Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold274
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: 1642345
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 31972 characters in sequence are not A, C, G, or T
File 6 of 10
Found at i:738966 original size:28 final size:26
Alignment explanation
Indices: 738921--738974 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
738911 TCCCTTCTTC
738921 TTCTTTTTTTTTTGTTTCTTCTTTTTT
1 TTCTTTTTTTTTTGTTTCTT-TTTTTT
738948 TTCTTTTTTGTTTTGTTTCTTTTTTTT
1 TTCTTTTTT-TTTTGTTTCTTTTTTTT
738975 GGAAAAGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (26 bp):
TTCTTTTTTTTTTGTTTCTTTTTTTT
Found at i:739252 original size:16 final size:16
Alignment explanation
Indices: 739212--739257 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
739202 TACCTTTGCA
*
739212 CTTTTTTTTTGACTCC
1 CTTTTTTTTTTACTCC
*
739228 CTTTTTTTTTTACTCT
1 CTTTTTTTTTTACTCC
*
739244 TTTTTTTTTTTACT
1 CTTTTTTTTTTACT
739258 TTTGATTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (16 bp):
CTTTTTTTTTTACTCC
Found at i:746288 original size:33 final size:33
Alignment explanation
Indices: 746251--746317 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
746241 AGTAGCTTAA
*
746251 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
* ***
746284 ATTGTATCAATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
746317 A
1 A
746318 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAAAAAAATATGTATCGATAC
Found at i:746712 original size:19 final size:19
Alignment explanation
Indices: 746669--746734 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 19
746659 CACCCAGATA
* * *
746669 TATCGATACATATTGCTTAG
1 TATCGATACATGTT-TTTTG
746689 TATCGATACATGTTTTTTG
1 TATCGATACATGTTTTTTG
746708 TATCGAAATACATGTTTTTTG
1 TATCG--ATACATGTTTTTTG
746729 TATCGA
1 TATCGA
746735 CACACCATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.22
20 13 0.32
21 19 0.46
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TATCGATACATGTTTTTTG
Found at i:746720 original size:21 final size:21
Alignment explanation
Indices: 746694--746734 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
746684 CTTAGTATCG
746694 ATACATGTTTTTTGTATCGAA
1 ATACATGTTTTTTGTATCGAA
746715 ATACATGTTTTTTGTATCGA
1 ATACATGTTTTTTGTATCGA
746735 CACACCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (21 bp):
ATACATGTTTTTTGTATCGAA
Found at i:747393 original size:69 final size:63
Alignment explanation
Indices: 747311--747472 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 63
747301 TGAAGTGATT
* *
747311 GAGAGGTTTTATCTTAGCCTTGAAAAAGATAGGGAGAAAGGTTCTATCTTAGCTTGTGAAAAGAT
1 GAGAGGTTTTATCTTAGCCTTG-AAAAGATA-GGAG--AGGTTCTATCTTAGCCTATGAAAAGAT
747376 AG
62 AG
*
747378 TGAAGAGGTTTTATCTTAGCCTGTGAAAAGATA-GTGAGGTTCTATCTTAGCCTATGAAAAGATA
1 -G-AGAGGTTTTATCTTAGCCT-TGAAAAGATAGGAGAGGTTCTATCTTAGCCTATGAAAAGATA
747442 G
63 G
* *
747443 G-GAGGTTCTATCTTAGCCTTTAAAAGATAG
1 GAGAGGTTTTATCTTAGCCTTGAAAAGATAG
747473 TATAGTAAGG
Statistics
Matches: 86, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
61 9 0.10
62 17 0.20
64 1 0.01
65 27 0.31
67 2 0.02
68 1 0.01
69 27 0.31
70 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (63 bp):
GAGAGGTTTTATCTTAGCCTTGAAAAGATAGGAGAGGTTCTATCTTAGCCTATGAAAAGATAG
Found at i:747424 original size:31 final size:30
Alignment explanation
Indices: 747313--747473 Score: 169
Period size: 31 Copynumber: 5.0 Consensus size: 30
747303 AAGTGATTGA
* *
747313 GAGGTTTTATCTTAGCCTTGAAAAAGATAGGGA
1 GAGGTTCTATCTTAGCCTTG-AAAAGATA--GT
*
747346 GAAAGGTTCTATCTTAGCTTGTGAAAAGATAGT
1 G--AGGTTCTATCTTAGCCT-TGAAAAGATAGT
*
747379 GAAGAGGTTTTATCTTAGCCTGTGAAAAGATAGT
1 ---GAGGTTCTATCTTAGCCT-TGAAAAGATAGT
*
747413 GAGGTTCTATCTTAGCCTATGAAAAGATAGG
1 GAGGTTCTATCTTAGCCT-TGAAAAGATAGT
*
747444 GAGGTTCTATCTTAGCCTTTAAAAGATAGT
1 GAGGTTCTATCTTAGCCTTGAAAAGATAGT
747474 ATAGTAAGGT
Statistics
Matches: 112, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
30 10 0.09
31 46 0.41
33 2 0.02
34 28 0.25
35 23 0.21
36 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (30 bp):
GAGGTTCTATCTTAGCCTTGAAAAGATAGT
Found at i:748169 original size:20 final size:20
Alignment explanation
Indices: 748141--748190 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
748131 TTCCATAGTG
*
748141 TATCAATACAAAGCAATTTA
1 TATCGATACAAAGCAATTTA
** *
748161 TATCGATACTTAGCAATTTG
1 TATCGATACAAAGCAATTTA
748181 TATCGATACA
1 TATCGATACA
748191 TCTAGGTGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (20 bp):
TATCGATACAAAGCAATTTA
Found at i:750560 original size:13 final size:13
Alignment explanation
Indices: 750542--750567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
750532 CAACTTTATG
750542 TGTATCGATACAT
1 TGTATCGATACAT
750555 TGTATCGATACAT
1 TGTATCGATACAT
750568 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:750581 original size:32 final size:33
Alignment explanation
Indices: 750522--750585 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
750512 TACAGGCCAA
750522 TGTATCGATACAACTTTATGTGTATCGATACAT
1 TGTATCGATACAACTTTATGTGTATCGATACAT
750555 TGTATCGATACATAC-TT-TGTGTATCGATACA
1 TGTATCGATACA-ACTTTATGTGTATCGATACA
750586 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 14 0.47
33 14 0.47
34 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAACTTTATGTGTATCGATACAT
Found at i:752678 original size:21 final size:20
Alignment explanation
Indices: 752649--752691 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
752639 GACTAGTGTG
* *
752649 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
752670 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
752690 GG
1 GG
752692 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:754240 original size:13 final size:13
Alignment explanation
Indices: 754222--754247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
754212 CAATTTTTTG
754222 TGTATCGATACAT
1 TGTATCGATACAT
754235 TGTATCGATACAT
1 TGTATCGATACAT
754248 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:754998 original size:21 final size:20
Alignment explanation
Indices: 754956--754994 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
754946 TATTAATGAA
754956 TCTCCCCCTTAATCAAGTAT
1 TCTCCCCCTTAATCAAGTAT
754976 TCTCCCCCTTAATCAAGTA
1 TCTCCCCCTTAATCAAGTA
754995 ATTCATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (20 bp):
TCTCCCCCTTAATCAAGTAT
Found at i:756661 original size:21 final size:21
Alignment explanation
Indices: 756637--756683 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
756627 TTTGATGCTG
756637 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
756657 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
756678 ATTTTG
1 ATTTTG
756684 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:756822 original size:13 final size:13
Alignment explanation
Indices: 756804--756855 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
756794 ATAATCACCC
756804 TGTATCGATACAA
1 TGTATCGATACAA
756817 TGTATCGATACAA
1 TGTATCGATACAA
756830 TGTATCGATACAA
1 TGTATCGATACAA
756843 TGTATCGATACAA
1 TGTATCGATACAA
756856 AGAAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:758951 original size:15 final size:15
Alignment explanation
Indices: 758931--758961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
758921 CTTTCGTTTG
*
758931 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
758946 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
758961 G
1 G
758962 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:760794 original size:21 final size:21
Alignment explanation
Indices: 760765--760809 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
760755 AAGTTTTCAT
*
760765 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
760785 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
760807 TTT
1 TTT
760810 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:763048 original size:13 final size:13
Alignment explanation
Indices: 763030--763055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
763020 CAATTTTTTG
763030 TGTATCGATACAT
1 TGTATCGATACAT
763043 TGTATCGATACAT
1 TGTATCGATACAT
763056 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:763070 original size:32 final size:33
Alignment explanation
Indices: 763010--763073 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
763000 TAAAAGCCAA
** *
763010 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
763043 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
763074 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:765215 original size:15 final size:15
Alignment explanation
Indices: 765195--765225 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
765185 ATTTCGTTTG
*
765195 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
765210 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
765225 G
1 G
765226 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:769297 original size:13 final size:13
Alignment explanation
Indices: 769279--769304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
769269 CAACTTTATG
769279 TGTATCGATACAT
1 TGTATCGATACAT
769292 TGTATCGATACAT
1 TGTATCGATACAT
769305 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:769318 original size:32 final size:33
Alignment explanation
Indices: 769259--769322 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
769249 TACAGGCCAA
769259 TGTATCAATACAACTTTATGTGTATCGATACAT
1 TGTATCAATACAACTTTATGTGTATCGATACAT
*
769292 TGTATCGATACATAC-TT-TGTGTATCGATACA
1 TGTATCAATACA-ACTTTATGTGTATCGATACA
769323 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 13 0.45
34 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACAACTTTATGTGTATCGATACAT
Found at i:773740 original size:30 final size:30
Alignment explanation
Indices: 773704--773800 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 30
773694 ATCCTTATTC
773704 GACTATACTGAGTCAAATTTTACCCCTCTT
1 GACTATACTGAGTCAAATTTTACCCCTCTT
* * * *
773734 GACTATATTTAGTC-AAGTCTA-CCCTCATTT
1 GACTATACTGAGTCAAATTTTACCCCTC--TT
773764 GACTATACTCG-GTCAAATTTTACCCCTCTT
1 GACTATACT-GAGTCAAATTTTACCCCTCTT
773794 GACTATA
1 GACTATA
773801 TTCAGTCAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 5 0.09
29 5 0.09
30 34 0.63
31 5 0.09
32 5 0.09
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (30 bp):
GACTATACTGAGTCAAATTTTACCCCTCTT
Found at i:773750 original size:60 final size:61
Alignment explanation
Indices: 773665--774371 Score: 480
Period size: 60 Copynumber: 11.7 Consensus size: 61
773655 ACTGAGAACC
* * *
773665 ACCCCTCTTGACTGTATTC-GATCAAGTCTATCCTTATTCGACTATACT-GAGTCAAATTTT
1 ACCCCTCTTGACTATATTCAG-TCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * *
773725 ACCCCTCTTGACTATATTTAGTCAAGTCTACCCTCATTTGACTATACTCG-GTCAAATTTT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * *
773785 ACCCCTCTTGACTATATTCAGTCAGGTCTTTCCTCATTTGACTATACTCGA-TCGAATCTT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * * * * * *
773845 ACCCCTCTTAACTGTATTCAATCAGGTCTATCCTCAGTTGACTGTACT-TAGTCAAATCTT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* ** ** *
773905 ACCCCTCTTGATTGCATTC-GATTGAGTTTATCCTCATTTGACTATATTGACTATACTCGA-TCA
1 ACCCCTCTTGACTATATTCAG-TCAAGTCTAT-C-C---T---TAT-TTGACTATACTCGAGTCA
773968 AATCTT
56 AATCTT
** * * * * * * *
773974 ACCTTTCTTGATTGTGTTCGGTCAAGTTTAT-CTCATTTGACTATATTC-AGTCAAAT-TT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * * * *
774032 CACCCATTTTGATTGTATTCAGTCAAGTCTTTTCTTATTTGACTATACTCG-GTCAAATCTT
1 -ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * * * * *
774093 ACCCCTTTTGACTGTATTC-GTTCAAGTTTATCCTTATTTGACCATATTCGA-TGAAATTTT
1 ACCCCTCTTGACTATATTCAG-TCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* *
774153 ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTGTACTCGA-TCAAATCTT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * * * * * *
774213 ACCTCTTTTGACTATATTCAATCAAGACTTTCCTTATTTAACTGTATTC-AGTCAAAT-TT
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
* * * ** * * * *
774272 A-CCATGTTCGACTTTATTTGGTCAAGTCTCT-CTTCATTCGACGATACTTGA-TCAAATCTT
1 ACCCCTCTT-GACTATATTCAGTCAAGTCTATCCTT-ATTTGACTATACTCGAGTCAAATCTT
** * * * * * *
774332 ACTTCACTTGATTATATTCGGTCAAGCCTTTCCTCATTTG
1 ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTG
774372 CCTACATTTA
Statistics
Matches: 517, Mismatches: 99, Indels: 62
0.76 0.15 0.09
Matches are distributed among these distances:
58 10 0.02
59 77 0.15
60 371 0.72
61 10 0.02
62 1 0.00
63 1 0.00
65 1 0.00
66 1 0.00
68 1 0.00
69 42 0.08
70 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (61 bp):
ACCCCTCTTGACTATATTCAGTCAAGTCTATCCTTATTTGACTATACTCGAGTCAAATCTT
Found at i:773826 original size:30 final size:30
Alignment explanation
Indices: 773672--773830 Score: 94
Period size: 30 Copynumber: 5.3 Consensus size: 30
773662 ACCACCCCTC
* * *
773672 TTGACTGTATTC-GATCAAGTCTATCCTTAT
1 TTGACTATATTCAG-TCAAGTCTTTCCTCAT
* * * * *
773702 TCGACTATACTGAGTCAAAT-TTTACC-CCT
1 TTGACTATATTCAGTCAAGTCTTT-CCTCAT
* **
773731 CTTGACTATATTTAGTCAAGTCTACCCTCAT
1 -TTGACTATATTCAGTCAAGTCTTTCCTCAT
* * * *
773762 TTGACTATACTCGGTCAAAT-TTTACC-CCT
1 TTGACTATATTCAGTCAAGTCTTT-CCTCAT
*
773791 CTTGACTATATTCAGTCAGGTCTTTCCTCAT
1 -TTGACTATATTCAGTCAAGTCTTTCCTCAT
773822 TTGACTATA
1 TTGACTATA
773831 CTCGATCGAA
Statistics
Matches: 93, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
29 6 0.06
30 78 0.84
31 9 0.10
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (30 bp):
TTGACTATATTCAGTCAAGTCTTTCCTCAT
Found at i:773886 original size:120 final size:120
Alignment explanation
Indices: 773665--774333 Score: 553
Period size: 120 Copynumber: 5.5 Consensus size: 120
773655 ACTGAGAACC
* * * *
773665 ACCCCTCTTGACTGTATTC-GATCAAGTCTATCCTTATTCGACTATACT-GAGTCAAATTTTACC
1 ACCCCTCTTGACTATATTCAG-TCAAGTCTTTCCTTATTTGACTATACTCGA-TCAAATCTTACC
* * * * *
773728 CCTCTTGACTATATTTAGTCAAGTCTACCCTCATTTGACTATACTCGGTCAAATTTT
64 CCTCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAGTCAAATTTT
* * *
773785 ACCCCTCTTGACTATATTCAGTCAGGTCTTTCCTCATTTGACTATACTCGATCGAATCTTACCCC
1 ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTATACTCGATCAAATCTTACCCC
* * * * * *
773850 TCTTAACTGTATTCAATCAGGTCTATCCTCAGTTGACTGTACTTAGTCAAATCTT
66 TCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAGTCAAATTTT
* * * ** *
773905 ACCCCTCTTGATTGCATTCGATTGAGTTTATCCTCATTTGAC-TATATTGACTATACTCGATCAA
1 ACCCCTCTTGACT--A-T--ATTCAG-TCA-AGTC-TTT-CCTTAT-TTGACTATACTCGATCAA
** * * ** * * *
773969 ATCTTACCTTTCTTGATTGTGTTCGGTCAAGTTTAT-CTCATTTGACTATATTCAGTCAAATTTC
56 ATCTTACCCCTCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAGTCAAATTTT
* * * * * *
774033 ACCCATTTTGATTGTATTCAGTCAAGTCTTTTCTTATTTGACTATACTCGGTCAAATCTTACCCC
1 ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTATACTCGATCAAATCTTACCCC
* ** * * * * *
774098 TTTTGACTGTATTCGTTCAAGTTTATCCTTATTTGACCATATTC-GATGAAATTTT
66 TCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAG-TCAAATTTT
* *
774153 ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTGTACTCGATCAAATCTTACCTC
1 ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTATACTCGATCAAATCTTACCCC
* * * * * * * *
774218 TTTTGACTATATTCAATCAAGACTTTCCTTATTTAACTGTATTCAGTCAAA-TTT
66 TCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAGTCAAATTTT
* * * ** * * * *
774272 A-CCATGTTCGACTTTATTTGGTCAAGTCTCT-CTTCATTCGACGATACTTGATCAAATCTTAC
1 ACCCCTCTT-GACTATATTCAGTCAAGTCTTTCCTT-ATTTGACTATACTCGATCAAATCTTAC
774334 TTCACTTGAT
Statistics
Matches: 443, Mismatches: 88, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
118 8 0.02
119 94 0.21
120 233 0.53
121 6 0.01
122 3 0.01
123 6 0.01
125 6 0.01
126 2 0.00
127 2 0.00
128 38 0.09
129 45 0.10
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (120 bp):
ACCCCTCTTGACTATATTCAGTCAAGTCTTTCCTTATTTGACTATACTCGATCAAATCTTACCCC
TCTTGACTGTATTCAATCAAGTCTATCCTCATTTGACTATACTCAGTCAAATTTT
Found at i:774103 original size:30 final size:30
Alignment explanation
Indices: 774069--774237 Score: 128
Period size: 30 Copynumber: 5.6 Consensus size: 30
774059 TCTTTTCTTA
* *
774069 TTTGACTATACTCGGTCAAATCTTACCCCT
1 TTTGACTATATTCGATCAAATCTTACCCCT
* * * * *
774099 TTTGACTGTATTCGTTCAAGT-TTATCCTT
1 TTTGACTATATTCGATCAAATCTTACCCCT
* * *
774128 ATTTGACCATATTCGATGAAATTTTACCCCT
1 -TTTGACTATATTCGATCAAATCTTACCCCT
* * * *
774159 CTTGACTATATTC-AGTCAAGTCTT-TCCTT
1 TTTGACTATATTCGA-TCAAATCTTACCCCT
* * *
774188 ATTTGACTGTACTCGATCAAATCTTACCTCT
1 -TTTGACTATATTCGATCAAATCTTACCCCT
*
774219 TTTGACTATATTCAATCAA
1 TTTGACTATATTCGATCAA
774238 GACTTTCCTT
Statistics
Matches: 103, Mismatches: 30, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
29 10 0.10
30 84 0.82
31 9 0.09
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTGACTATATTCGATCAAATCTTACCCCT
Found at i:774261 original size:30 final size:30
Alignment explanation
Indices: 774160--774267 Score: 103
Period size: 30 Copynumber: 3.6 Consensus size: 30
774150 TTTACCCCTC
* * *
774160 TTGACTATATTCAGTCAAGTCTTTCCTTAT
1 TTGACTGTATTCAATCAAGACTTTCCTTAT
* * *
774190 TTGACTGTACTCGATCAA-ATCTTACCTCT-T
1 TTGACTGTATTCAATCAAGA-CTTTCCT-TAT
*
774220 TTGACTATATTCAATCAAGACTTTCCTTAT
1 TTGACTGTATTCAATCAAGACTTTCCTTAT
* *
774250 TTAACTGTATTCAGTCAA
1 TTGACTGTATTCAATCAA
774268 ATTTACCATG
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 1 0.02
30 58 0.95
31 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (30 bp):
TTGACTGTATTCAATCAAGACTTTCCTTAT
Found at i:775503 original size:159 final size:155
Alignment explanation
Indices: 775270--775659 Score: 399
Period size: 159 Copynumber: 2.4 Consensus size: 155
775260 TTAATTTTTA
*
775270 ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCA
* *
775335 TTTCTATAAATTTTGAATTTCTTCCTTGAAATTTTCCTTTT-TTCCGAAATATAGAGTTTTCTAC
66 TTTCTATAAATTTTG-ATTT-TTCCTTGAAA-TTCCCTTTTGTT--GAAATACAGAGTTTTCTAC
775399 ACTATAAATTTTTTTAAGAGGATTTTTCTT
126 ACTATAAATTTTTTTAAGAGGATTTTTCTT
* * * *
775429 ATTTTTAAAATTCATCAAATATTATTATTTATTTTATATTAATTCCA-TTTTCAAAAGTTAATTT
1 ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT-CAGTTTTCAAAAATTAATTC
* ** * * *
775493 GTTT-TCATAAATTTTGATTTTTTTTTGAAATTCCCTTTTGTTGATATACAGAGTTTTTTACTCT
65 ATTTCT-ATAAATTTTGATTTTTCCTTGAAATTCCCTTTTGTTGAAATACAGAGTTTTCTACACT
* * * * *
775557 GTAAATTTTTTCAGGAGAAATTTTCTTGGTTTT
129 ATAAATTTTTTTAAGAG-GA--TT-TT--TCTT
* ** * * *
775590 CAATTTTTGAAATTCATAAAATACAATTATTTATTTCATATTAAATCATTTTTAAAAAATTAATT
1 --ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATT
*
775655 AATTT
64 CATTT
775660 TCATGAGTTT
Statistics
Matches: 191, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
155 32 0.17
156 9 0.05
157 10 0.05
158 7 0.04
159 71 0.37
160 2 0.01
161 3 0.02
162 2 0.01
163 55 0.29
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (155 bp):
ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCA
TTTCTATAAATTTTGATTTTTCCTTGAAATTCCCTTTTGTTGAAATACAGAGTTTTCTACACTAT
AAATTTTTTTAAGAGGATTTTTCTT
Found at i:777070 original size:161 final size:161
Alignment explanation
Indices: 776656--777426 Score: 944
Period size: 161 Copynumber: 4.8 Consensus size: 161
776646 CATGTTCATG
* * * ** *
776656 TTAATCTTTTATATTCC-ATGGGCATTCGTAGGGGTATAAAAGATTTGAAAAATGTTTCGTATCC
1 TTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATTTCAAAAACCTTTCGTATTC
** * * * * * **
776720 TTTCA-ATTTCCATTAAGGTACAAAATGTTATTTTCGAAAGTAAATAAAATCATAA-TGAATTAA
66 TTTCAGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAATAAAATTA-AATTGAATTGG
* * *
776783 TATTTTTAGGATAAATTTTAAT-TTATATTTTT
130 TATTCTTGGGATAAATTCTAATATT-TATTTTT
* * * * *
776815 TCTAATCTTTTTTATTCCAATAAGCATCCGTAAGGGTATAAAAGATTTTAAAAAACCTTTCGTAT
1 T-TAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGA-TTTCAAAAACCTTTCGTAT
* * *
776880 TCTTTCGGGCTTCCATTTGGGTACGAAATGGTATTTTCAAAAATAAATAAAATTAAATTGAATTG
64 TCTTTCAGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAATAAAATTAAATTGAATTG
776945 GTATTCTTGGGATAAATTCTAATATTTATTTTT
129 GTATTCTTGGGATAAATTCTAATATTTATTTTT
** * * * *
776978 TTAATCTTTTATATTTTTATAGGTATTCATAGGGGTATAAAAGATTTCAAAAACCTTTCATATTC
1 TTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATTTCAAAAACCTTTCGTATTC
* * * *
777043 TTTCAGGCTTCCATTAGGGTCCGAAATGATATTTTTGAAAACAAATAAAATTAAATTGAATTGGT
66 TTTCAGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAATAAAATTAAATTGAATTGGT
777108 ATTCTTGGGATAAATTCTAATATTTATTTTT
131 ATTCTTGGGATAAATTCTAATATTTATTTTT
* *
777139 TTAATCTTTTATATTCCTAT-GAGCATCCGTAAGGGTATAAAAGATTTCAAAAACTTTTCGTATT
1 TTAATCTTTTATATTCCTATAG-GCATCCGTAGGGGTATAAAAGATTTCAAAAACCTTTCGTATT
* * * * * *
777203 CTTTTAGGTTTCCATTAGGATTCGAAATGGT-TTTTAAGAAAATAAATAAAATTAAATTGAAGTG
65 CTTTCAGGCTTCCATTAGGGTACGAAATGGTATTTT-CGAAAATAAATAAAATTAAATTGAATTG
*
777267 GTATTCTTGAGATAAATTCT-ATATTTATTTTT
129 GTATTCTTGGGATAAATTCTAATATTTATTTTT
* * * * *
777299 TCTAATCTTTTATATTCTTATGGGCAACCGTAGGGGTATAAAAGATTTCAAAAACCTTTCTTATC
1 T-TAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATTTCAAAAACCTTTCGTATT
* * * *
777364 CTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTTGAAAATAAATAAAATTAAAGTGAATT
65 CTTTCAGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAATAAAATTAAATTGAATT
777427 AATACTTTCG
Statistics
Matches: 527, Mismatches: 74, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
159 1 0.00
160 33 0.06
161 358 0.68
162 62 0.12
163 71 0.13
164 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (161 bp):
TTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATTTCAAAAACCTTTCGTATTC
TTTCAGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAATAAAATTAAATTGAATTGGT
ATTCTTGGGATAAATTCTAATATTTATTTTT
Found at i:779564 original size:33 final size:32
Alignment explanation
Indices: 779521--779584 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
779511 CACACCCAGA
* *
779521 TGTATTGATACATATTGCTTGGTATCTATACAT
1 TGTATCGATACATATT-CTTGGTATCGATACAT
* *
779554 TGTATCGATACATGTTCTTTGTATCGATACA
1 TGTATCGATACATATTCTTGGTATCGATACA
779585 CCATAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATATTCTTGGTATCGATACAT
Found at i:779667 original size:20 final size:20
Alignment explanation
Indices: 779642--779679 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
779632 TGTTCATAAT
*
779642 TGAATTGTGTCGATACATGG
1 TGAATTGTATCGATACATGG
779662 TGAATTGTATCGATACAT
1 TGAATTGTATCGATACAT
779680 TGAGCGCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (20 bp):
TGAATTGTATCGATACATGG
Found at i:779744 original size:63 final size:63
Alignment explanation
Indices: 779645--779805 Score: 216
Period size: 63 Copynumber: 2.6 Consensus size: 63
779635 TCATAATTGA
* * *
779645 ATTGTGTCGATACATGGTGAATTGTATCGATACATTGAGCGC-AACGGATATAATTTCAAATGC
1 ATTGTATCGATACATGGTGAATTGTATTGATACATTGAGC-CTAACGGATAGAATTTCAAATGC
* ** * *
779708 ATTGTATCGATACATGGTGAATTTTATTGATACATTGAGCCTATTGGCTAGAATTTTAAATGC
1 ATTGTATCGATACATGGTGAATTGTATTGATACATTGAGCCTAACGGATAGAATTTCAAATGC
**
779771 ATTGTATCGATACATTATGAATTGTATTGATACAT
1 ATTGTATCGATACATGGTGAATTGTATTGATACAT
779806 AGAAGTGTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 1 0.01
63 85 0.99
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (63 bp):
ATTGTATCGATACATGGTGAATTGTATTGATACATTGAGCCTAACGGATAGAATTTCAAATGC
Found at i:783231 original size:36 final size:33
Alignment explanation
Indices: 783157--783245 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 33
783147 ACTATCTTAC
* *
783157 AAGGCTAAGATAAAAAC-CTCTCTATCTTTTCA
1 AAGGCTAAGATAGAACCTCTCTCTATCTTTTCA
**
783189 CGGGCTAAGATAGAACCTCTCTCCCTATCTTTTTCA
1 AAGGCTAAGATAGAACCTCTCT--CTATC-TTTTCA
783225 AAGGCTAAGATAGAACCTCTC
1 AAGGCTAAGATAGAACCTCTC
783246 AATCACTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 13 0.28
33 4 0.09
35 5 0.11
36 25 0.53
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (33 bp):
AAGGCTAAGATAGAACCTCTCTCTATCTTTTCA
Found at i:787050 original size:21 final size:21
Alignment explanation
Indices: 787026--787083 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
787016 TTTATTAGTT
*
787026 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
*
787047 AACTTATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
787068 AACTCATTCATTTTCT
1 AACTCATTCATTTTCT
787084 CCTCTAGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 5 0.16
23 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.02, T:0.53
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Found at i:788741 original size:35 final size:36
Alignment explanation
Indices: 788702--788772 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
788692 GATAGAAACT
**
788702 TCCCTATC-TTTTCACGGGCTAAGATAAAACCTCTC
1 TCCCTATCTTTTTCAAAGGCTAAGATAAAACCTCTC
788737 TCCCTATCTTTTTCAAAGGCTAAGATAAAACCTCTC
1 TCCCTATCTTTTTCAAAGGCTAAGATAAAACCTCTC
788773 AATCACTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 8 0.24
36 25 0.76
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (36 bp):
TCCCTATCTTTTTCAAAGGCTAAGATAAAACCTCTC
Found at i:789220 original size:10 final size:10
Alignment explanation
Indices: 789205--789257 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
789195 GCTTCAATGC
789205 ATAGTGATGA
1 ATAGTGATGA
*
789215 ATAGTGATGT
1 ATAGTGATGA
* *
789225 ATCGATACATGA
1 ATAG-T-GATGA
*
789237 ACAGTGATGA
1 ATAGTGATGA
789247 ATAGTGATGA
1 ATAGTGATGA
789257 A
1 A
789258 CAATGGAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
10 26 0.79
11 2 0.06
12 5 0.15
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (10 bp):
ATAGTGATGA
Found at i:792029 original size:17 final size:17
Alignment explanation
Indices: 792007--792039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
791997 AAAATCTTAT
792007 TTTTTTCCTTT-TTTTTC
1 TTTTTT-CTTTCTTTTTC
792024 TTTTTTCTTTCTTTTT
1 TTTTTTCTTTCTTTTT
792040 TTCTCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTCTTTTTC
Found at i:792039 original size:12 final size:12
Alignment explanation
Indices: 792015--792057 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 12
792005 ATTTTTTTCC
792015 TTTTT-TTTC-T
1 TTTTTCTTTCTT
792025 TTTTTCTTTCTT
1 TTTTTCTTTCTT
792037 TTTTTCTCTCTCTT
1 TTTTTCT-T-TCTT
792051 TTTTTCT
1 TTTTTCT
792058 CCAAGTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.17
11 4 0.14
12 8 0.28
13 1 0.03
14 11 0.38
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:792058 original size:12 final size:11
Alignment explanation
Indices: 792006--792058 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 11
791996 CAAAATCTTA
792006 TTTTTTTC-CT
1 TTTTTTTCTCT
792016 TTTTTTTCT-T
1 TTTTTTTCTCT
792026 TTTTCTTTCT-T
1 TTTT-TTTCTCT
*
792037 TTTTTCTCTCT
1 TTTTTTTCTCT
792048 CTTTTTTTCTC
1 -TTTTTTTCTC
792059 CAAGTTTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 17 0.46
11 11 0.30
12 9 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:795376 original size:10 final size:10
Alignment explanation
Indices: 795327--795356 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
795317 TAATTCTAAT
795327 TTTTATTTTC
1 TTTTATTTTC
795337 TTTTATTTTC
1 TTTTATTTTC
795347 TTTTAATTTT
1 TTTT-ATTTT
795357 TGAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:795493 original size:28 final size:27
Alignment explanation
Indices: 795441--795494 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
795431 CTACACATTT
**
795441 TTGAATTTTACATAATTAATTTTTTAA
1 TTGAATTTTACATAATTAAAATTTTAA
795468 TTGAATTTTGACAT-ATATAAAATTTTA
1 TTGAATTTT-ACATAAT-TAAAATTTTA
795495 CTTAACCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (27 bp):
TTGAATTTTACATAATTAAAATTTTAA
Found at i:795893 original size:20 final size:21
Alignment explanation
Indices: 795847--795893 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
795837 AATTCCAAAT
*
795847 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTAGGA
795868 --ATTGTATCGATACA-TAGGA
1 GCA-TGTATCGATACATTAGGA
795887 GCATGTA
1 GCATGTA
795894 AGTGCGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GCATGTATCGATACATTAGGA
Found at i:799058 original size:29 final size:29
Alignment explanation
Indices: 799026--799273 Score: 175
Period size: 29 Copynumber: 8.6 Consensus size: 29
799016 GGGGTAAAAA
* **
799026 TGTAATTTTAAAAAGTTTAAAGGTTATTG
1 TGTAATTTTGAAAAGTTTAAAGGTTAAAG
* *
799055 TGTAATTATGAAAAGTTTAAAGGTCAAAG
1 TGTAATTTTGAAAAGTTTAAAGGTTAAAG
* * ** *
799084 TATAATTTTGAAAGGTTTAGGGGTCT-ATG
1 TGTAATTTTGAAAAGTTTAAAGGT-TAAAG
* *
799113 TGTAATTTTGAAAAATTTTAAGGGTTAAAG
1 TGTAATTTTG-AAAAGTTTAAAGGTTAAAG
* * * *
799143 TGTAATTCTGAAAA-TGTGAAGGGTCAAAG
1 TGTAATTTTGAAAAGT-TTAAAGGTTAAAG
*
799172 TGTAATTTTGAAAAGTTTAAAGGTCAACA-
1 TGTAATTTTGAAAAGTTTAAAGGTTAA-AG
* * *
799201 TATAATTTTG-AAAGTTT-AAGAGTCAAAA
1 TGTAATTTTGAAAAGTTTAAAG-GTTAAAG
* ** * *
799229 TGTAATTTTAAAAAGTTTAGGGGTCAATG
1 TGTAATTTTGAAAAGTTTAAAGGTTAAAG
799258 -GATAATTTTGAAAAGT
1 TG-TAATTTTGAAAAGT
799274 CTAGGAACTC
Statistics
Matches: 177, Mismatches: 31, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.02
28 22 0.12
29 126 0.71
30 25 0.14
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (29 bp):
TGTAATTTTGAAAAGTTTAAAGGTTAAAG
Found at i:799102 original size:58 final size:56
Alignment explanation
Indices: 799028--799270 Score: 200
Period size: 58 Copynumber: 4.2 Consensus size: 56
799018 GGTAAAAATG
* * *
799028 TAATTTTAAAAAGTTTAAAGGTTATTGTGTAATTATGAAAAGTTTAAAGGTCAAAGTA
1 TAATTTT-GAAAGTTTAAGGGTTA-TGTGTAATTTTGAAAAGTTTAAAGGTCAAAGTA
* * * * *
799086 TAATTTTGAAAGGTTTAGGGGTCTATGTGTAATTTTGAAAAATTTTAAGGGTTAAAGTG
1 TAATTTTGAAA-GTTTAAGGGT-TATGTGTAATTTTG-AAAAGTTTAAAGGTCAAAGTA
* * * * *
799145 TAATTCTGAAAATGTGAAGGGTCAAAGTGTAATTTTGAAAAGTTTAAAGGTCAACA-TA
1 TAATTTTGAAAGT-TTAAGGGT-TATGTGTAATTTTGAAAAGTTTAAAGGTCAA-AGTA
* * ** * ** * *
799203 TAATTTTGAAAGTTTAAGAGTCAAAATGTAATTTTAAAAAGTTTAGGGGTCAATGGA
1 TAATTTTGAAAGTTTAAGGGT-TATGTGTAATTTTGAAAAGTTTAAAGGTCAAAGTA
799260 TAATTTTGAAA
1 TAATTTTGAAA
799271 AGTCTAGGAA
Statistics
Matches: 151, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
57 49 0.32
58 53 0.35
59 49 0.32
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.37
Consensus pattern (56 bp):
TAATTTTGAAAGTTTAAGGGTTATGTGTAATTTTGAAAAGTTTAAAGGTCAAAGTA
Found at i:799149 original size:88 final size:88
Alignment explanation
Indices: 799025--799273 Score: 254
Period size: 88 Copynumber: 2.9 Consensus size: 88
799015 TGGGGTAAAA
* ** *
799025 ATGTAATTTT-AAAAAGTTTAAAGGTTATTGTGTAATTATGAAAAGTTTAAAGGTCAAAGTATAA
1 ATGTAATTTTGAAAAAGTTTAAGGGTTAAAGTGTAATTATGAAAAGTTTAAGGGTCAAAGTATAA
* ** * *
799089 TTTTGAAAGGTTTAGGGGTCTAT
66 TTTTGAAAAGTTTAAAGGTCAAC
* * * * *
799112 GTGTAATTTTGAAAAATTTTAAGGGTTAAAGTGTAATTCTGAAAA-TGTGAAGGGTCAAAGTGTA
1 ATGTAATTTTGAAAAAGTTTAAGGGTTAAAGTGTAATTATGAAAAGT-TTAAGGGTCAAAGTATA
799176 ATTTTGAAAAGTTTAAAGGTCAAC
65 ATTTTGAAAAGTTTAAAGGTCAAC
* * * * * * * * *
799200 ATATAATTTTG--AAAGTTTAAGAGTCAAAATGTAATTTTAAAAAGTTTAGGGGTCAATGGATAA
1 ATGTAATTTTGAAAAAGTTTAAGGGTTAAAGTGTAATTATGAAAAGTTTAAGGGTCAAAGTATAA
799263 TTTTGAAAAGT
66 TTTTGAAAAGT
799274 CTAGGAACTC
Statistics
Matches: 132, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
86 50 0.38
87 11 0.08
88 71 0.54
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (88 bp):
ATGTAATTTTGAAAAAGTTTAAGGGTTAAAGTGTAATTATGAAAAGTTTAAGGGTCAAAGTATAA
TTTTGAAAAGTTTAAAGGTCAAC
Found at i:799785 original size:156 final size:155
Alignment explanation
Indices: 799388--800001 Score: 522
Period size: 156 Copynumber: 4.0 Consensus size: 155
799378 GGTTACCTAA
* * * * * * *
799388 ATACTTT-ATTGTCGAAGGTATATCTTAAGGGTGTTTTCATAATTTTTTTAAAATCGAGTCTTAA
1 ATACTTTCA-TGTCAAAAGTATATCTTAAGGGTATTTT-GTAATTTCTCTAAAATCAAGTCTTAA
* ** * * * *
799452 GTGGTCACCAAGTTGC-TTTGTGCCAAAGGTGTGCATTTAGGGTAAGTTAGTCATTTTCTTTATC
64 GTCGTCACCAAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTAGTCCTTTTCTTTATC
* * **
799516 TCTTTCGTGTTTTTTTAAGGTTA-TAGGG
129 TTTTTCATG-TCCTTTAAGGTTACTA-GG
* * *
799544 ATACTTTCATGTCAAAAGTATGTCTCAAGGGTA--TT-TAATTT-TCCTAAAACCAAGTCTTAAG
1 ATACTTTCATGTCAAAAGTATATCTTAAGGGTATTTTGTAATTTCT-CTAAAATCAAGTCTTAAG
* *
799605 TGGTCACCAAGTCACTTTTATGCCAAAGGTGTGCATTTAGCATAGGTTCA-TCCTTTTAC-TTAT
65 TCGTCACCAAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTT-AGTCCTTTT-CTTTAT
* *
799668 CTTTTTTATGTCCTTTAAGCTTACTAGG
128 CTTTTTCATGTCCTTTAAGGTTACTAGG
* * * *
799696 ATACTTTCACGTCAAAAGTATATCTTAAGGGTATTTTTGTAATTTCTTTATATTCAAGTCTTAAG
1 ATACTTTCATGTCAAAAGTATATCTTAAGGGTA-TTTTGTAATTTCTCTAAAATCAAGTCTTAAG
*
799761 TCGTCA-CAAGGTCACTTTTATGCCAAAGGTGTGCATTTAAGATAGGTTAGTCCTTTTCTTTATC
65 TCGTCACCAA-GTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTAGTCCTTTTCTTTATC
** * * *
799825 TTTTTTGTGTCCGTTAGGGTTAACGA-G
129 TTTTTCATGTCCTTTAAGGTT-ACTAGG
* ** * * * * *
799852 ATACTTTTATGTGGAAGGTATACCCTAGGGGCATTTTGATAATTTCTCTAAAA-CTAAG-CTTTA
1 ATACTTTCATGTCAAAAGTATATCTTAAGGGTATTTTG-TAATTTCTCTAAAATC-AAGTC-TTA
* *** * *
799915 GGTCGTCACTGGGTCACTTTTATACCAAAGGTGTGCATTTAGGATAGGTTCA-TCCTTTT-ATTA
63 AGTCGTCACCAAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTT-AGTCCTTTTCTTTA
* * *
799978 GC-TTTTCATGTCCTTCATGGTTAC
127 TCTTTTTCATGTCCTTTAAGGTTAC
800002 CAAGATATTT
Statistics
Matches: 377, Mismatches: 61, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
151 1 0.00
152 76 0.20
153 49 0.13
154 19 0.05
155 18 0.05
156 208 0.55
157 6 0.02
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (155 bp):
ATACTTTCATGTCAAAAGTATATCTTAAGGGTATTTTGTAATTTCTCTAAAATCAAGTCTTAAGT
CGTCACCAAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTAGTCCTTTTCTTTATCTT
TTTCATGTCCTTTAAGGTTACTAGG
Found at i:801860 original size:47 final size:48
Alignment explanation
Indices: 801767--801856 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
801757 GGCAAGATTG
* * *
801767 ACTATCATGAAACCACTAATTGGATGAAGCCCATAGAGCTTAAAGGCC
1 ACTATCATGAAACCACTAATTAGATGAAGCCCACAGAACTTAAAGGCC
*
801815 ACTATCATGAAACCA-TAATTAGATGAAGTCCACA-AACTTAAA
1 ACTATCATGAAACCACTAATTAGATGAAGCCCACAGAACTTAAA
801857 AGGCTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 7 0.18
47 16 0.42
48 15 0.39
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.22
Consensus pattern (48 bp):
ACTATCATGAAACCACTAATTAGATGAAGCCCACAGAACTTAAAGGCC
Found at i:807688 original size:19 final size:20
Alignment explanation
Indices: 807663--807718 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
807653 TGTATCGATA
**
807663 AATTGTATCGATACATGTTC
1 AATTGTATCGATACATGCAC
* *
807683 -ATTGTATTGATACAAGCAC
1 AATTGTATCGATACATGCAC
807702 AATTGTATCGATACATG
1 AATTGTATCGATACATG
807719 AAATTGGCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
AATTGTATCGATACATGCAC
Found at i:808725 original size:13 final size:13
Alignment explanation
Indices: 808707--808764 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
808697 CATTTTGGGA
808707 TGTATCGATACAT
1 TGTATCGATACAT
808720 TGTATCGATACATCTTGT
1 TGTATCGATACA-----T
808738 GTGTATCGATACAT
1 -TGTATCGATACAT
808752 TGTATCGATACAT
1 TGTATCGATACAT
808765 CTTGTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 25 0.64
14 1 0.03
18 1 0.03
19 12 0.31
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:808744 original size:19 final size:19
Alignment explanation
Indices: 808720--808782 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
808710 ATCGATACAT
808720 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
808739 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
808752 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
808771 TGTATCGATACA
1 TGTATCGATACA
808783 AATAGTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
18 1 0.03
19 24 0.63
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTGTG
Found at i:808748 original size:32 final size:32
Alignment explanation
Indices: 808687--808782 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
808677 TACAAGCCAA
* *
808687 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGTG-TGTATCGATACAT
808720 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
808752 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
808783 AATAGTTAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 44 0.72
33 17 0.28
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:808871 original size:20 final size:21
Alignment explanation
Indices: 808824--808876 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
808814 GCCAATGACC
*
808824 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
808845 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
808865 TGTATCGATACA
1 TGTATCGATACA
808877 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:810783 original size:23 final size:25
Alignment explanation
Indices: 810738--810783 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
810728 TTTGATTGTC
*
810738 CAAACTTAAAGAAGAAAAGCATGAG
1 CAAACTTAAAGAAGAAAACCATGAG
810763 CAAAC-TAAAGAA-AAAACCATG
1 CAAACTTAAAGAAGAAAACCATG
810784 GTAGCGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (25 bp):
CAAACTTAAAGAAGAAAACCATGAG
Found at i:812063 original size:13 final size:13
Alignment explanation
Indices: 812045--812070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
812035 CAATTTTTTG
812045 TGTATCGATACAT
1 TGTATCGATACAT
812058 TGTATCGATACAT
1 TGTATCGATACAT
812071 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:812085 original size:32 final size:33
Alignment explanation
Indices: 812025--812088 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
812015 TACAAGCCAA
** *
812025 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
812058 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
812089 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:812797 original size:21 final size:21
Alignment explanation
Indices: 812754--812799 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
812744 TAATTCACGC
* *
812754 ATTCTCCCCCGTTTATTAATA
1 ATTCTCCCCCGTTAATCAATA
812775 ATTCTCCCCC-TTAATCAAGTA
1 ATTCTCCCCCGTTAATCAA-TA
812796 ATTC
1 ATTC
812800 ATATCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.39
Consensus pattern (21 bp):
ATTCTCCCCCGTTAATCAATA
Found at i:814554 original size:13 final size:13
Alignment explanation
Indices: 814536--814560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814526 ATAATCACCT
814536 TGTATCGATACAA
1 TGTATCGATACAA
814549 TGTATCGATACA
1 TGTATCGATACA
814561 TTGAATTTCC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:818484 original size:21 final size:21
Alignment explanation
Indices: 818455--818499 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
818445 AAGTTTTTAT
*
818455 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
818475 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
818497 TTT
1 TTT
818500 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:818657 original size:15 final size:16
Alignment explanation
Indices: 818633--818665 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
818623 CAATCTTTTG
818633 TTCAAGA-TTTTCAAT
1 TTCAAGATTTTTCAAT
*
818648 TTCAATATTTTTCAAT
1 TTCAAGATTTTTCAAT
818664 TT
1 TT
818666 ATTATCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (16 bp):
TTCAAGATTTTTCAAT
Found at i:820735 original size:13 final size:13
Alignment explanation
Indices: 820717--820742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
820707 CAATTTTTTG
820717 TGTATCGATACAT
1 TGTATCGATACAT
820730 TGTATCGATACAT
1 TGTATCGATACAT
820743 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:820757 original size:32 final size:33
Alignment explanation
Indices: 820697--820760 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
820687 TACAAGCCAA
** *
820697 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
820730 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
820761 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:823448 original size:19 final size:20
Alignment explanation
Indices: 823411--823448 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
823401 TCCTATAGCC
823411 ATGTATCGATACAATTGATA
1 ATGTATCGATACAATTGATA
823431 ATGTATCGATAC-ATTGAT
1 ATGTATCGATACAATTGAT
823449 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTGATA
Found at i:823521 original size:13 final size:13
Alignment explanation
Indices: 823481--823533 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
823471 CCGTTACAAG
823481 CAATGTATCGATA
1 CAATGTATCGATA
823494 CAA--T-TC-AT-
1 CAATGTATCGATA
823502 C-ATGTATCGATA
1 CAATGTATCGATA
823514 CAATGTATCGATA
1 CAATGTATCGATA
*
823527 CATTGTA
1 CAATGTA
823534 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:823521 original size:33 final size:33
Alignment explanation
Indices: 823481--823549 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
823471 CCGTTACAAG
*
823481 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
823514 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
823547 CAA
1 CAA
823550 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:827575 original size:33 final size:33
Alignment explanation
Indices: 827533--827599 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
827523 CGAGAGTTGA
*
827533 TCACTTCACTTTCGCAGCACATGAATGAGAACT
1 TCACTTCACTCTCGCAGCACATGAATGAGAACT
* * *
827566 TCACTTCACTCTCGCAGCATATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGAACT
827599 T
1 T
827600 TAGTGCACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGAGAACT
Found at i:828552 original size:19 final size:19
Alignment explanation
Indices: 828524--828665 Score: 113
Period size: 20 Copynumber: 6.9 Consensus size: 19
828514 TATATCGATA
*
828524 CATTGCATCGATACATGTT
1 CATTGTATCGATACATGTT
* *
828543 CATTGTATCGATACATCTG
1 CATTGTATCGATACATGTT
*
828562 GATGTGTATCGATACATACAAGAGTTTT
1 CAT-TGTATCGATACAT------G--TT
* *
828590 GATTGCATCGATACATGTT
1 CATTGTATCGATACATGTT
*
828609 CATTGTATCGATACATGTA
1 CATTGTATCGATACATGTT
*
828628 CAATTGTATCGATACATGTA
1 C-ATTGTATCGATACATGTT
828648 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
828666 AAATTGGTTG
Statistics
Matches: 103, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
19 37 0.36
20 49 0.48
21 1 0.01
27 12 0.12
28 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:828635 original size:20 final size:20
Alignment explanation
Indices: 828591--828665 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
828581 AAGAGTTTTG
* *
828591 ATTGCATCGATACATGTTC-
1 ATTGTATCGATACATGTACA
828610 ATTGTATCGATACATGTACA
1 ATTGTATCGATACATGTACA
828630 ATTGTATCGATACATGTACA
1 ATTGTATCGATACATGTACA
828650 ATTGTATCGATACATG
1 ATTGTATCGATACATG
828666 AAATTGGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
19 17 0.32
20 36 0.68
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGTACA
Found at i:828738 original size:20 final size:20
Alignment explanation
Indices: 828694--828740 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
828684 CTACCACTAT
*
828694 TTGTATCGATACATGACACA
1 TTGTATCGATACATGACAAA
* *
828714 CTGTATCGATACATGATAAA
1 TTGTATCGATACATGACAAA
828734 TTGTATC
1 TTGTATC
828741 AATATATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGACAAA
Found at i:830765 original size:15 final size:15
Alignment explanation
Indices: 830745--830779 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
830735 TTCTTCCTAT
830745 AAGAAGAAAAAAAAG
1 AAGAAGAAAAAAAAG
*
830760 AAGAAGAAAAAGAAG
1 AAGAAGAAAAAAAAG
830775 AAGAA
1 AAGAA
830780 TAAATCAAAA
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:0.23, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAAAAAG
Found at i:830777 original size:12 final size:12
Alignment explanation
Indices: 830745--830779 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
830735 TTCTTCCTAT
*
830745 AAGAAGAAAAAA
1 AAGAAGAAGAAA
830757 AAGAAGAAGAAA
1 AAGAAGAAGAAA
830769 AAGAAGAAGAA
1 AAGAAGAAGAA
830780 TAAATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:832426 original size:13 final size:13
Alignment explanation
Indices: 832408--832433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832398 TACACCAAGT
832408 ATGTATCGATACA
1 ATGTATCGATACA
832421 ATGTATCGATACA
1 ATGTATCGATACA
832434 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:832431 original size:32 final size:33
Alignment explanation
Indices: 832390--832453 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
832380 TAGCCAAACT
* **
832390 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
832422 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
832454 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:845464 original size:13 final size:13
Alignment explanation
Indices: 845446--845471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
845436 CAATTTTTTG
845446 TGTATCGATACAT
1 TGTATCGATACAT
845459 TGTATCGATACAT
1 TGTATCGATACAT
845472 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:846702 original size:15 final size:15
Alignment explanation
Indices: 846682--846712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
846672 TAAAAATGTC
*
846682 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
846697 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
846712 C
1 C
846713 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:852799 original size:1 final size:1
Alignment explanation
Indices: 852793--852842 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
852783 CCTTCTCTTC
* ** * *
852793 AAAAAAAAAAAAAAAGAGCAAAAAAAAAAAAAAAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
852843 CAAAGGAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:852818 original size:20 final size:20
Alignment explanation
Indices: 852793--852847 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
852783 CCTTCTCTTC
*
852793 AAAAAAAAAAAAAAAGAGCA
1 AAAAAAAAAAAAAAAGAACA
852813 AAAAAAAAAAAAAAA-AACA
1 AAAAAAAAAAAAAAAGAACA
* *
852832 AAAAAACAAAACAAAG
1 AAAAAAAAAAAAAAAG
852848 GAAAGGAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.87, C:0.07, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAGAACA
Found at i:854218 original size:27 final size:27
Alignment explanation
Indices: 854188--854328 Score: 65
Period size: 27 Copynumber: 5.1 Consensus size: 27
854178 GCAGGACACC
854188 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * **
854215 TTTTCCAGTCCTCA-AAG-AGCAGGACA
1 TTTTAAAGCCCACACAAGTTGGTGG-CA
*
854241 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * **
854270 TTTTCCAGTCCTCA-AAG-AGCAGGACA
1 TTTTAAAGCCCACACAAGTTGGTGG-CA
854296 CCTTTTAAAGCCCACACAAGTTGGTGGCA
1 --TTTTAAAGCCCACACAAGTTGGTGGCA
854325 TTTT
1 TTTT
854329 CCAGTCCTCA
Statistics
Matches: 74, Mismatches: 30, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 23 0.31
28 19 0.26
29 10 0.14
30 6 0.08
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:854576 original size:27 final size:27
Alignment explanation
Indices: 854491--854576 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
854481 TTGGTGGCAT
854491 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
854518 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
854546 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
854573 TTTC
1 TTTC
854577 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:854877 original size:29 final size:29
Alignment explanation
Indices: 854734--854877 Score: 110
Period size: 29 Copynumber: 5.2 Consensus size: 29
854724 AAGAGCAGGA
854734 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
854763 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
854788 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
854818 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
854843 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
854873 CACCT
1 CACCT
854878 TTCATTCCCC
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.07
26 16 0.19
27 18 0.21
28 18 0.21
29 21 0.25
30 6 0.07
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:855008 original size:55 final size:55
Alignment explanation
Indices: 853830--854989 Score: 1849
Period size: 55 Copynumber: 21.1 Consensus size: 55
853820 CTCTTTCCAC
*
853830 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
853885 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
853940 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
853995 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854050 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854105 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
854160 CCTTT-CAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
854215 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854270 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854325 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854380 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
854435 CCTTT-CAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
854490 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
854545 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854600 TTTTCCAGTCCTTAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
854655 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
854710 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
854765 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
854820 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
854875 CCTTT-CATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
854930 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
854985 CTTTT
1 -TTTT
854990 TACTCCTCAA
Statistics
Matches: 1047, Mismatches: 45, Indels: 26
0.94 0.04 0.02
Matches are distributed among these distances:
54 14 0.01
55 1016 0.97
56 17 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:860418 original size:1 final size:1
Alignment explanation
Indices: 860412--860467 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
860402 CCTTCTCTTC
* ** * *
860412 AAAAAAAAAAAAAAAAAGAGCAAAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
860468 CAAAGGAAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.91, C:0.05, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:860442 original size:23 final size:23
Alignment explanation
Indices: 860412--860467 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
860402 CCTTCTCTTC
* *
860412 AAAAAAAAAAAAAAAAAGAGCAA
1 AAAAAAAAAAAAAAAAAAAACAA
860435 AAAAAAAAAAAAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAACAA
*
860458 AAAAACAAAA
1 AAAAAAAAAA
860468 CAAAGGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.91, C:0.05, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAAAAACAA
Found at i:861540 original size:55 final size:55
Alignment explanation
Indices: 861455--862798 Score: 1980
Period size: 55 Copynumber: 24.4 Consensus size: 55
861445 CTCTTTCCAC
*
861455 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
861510 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
861565 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
861620 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
861675 TTTTCCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
861730 -TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTC-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
861785 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
861840 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
861895 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
861950 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
862005 -TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTC-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
862060 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
862115 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
862170 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
862225 TTTTCCAGTCCTTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
862280 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
862335 -TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTC-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
862390 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
862445 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
862500 CCTTTCATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * *
862555 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
862610 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
862665 CCTTTCATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * * *
862720 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
862775 CTTTTT-ACTCCTCAATGGGCAGGA
1 -TTTTTCAGTCCTCAAAGAGCAGGA
862799 TACAATTTAT
Statistics
Matches: 1210, Mismatches: 68, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
54 20 0.02
55 1167 0.96
56 23 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (55 bp):
TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:861843 original size:27 final size:27
Alignment explanation
Indices: 861813--861953 Score: 65
Period size: 27 Copynumber: 5.1 Consensus size: 27
861803 GCAGGACACC
861813 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * **
861840 TTTTCCAGTCCTCA-AAG-AGCAGGACA
1 TTTTAAAGCCCACACAAGTTGGTGG-CA
*
861866 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * **
861895 TTTTCCAGTCCTCA-AAG-AGCAGGACA
1 TTTTAAAGCCCACACAAGTTGGTGG-CA
861921 CCTTTTAAAGCCCACACAAGTTGGTGGCA
1 --TTTTAAAGCCCACACAAGTTGGTGGCA
861950 TTTT
1 TTTT
861954 CCAGTCCTCA
Statistics
Matches: 74, Mismatches: 30, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 23 0.31
28 19 0.26
29 10 0.14
30 6 0.08
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:862201 original size:27 final size:27
Alignment explanation
Indices: 862116--862201 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
862106 TTGGTGGCAT
862116 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
862143 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
862171 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
862198 TTTC
1 TTTC
862202 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:863444 original size:21 final size:21
Alignment explanation
Indices: 863418--863493 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
863408 AAAAATTCCA
863418 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
863439 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
863459 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
863480 AATGTATCGATACA
1 AATGTATCGATACA
863494 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 33 0.65
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:863553 original size:19 final size:19
Alignment explanation
Indices: 863529--863596 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
863519 AATTCAACGA
863529 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
863548 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
863563 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
863580 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
863597 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:863567 original size:32 final size:32
Alignment explanation
Indices: 863531--863593 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
863521 TTCAACGATT
*
863531 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
863563 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
863594 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:863568 original size:13 final size:13
Alignment explanation
Indices: 863550--863574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863540 ACATAAGTTT
863550 TGTATCGATACAA
1 TGTATCGATACAA
863563 TGTATCGATACA
1 TGTATCGATACA
863575 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:863654 original size:13 final size:13
Alignment explanation
Indices: 863636--863661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
863626 CATTTTTTTG
863636 TGTATCGATACAT
1 TGTATCGATACAT
863649 TGTATCGATACAT
1 TGTATCGATACAT
863662 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:866133 original size:54 final size:51
Alignment explanation
Indices: 866000--866133 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
865990 CTGAGTTTCT
* * *
866000 CAATTCTCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
* * * *
866051 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC--AAAACAC
866104 CAATTTCTTCACAATCGGGGATACTCCAAC
1 CAA-TTCTTCACAATCGGGGATACTCCAAC
866134 CCCGTTGATC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.03
51 35 0.51
53 8 0.12
54 21 0.30
55 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
Found at i:866187 original size:28 final size:27
Alignment explanation
Indices: 866117--866192 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
866107 TTTCTTCACA
866117 ATCGGGGATACTCCAACCCCGTTGATC
1 ATCGGGGATACTCCAACCCCGTTGATC
866144 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTGATC
*
866169 TTCCGAGGGGATACTCCAACCCCG
1 AT-C--GGGGATACTCCAACCCCG
866193 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 23 0.51
28 18 0.40
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTGATC
Found at i:866294 original size:52 final size:51
Alignment explanation
Indices: 866008--866396 Score: 218
Period size: 52 Copynumber: 7.4 Consensus size: 51
865998 CTCAATTCTC
* * * *
866008 CACAATCGGGGATATTCCAACTCCAATTTTATTT-TCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTT
* * * *
866058 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTT-C-TAAAACACCAATTT-TT
* * ** **
866113 CACAATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--TTAT------TTCTAAAACACCAATT-TTT
* * * * ***
866171 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT
* * * * * *
866219 CATAATCGGGGATATTTCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT
* * *
866270 CCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCGAAACACCAATTTTC
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTT
** * * * *
866322 CTTTAATTGGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCAATTTTT
* *
866375 CACAGTCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
866397 TTGTTATTTC
Statistics
Matches: 253, Mismatches: 61, Indels: 48
0.70 0.17 0.13
Matches are distributed among these distances:
48 8 0.03
49 3 0.01
50 1 0.00
51 67 0.26
52 82 0.32
53 26 0.10
54 27 0.11
55 24 0.09
56 1 0.00
57 2 0.01
58 7 0.03
59 3 0.01
60 1 0.00
61 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT
Found at i:866416 original size:28 final size:28
Alignment explanation
Indices: 866384--866455 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
866374 TCACAGTCGA
** * **
866384 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
866412 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
866440 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
866456 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:866473 original size:263 final size:263
Alignment explanation
Indices: 866006--866506 Score: 774
Period size: 263 Copynumber: 1.9 Consensus size: 263
865996 TTCTCAATTC
* * *
866006 TCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
866071 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
866136 CGTTGATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * * *
866201 TCCAAAATATTGATTTTTCATAATCGGGGATATTTCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
866266 TTT
261 TTT
** * * *
866269 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATTGGGG
1 TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
866334 ATACTCCAACTCCGATTTTATTTTC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAACC
** *
866397 TTGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
130 CCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
866461 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
866507 TTATTTTCGA
Statistics
Matches: 215, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
261 1 0.00
262 25 0.12
263 155 0.72
264 34 0.16
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:866588 original size:78 final size:79
Alignment explanation
Indices: 866409--866611 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 79
866399 GTTATTTCAT
* * *
866409 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
866474 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
866488 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
866551 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
866566 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
866612 ATTATTATCT
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 3 0.03
78 60 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:868601 original size:13 final size:13
Alignment explanation
Indices: 868583--868608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
868573 ACATTTTTCT
868583 TTGTATCGATACA
1 TTGTATCGATACA
868596 TTGTATCGATACA
1 TTGTATCGATACA
868609 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:870406 original size:18 final size:18
Alignment explanation
Indices: 870383--870427 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 18
870373 AGGGGGAGAG
870383 AATAAATGCATGTGTGCA
1 AATAAATGCATGTGTGCA
870401 AATAAATTTGCATGTGTGCA
1 AATAAA--TGCATGTGTGCA
870421 AATAAAT
1 AATAAAT
870428 TTTTGATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
20 18 0.72
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (18 bp):
AATAAATGCATGTGTGCA
Found at i:870432 original size:22 final size:20
Alignment explanation
Indices: 870389--870429 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
870379 AGAGAATAAA
870389 TGCATGTGTGCAAATAAATT
1 TGCATGTGTGCAAATAAATT
870409 TGCATGTGTGCAAATAAATT
1 TGCATGTGTGCAAATAAATT
870429 T
1 T
870430 TTGATATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TGCATGTGTGCAAATAAATT
Found at i:871193 original size:13 final size:13
Alignment explanation
Indices: 871175--871200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
871165 TACACCAAGT
871175 ATGTATCGATACA
1 ATGTATCGATACA
871188 ATGTATCGATACA
1 ATGTATCGATACA
871201 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:871198 original size:32 final size:33
Alignment explanation
Indices: 871157--871220 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
871147 TAACCAAACT
**
871157 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
871189 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
871221 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:876746 original size:37 final size:37
Alignment explanation
Indices: 876704--876787 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
876694 AATTAAATTC
*
876704 CTAACTTTTA-AGAAACTTGTTTTAAATAGGACATTAT
1 CTAACTTTTATA-AAACTTGTCTTAAATAGGACATTAT
* ** * *
876741 CTAACTTTTATATAGTTTGTCTTAATTAGGATATTAT
1 CTAACTTTTATAAAACTTGTCTTAAATAGGACATTAT
876778 CTAACTTTTA
1 CTAACTTTTA
876788 GATAATTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (37 bp):
CTAACTTTTATAAAACTTGTCTTAAATAGGACATTAT
Found at i:879437 original size:18 final size:18
Alignment explanation
Indices: 879414--879448 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
879404 ATTAATCAAT
*
879414 TATGAAAAGATTGCTAAA
1 TATGAAAAGACTGCTAAA
879432 TATGAAAAGACTGCTAA
1 TATGAAAAGACTGCTAA
879449 TTAATTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (18 bp):
TATGAAAAGACTGCTAAA
Found at i:881261 original size:19 final size:19
Alignment explanation
Indices: 881211--881261 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
881201 GATTAGTTCT
881211 AAAA-AAATATTTTTGAAA
1 AAAATAAATATTTTTGAAA
* *
881229 AATATAAAGT-TTTTTTAAA
1 AAAATAAA-TATTTTTGAAA
881248 AAAATAAATATTTT
1 AAAATAAATATTTT
881262 CTAATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.15
19 22 0.81
20 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
AAAATAAATATTTTTGAAA
Found at i:881377 original size:23 final size:22
Alignment explanation
Indices: 881351--881404 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
881341 ATATTGACAT
*
881351 AAATATTAAATTATTAATTATTA
1 AAATATTAAAATATTAA-TATTA
* *
881374 AAATATCAAAATATTAATATTT
1 AAATATTAAAATATTAATATTA
*
881396 TAATATTAA
1 AAATATTAA
881405 TATTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATTAAAATATTAATATTA
Found at i:881400 original size:14 final size:14
Alignment explanation
Indices: 881383--881446 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
881373 AAAATATCAA
881383 AATATTAATATTTT
1 AATATTAATATTTT
*
881397 AATATTAATATTTC
1 AATATTAATATTTT
*
881411 AATTAATAATATTTT
1 AA-TATTAATATTTT
*
881426 AATCA-TAATA-TAT
1 AAT-ATTAATATTTT
881439 AATATTAA
1 AATATTAA
881447 ATACTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.02
13 8 0.19
14 21 0.49
15 13 0.30
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:881642 original size:21 final size:21
Alignment explanation
Indices: 881618--881658 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
881608 CTATTTACAA
*
881618 TTAAACTATTAATTTTTAATC
1 TTAAACTAGTAATTTTTAATC
*
881639 TTAAAGTAGTAATTTTTAAT
1 TTAAACTAGTAATTTTTAAT
881659 AATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
TTAAACTAGTAATTTTTAATC
Found at i:881982 original size:18 final size:18
Alignment explanation
Indices: 881959--882017 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
881949 TCACAATTTA
881959 TTATTAAAATATAATATT
1 TTATTAAAATATAATATT
881977 TTATT--AA-ATAATATTT
1 TTATTAAAATATAATA-TT
881993 TTATTAAAATAATAA-ATT
1 TTATTAAAAT-ATAATATT
*
882011 ATATTAA
1 TTATTAA
882018 TAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
15 6 0.17
16 9 0.26
18 15 0.43
19 1 0.03
20 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATTAAAATATAATATT
Found at i:882011 original size:29 final size:34
Alignment explanation
Indices: 881953--882047 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 34
881943 ATAATGTCAC
**
881953 AATTTATTATTAAAATATAAT-ATTTTATTAAATAAT
1 AATTTATTATTAAAATA-AATAAGATTA-T-AATAAT
*
881989 -ATTT-TTATTAAAAT-AATAA-ATTATATTAAT
1 AATTTATTATTAAAATAAATAAGATTATAATAAT
882019 AATTTATTATTAAAATAAATAAGATTATA
1 AATTTATTATTAAAATAAATAAGATTATA
882048 TTATTAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
30 5 0.10
31 5 0.10
32 16 0.31
33 6 0.12
34 16 0.31
35 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (34 bp):
AATTTATTATTAAAATAAATAAGATTATAATAAT
Found at i:882035 original size:16 final size:16
Alignment explanation
Indices: 881953--882036 Score: 66
Period size: 16 Copynumber: 5.1 Consensus size: 16
881943 ATAATGTCAC
881953 AATTTATTATTAAAATAT
1 AATTTATTATT-AAA-AT
881971 AATATT-TTATT-AAAT
1 AAT-TTATTATTAAAAT
*
881986 AATATTTTTATTAAAAT
1 AAT-TTATTATTAAAAT
** *
882003 AATAAATTA-TATTAAT
1 AATTTATTATTA-AAAT
882019 AATTTATTATTAAAAT
1 AATTTATTATTAAAAT
882035 AA
1 AA
882037 ATAAGATTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
15 10 0.19
16 25 0.46
17 9 0.17
18 8 0.15
19 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTATTATTAAAAT
Found at i:882046 original size:34 final size:32
Alignment explanation
Indices: 881953--882050 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 32
881943 ATAATGTCAC
*
881953 AATTTATTATTAAAAT-ATAATATTTTATTAAAT
1 AATTTATTATTAAAATAATAA-ATTATATT-AAT
*
881986 AATATTTTTATTAAAATAATAAATTATATTAAT
1 AAT-TTATTATTAAAATAATAAATTATATTAAT
882019 AATTTATTATTAAAATAAATAAGATTATATTA
1 AATTTATTATTAAAAT-AATAA-ATTATATTA
882051 TTAAAATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
32 12 0.21
33 14 0.24
34 28 0.48
35 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
AATTTATTATTAAAATAATAAATTATATTAAT
Found at i:884526 original size:3 final size:3
Alignment explanation
Indices: 884518--884552 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
884508 AACCATCAAA
884518 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
884553 GGTTGACGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:891554 original size:19 final size:19
Alignment explanation
Indices: 891505--891555 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
891495 CACACCTAGA
891505 TGTATCGATACATATTGCT
1 TGTATCGATACATATTGCT
* *
891524 TAGTATCAATACATGTT-CT
1 T-GTATCGATACATATTGCT
891543 CTGTATCGATACA
1 -TGTATCGATACA
891556 CCATAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATATTGCT
Found at i:891744 original size:20 final size:19
Alignment explanation
Indices: 891719--891757 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
891709 TTTCAAATAC
*
891719 ATTGTATTGATACATTATGA
1 ATTGTATCGATACA-TATGA
891739 ATTGTATCGATACATATGA
1 ATTGTATCGATACATATGA
891758 GCGGTATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTGTATCGATACATATGA
Found at i:894449 original size:16 final size:16
Alignment explanation
Indices: 894428--894526 Score: 105
Period size: 16 Copynumber: 6.2 Consensus size: 16
894418 TAATTATTCA
894428 AATCATTTCGAGTTCG
1 AATCATTTCGAGTTCG
894444 AATCATTTC-AGATTCG
1 AATCATTTCGAG-TTCG
894460 AATCATTTCGAGTTCG
1 AATCATTTCGAGTTCG
* * *
894476 GAT-AATTCTGAATTCG
1 AATCATTTC-GAGTTCG
894492 AATCATTTCGAGTTC-
1 AATCATTTCGAGTTCG
* *
894507 AGATCATTGCGAATTCG
1 A-ATCATTTCGAGTTCG
894524 AAT
1 AAT
894527 TGTTGACTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
15 7 0.10
16 55 0.80
17 7 0.10
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (16 bp):
AATCATTTCGAGTTCG
Found at i:894469 original size:32 final size:33
Alignment explanation
Indices: 894423--894526 Score: 126
Period size: 32 Copynumber: 3.2 Consensus size: 33
894413 CAAATTAATT
*
894423 ATTCAAATCATTTCGAGTTCGAATCATTTCAG-
1 ATTCGAATCATTTCGAGTTCGAATCATTTCAGA
* * *
894455 ATTCGAATCATTTCGAGTTCGGAT-AATTCTGA
1 ATTCGAATCATTTCGAGTTCGAATCATTTCAGA
*
894487 ATTCGAATCATTTCGAGTTC-AGATCATTGC-GA
1 ATTCGAATCATTTCGAGTTCGA-ATCATTTCAGA
894519 ATTCGAAT
1 ATTCGAAT
894527 TGTTGACTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
31 5 0.08
32 54 0.87
33 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
ATTCGAATCATTTCGAGTTCGAATCATTTCAGA
Found at i:901677 original size:41 final size:41
Alignment explanation
Indices: 901617--901878 Score: 150
Period size: 41 Copynumber: 6.1 Consensus size: 41
901607 AGTGGAGACC
* * *
901617 TTTAGCAGCATTTTTAAAATAAACGCCGCTAATAAAAAAAA
1 TTTAGCGGCGTTTTAAAAATAAACGCCGCTAATAAAAAAAA
** *
901658 TTTAGCGGCGTTTTAAAAATAAACGTTGCTAATAAAAACAA
1 TTTAGCGGCGTTTTAAAAATAAACGCCGCTAATAAAAAAAA
* * * * * ** **
901699 TTTAGCAGCGTTTTTAATACAAACACTACTAATAGGAAAAA
1 TTTAGCGGCGTTTTAAAAATAAACGCCGCTAATAAAAAAAA
* * * **
901740 TTTAGCGGCGTTGTT-AATACAAACGTCGCTAATAGGAAAAA
1 TTTAGCGGCGTT-TTAAAAATAAACGCCGCTAATAAAAAAAA
* * *
901781 TTTAGAGACGTTTTTAATACAAACGCATTAAAAACGCCGCTAATAGAAAAAA
1 TTTAGCGGCG--TTT--TA-AAA---A-T--AAACGCCGCTAATAAAAAAAA
** *
901833 TTTAGCGGCG-TTTAATGTAGAAACGCCGCTAATAGAAAAAAA
1 TTTAGCGGCGTTTTAA-AAATAAACGCCGCTAATA-AAAAAAA
901875 TTTA
1 TTTA
901879 ATGACGTTCA
Statistics
Matches: 173, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
41 121 0.70
42 13 0.08
43 2 0.01
44 2 0.01
46 3 0.02
47 2 0.01
49 3 0.02
52 27 0.16
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAAAAATAAACGCCGCTAATAAAAAAAA
Found at i:901713 original size:82 final size:82
Alignment explanation
Indices: 901617--901806 Score: 224
Period size: 82 Copynumber: 2.3 Consensus size: 82
901607 AGTGGAGACC
* * * * *
901617 TTTAGCAGCATTTTTAAAATAAACGCCGCTAATAAAAAAAATTTAGCGGCGTT-TTAAAAATAAA
1 TTTAGCAGCGTTTTTAATACAAACGCCACTAATAAAAAAAATTTAGCGGCGTTGTT-AAAACAAA
*
901681 CGTTGCTAATA-AAAACAA
65 CGTCGCTAATAGAAAA-AA
* * ** *
901699 TTTAGCAGCGTTTTTAATACAAACACTACTAATAGGAAAAATTTAGCGGCGTTGTTAATACAAAC
1 TTTAGCAGCGTTTTTAATACAAACGCCACTAATAAAAAAAATTTAGCGGCGTTGTTAAAACAAAC
*
901764 GTCGCTAATAGGAAAAA
66 GTCGCTAATAGAAAAAA
901781 TTTAG-AGACGTTTTTAATACAAACGC
1 TTTAGCAG-CGTTTTTAATACAAACGC
901807 ATTAAAAACG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
81 2 0.02
82 85 0.92
83 5 0.05
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (82 bp):
TTTAGCAGCGTTTTTAATACAAACGCCACTAATAAAAAAAATTTAGCGGCGTTGTTAAAACAAAC
GTCGCTAATAGAAAAAA
Found at i:906520 original size:16 final size:16
Alignment explanation
Indices: 906491--906542 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
906481 AAGATTATAT
906491 TTATTCATTTTATTTTGA
1 TTATT-ATTTTATTTT-A
*
906509 TTATTA-TTTATTTAA
1 TTATTATTTTATTTTA
*
906524 TTTTTATTTTATTTTA
1 TTATTATTTTATTTTA
906540 TTA
1 TTA
906543 AAAATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 1 0.03
18 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTATTTTATTTTA
Done.