCGAGGACTCGCAACATATGTGAAATCCCAGCCATCGATACGATATCTA
1 CTGCTCACACGAGCTATCAAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTA
26101173 TGCATATAACTGTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCACTTATGCATAA
66 TGCATATAACTGTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCACTTATGCATAA
* **
26101238 AGCCTAACCATCGTAGGGCCTGTAATCTATTCTTGGATTCATTTCTCATTTT-CTCGACTCACGG
131 AGCCTAACCATCGTAGGGCCTGTAATCCATTCTTGGATTCATTTCTCATTTTCCT-GACTCACAA
26101302 TG
195 TG
* * * * * *
26101304 CTGCTCACACGAGCTGTCAAGGATTCACAACATATGCGGTACCCCAACCATCGATACGGTATCTG
1 CTGCTCACACGAGCTATCAAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTA
* * *
26101369 TGCATATAATTGTTCCCTAACGATGCTGCTCACACGAGTTGTCGAGAATATGCACTTATGCATAA
66 TGCATATAACTGTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCACTTATGCATAA
* * *
26101434 A-TCTCAGCCATCGTAGGGCCTGTAATCCATTTTTGGATTCATTTCTCATTTTCCTGACTCACAA
131 AGCCT-AACCATCGTAGGGCCTGTAATCCATTCTTGGATTCATTTCTCATTTTCCTGACTCACAA
26101498 TG
195 TG
* *
26101500 GTGCTCACACGAGCTATCAAGGACTCGCAACATATGCGGTACTCCAGCCATCG
1 CTGCTCACACGAGCTATCAAGGACTCGCAACATATGCGGTACCCCAGCCATCG
26101553 CATCGGTTTC
Statistics
Matches: 221, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
195 2 0.01
196 217 0.98
197 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (196 bp):
CTGCTCACACGAGCTATCAAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATATCTA
TGCATATAACTGTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCACTTATGCATAA
AGCCTAACCATCGTAGGGCCTGTAATCCATTCTTGGATTCATTTCTCATTTTCCTGACTCACAAT
G
Found at i:26106994 original size:19 final size:21
Alignment explanation
Indices: 26106957--26107003 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
26106947 CTTTTAATTA
26106957 ATTTTATTTATTGTTTTATG-T
1 ATTTT-TTTATTGTTTTATGCT
26106978 ATTTTTTTATT-TTTTATGCT
1 ATTTTTTTATTGTTTTATGCT
26106998 ATTTTT
1 ATTTTT
26107004 ATTTTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.28
20 13 0.52
21 5 0.20
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (21 bp):
ATTTTTTTATTGTTTTATGCT
Found at i:26107002 original size:18 final size:18
Alignment explanation
Indices: 26106963--26107009 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
26106953 ATTAATTTTA
26106963 TTTATTGTTTTATGTATTTT
1 TTTATT-TTTTATGTA-TTT
26106983 TTTATTTTTTATGCTA-TT
1 TTTATTTTTTATG-TATTT
26107001 TTTATTTTT
1 TTTATTTTT
26107010 GCCTTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTATTTTTTATGTATTT
Found at i:26107009 original size:19 final size:18
Alignment explanation
Indices: 26106963--26107009 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
26106953 ATTAATTTTA
*
26106963 TTTATTGTTTTATGTATT
1 TTTATTTTTTTATGTATT
*
26106981 TTTTTATTTTTTATGCTATT
1 TTTAT-TTTTTTATG-TATT
26107001 TTTATTTTT
1 TTTATTTTT
26107010 GCCTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTATTTTTTTATGTATT
Found at i:26109919 original size:14 final size:15
Alignment explanation
Indices: 26109900--26109930 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26109890 TAGAACTCAT
26109900 AAAGAAAGA-TTTTG
1 AAAGAAAGAGTTTTG
26109914 AAAGAAAGAGTTTTG
1 AAAGAAAGAGTTTTG
26109929 AA
1 AA
26109931 TTAGGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (15 bp):
AAAGAAAGAGTTTTG
Found at i:26110770 original size:15 final size:13
Alignment explanation
Indices: 26110746--26110784 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
26110736 TGCATATGCA
26110746 TACATGCATTCAT
1 TACATGCATTCAT
26110759 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
26110775 TACATGCATT
1 TACATGCATT
26110785 AAATTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:26110817 original size:22 final size:22
Alignment explanation
Indices: 26110794--26110844 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
26110784 TAAATTTCAT
26110794 AAAAATAATAATAAAATCAAATA
1 AAAAAT-ATAATAAAATCAAATA
26110817 AAAAATATAATAAAATCAAATA
1 AAAAATATAATAAAATCAAATA
26110839 AAAAAT
1 AAAAAT
26110845 TAAAATCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAATATAATAAAATCAAATA
Found at i:26110843 original size:12 final size:13
Alignment explanation
Indices: 26110800--26110844 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
26110790 TCATAAAAAT
26110800 AATAATAAAATCA
1 AATAATAAAATCA
26110813 AATAA-AAAAT--
1 AATAATAAAATCA
26110823 -ATAATAAAATCA
1 AATAATAAAATCA
26110835 AATAA-AAAAT
1 AATAATAAAAT
26110845 TAAAATCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 4 0.14
10 5 0.18
12 10 0.36
13 9 0.32
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAATAAAATCA
Found at i:26112918 original size:25 final size:25
Alignment explanation
Indices: 26112884--26112934 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
26112874 AATCAAAAGG
26112884 CGATAAAAGGGAGTACAATAGTAGA
1 CGATAAAAGGGAGTACAATAGTAGA
* * *
26112909 CGATAAAAGGTAGTGCGATAGTAGA
1 CGATAAAAGGGAGTACAATAGTAGA
26112934 C
1 C
26112935 TTTCTAGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.18
Consensus pattern (25 bp):
CGATAAAAGGGAGTACAATAGTAGA
Found at i:26116583 original size:50 final size:50
Alignment explanation
Indices: 26115942--26116623 Score: 625
Period size: 50 Copynumber: 13.7 Consensus size: 50
26115932 AACCGTGAAG
* * * *
26115942 GCGAATCTTATACCCTTAAAACTGTAGAGGGGCAGATTGAAG-TCGCGAAG
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCT-GCAAAA
* * * * * ** *
26115992 GTGAATCTTATACCCTTAAAGCTTTAGATGGGCAGATAGAAGCTGTGAAG
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * *
26116042 GGGAATCTTATACCCTTAAAGCTGTAGAGGTGCAGATTGAAGCTGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * *
26116092 GCGAATCTTATACCTCTAAAGCTGTAGAGAGGAAAATTGAAGCTGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * * *
26116142 GCGAATCTTATACCCCTAAAGTTGTAGAGGGGCAAATTGAAGCCGCGAAG
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
** * * * *** * ** *
26116192 GTAAATCTTATACACATAAAGCTATAGAGCAACAGATTGAAGCCGTGAAG
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
** * * * *
26116242 GAAAATCTTATATCCCTAAAGCTGTAAAGAGGCAGATTGAAGTTGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * * * *
26116292 GCAAATTTTATAGCCCTAAAACTGTAGAGGGGCAAATTGAAGCTACAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * *
26116342 GCGAATCTTATACCCTTAAAGCTGTAGA--GGCGGATTAAAGCTGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * ** * *
26116390 GTGAATTTTATATACCTAAAGCTGTAGAGGGGTAGATTGAAGCTGCAAAG
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * * * * *
26116440 GTGAATCTTATACCTCTAAAGTTGTAGAGAGGCAAATCGAAGATGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * *
26116490 GCGAATATTACACCCTTAAAGTTGTAGAGGGGCAGATTGAAGCTGCAAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
* * * *
26116540 GCAAATCTTATACCCCTAAAGCTGTAAAGGGGCAGATTGAAGCTACGAAA
1 GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
** * * *
26116590 GAAAAT-TCTATACCCTTAAAGTTTTAGAGGGGCA
1 GCGAATCT-TATACCCCTAAAGCTGTAGAGGGGCA
26116624 AATTAAAACT
Statistics
Matches: 515, Mismatches: 113, Indels: 8
0.81 0.18 0.01
Matches are distributed among these distances:
48 39 0.08
49 1 0.00
50 474 0.92
51 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (50 bp):
GCGAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTGCAAAA
Found at i:26117737 original size:12 final size:12
Alignment explanation
Indices: 26117708--26117745 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26117698 TTTAATTTGC
26117708 ATTTA-TTGTTT
1 ATTTATTTGTTT
26117719 ATCTTATTTGTTT
1 AT-TTATTTGTTT
*
26117732 ATTTATTTATTT
1 ATTTATTTGTTT
26117744 AT
1 AT
26117746 CATTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 2 0.08
12 14 0.58
13 8 0.33
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (12 bp):
ATTTATTTGTTT
Done.