Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 5 of 25
Found at i:671659 original size:105 final size:103
Alignment explanation
Indices: 671458--671660 Score: 255
Period size: 104 Copynumber: 2.0 Consensus size: 103
671448 CGTTGGCACT
* * * * * *
671458 CTTGTCATATTTAAATCTAATTCACTATCCTTGAATCAGCATATTGGTACCTTTATTATCTTTAG
1 CTTGTCATATTTAAATCCAATTCACTAGCCTTGAACCAGCATATTGGCACCTTCATCATCTTTAG
*
671523 ATCTAATATCACTAGCCTTGAATAAGCATATTGACATA
66 ATCCAATATCACTAGCCTTGAATAAGCATATTGACATA
* * *
671561 CTTGTCAT-TTGTAAATCCAATATCGCTAGCCTTGAACCATCATATTGGCACCTTCGTCATCTTT
1 CTTGTCATATT-TAAATCCAAT-TCACTAGCCTTGAACCAGCATATTGGCACCTTCATCATCTTT
* * *
671625 AAGATCCAATATCGCTAGCCTTGAATCAGTATATTG
64 -AGATCCAATATCACTAGCCTTGAATAAGCATATTG
671661 GCACTTTAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
102 2 0.02
103 17 0.20
104 34 0.40
105 31 0.37
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (103 bp):
CTTGTCATATTTAAATCCAATTCACTAGCCTTGAACCAGCATATTGGCACCTTCATCATCTTTAG
ATCCAATATCACTAGCCTTGAATAAGCATATTGACATA
Found at i:672619 original size:49 final size:50
Alignment explanation
Indices: 672562--672721 Score: 164
Period size: 52 Copynumber: 3.2 Consensus size: 50
672552 AAAATTAATT
* * * *
672562 GATACATTTTTTATTGTAAT-GATATATTCTAG-TTTGATCTAAATGTATC
1 GATACATTTTTCATT-TAATCGATACATTCTAGTTTTGACCCAAATGTATC
*
672611 GATACATTTTTCATTTTATCGATACATTCTAGATTTTTGACCCAAATGTATC
1 GATACATTTTTCATTTAATCGATACATTCTAG--TTTTGACCCAAATGTATC
* * * * *
672663 GATACATTATTCA-TTATATCGCTACATTCTAGGTTTTGACCTATATTTATC
1 GATACATTTTTCATTTA-ATCGATACATTCTA-GTTTTGACCCAAATGTATC
672714 GATACATT
1 GATACATT
672722 CTTTAATGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
48 3 0.03
49 25 0.27
51 25 0.27
52 40 0.43
53 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (50 bp):
GATACATTTTTCATTTAATCGATACATTCTAGTTTTGACCCAAATGTATC
Found at i:672646 original size:20 final size:20
Alignment explanation
Indices: 672607--672647 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
672597 GATCTAAATG
* *
672607 TATCGATACATTTTTCATTT
1 TATCGATACATTCTACATTT
*
672627 TATCGATACATTCTAGATTT
1 TATCGATACATTCTACATTT
672647 T
1 T
672648 TGACCCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (20 bp):
TATCGATACATTCTACATTT
Found at i:672721 original size:51 final size:52
Alignment explanation
Indices: 672602--672721 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 52
672592 AGTTTGATCT
* * *
672602 AAATGTATCGATACATTTTTCATTTTATCGATACATTCTAGATTTTTGACCC
1 AAATGTATCGATACATTATTCATTATATCGATACATTCTAGAGTTTTGACCC
* *
672654 AAATGTATCGATACATTATTCATTATATCGCTACATTCTAG-GTTTTGACCT
1 AAATGTATCGATACATTATTCATTATATCGATACATTCTAGAGTTTTGACCC
* *
672705 ATATTTATCGATACATT
1 AAATGTATCGATACATT
672722 CTTTAATGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 23 0.38
52 38 0.62
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATTATATCGATACATTCTAGAGTTTTGACCC
Found at i:672740 original size:51 final size:51
Alignment explanation
Indices: 672602--672740 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 51
672592 AGTTTGATCT
* *
672602 AAATGTATCGATACATTTTTCATTTTATCGATACATTCTAGATTTTTGACCC
1 AAATGTATCGATACATTTTT-ATTATATCGATACATTCTAGAGTTTTGACCC
* * *
672654 AAATGTATCGATACATTATTCATTATATCGCTACATTCTAG-GTTTTGACCT
1 AAATGTATCGATACATT-TTTATTATATCGATACATTCTAGAGTTTTGACCC
* * * * *
672705 ATATTTATCGATACATTCTTTAATGTATCAATACAT
1 AAATGTATCGATACATT-TTTATTATATCGATACAT
672741 CCAGTTAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 36 0.49
52 35 0.48
53 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTTTTATTATATCGATACATTCTAGAGTTTTGACCC
Found at i:673321 original size:30 final size:31
Alignment explanation
Indices: 673259--673333 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
673249 CATTATTCGT
* *
673259 TGTATCGATACATTTTAGGTTTTTACCAAGA
1 TGTATCGATACATTCTAGGATTTTACCAAGA
673290 TGTATCGATACATTCTA-GATTTTAGCC-AGA
1 TGTATCGATACATTCTAGGATTTTA-CCAAGA
673320 TGTATCGATACATT
1 TGTATCGATACATT
673334 ATTCAATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.56
31 18 0.44
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (31 bp):
TGTATCGATACATTCTAGGATTTTACCAAGA
Found at i:674279 original size:20 final size:21
Alignment explanation
Indices: 674242--674280 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
674232 AGCCCATGTC
674242 CATGCATTTTGAGCTATGTTT
1 CATGCATTTTGAGCTATGTTT
*
674263 CATGCATTTTTAG-TATGT
1 CATGCATTTTGAGCTATGT
674281 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (21 bp):
CATGCATTTTGAGCTATGTTT
Found at i:678692 original size:25 final size:25
Alignment explanation
Indices: 678662--678739 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
678652 ATTCATAATC
678662 AATTTTCTTCATAAAAAAATTATCA
1 AATTTTCTTCATAAAAAAATTATCA
* * ***** *
678687 AATTTTATCCAT--CGGGGTAATC-
1 AATTTTCTTCATAAAAAAATTATCA
678709 AATTTTCTTCATAAAAAAATTATCA
1 AATTTTCTTCATAAAAAAATTATCA
678734 AATTTT
1 AATTTT
678740 ATCCATTGGG
Statistics
Matches: 34, Mismatches: 16, Indels: 6
0.61 0.29 0.11
Matches are distributed among these distances:
22 10 0.29
23 4 0.12
24 4 0.12
25 16 0.47
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (25 bp):
AATTTTCTTCATAAAAAAATTATCA
Found at i:678717 original size:47 final size:47
Alignment explanation
Indices: 678657--678750 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
678647 TCCTTATTCA
678657 TAATCAATTTTCTTCATAAAAAAATTATCAAATTTTATCCATCGGGG
1 TAATCAATTTTCTTCATAAAAAAATTATCAAATTTTATCCATCGGGG
*
678704 TAATCAATTTTCTTCATAAAAAAATTATCAAATTTTATCCATTGGGG
1 TAATCAATTTTCTTCATAAAAAAATTATCAAATTTTATCCATCGGGG
678751 ATACTCCAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (47 bp):
TAATCAATTTTCTTCATAAAAAAATTATCAAATTTTATCCATCGGGG
Found at i:680352 original size:166 final size:166
Alignment explanation
Indices: 680044--680353 Score: 381
Period size: 166 Copynumber: 1.9 Consensus size: 166
680034 GCATCATGCA
* * *
680044 TCTTTCATATCAGAAGGAATCTCATTCCTATCAACAGTCTATGCATTAATCACATTTATTTCAAA
1 TCTTTCATATCAGAAAGAATCTCATTCCCATCAACAATCTATGCATTAATCACATTTATTTCAAA
* * * * *
680109 ATAAAATCCATACATTAGTCTCATCTTTCGAATTCCAATCCATGAATTAGTCTATTCTTTGTAGT
66 ACAAAATCCATACATTAGTCTCATCTTTCAAACTCCAATCCATGAATTAGTCTATTCCTTATAGT
*
680174 CTAACCTTTACAATCTATGCATTAGTCTTATTAACT
131 CTAACATTTACAATCTATGCATTAGTCTTATTAACT
* * * * * * *
680210 TCTTTCATATTAGAAAGAATCTGATTCCCATTAAGAATGTATGCATTTATCATATTTA-TTCACA
1 TCTTTCATATCAGAAAGAATCTCATTCCCATCAACAATCTATGCATTAATCACATTTATTTCA-A
* * * * *
680274 AACAAAATCCATGCATTAGATCT-ATCTTTCAAACTCTAATCTATGCATTAGTCTATTCCTTATT
65 AACAAAATCCATACATTAG-TCTCATCTTTCAAACTCCAATCCATGAATTAGTCTATTCCTTATA
* *
680338 GTTTGACATTTACAAT
129 GTCTAACATTTACAAT
680354 TGTAGATACC
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
165 4 0.03
166 112 0.94
167 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.40
Consensus pattern (166 bp):
TCTTTCATATCAGAAAGAATCTCATTCCCATCAACAATCTATGCATTAATCACATTTATTTCAAA
ACAAAATCCATACATTAGTCTCATCTTTCAAACTCCAATCCATGAATTAGTCTATTCCTTATAGT
CTAACATTTACAATCTATGCATTAGTCTTATTAACT
Found at i:680687 original size:20 final size:20
Alignment explanation
Indices: 680650--680703 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
680640 TTTTACAATT
680650 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
680671 TGTATCAATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
680691 TGTATCGATACAT
1 TGTATCGATACAT
680704 GTCTCAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:684382 original size:39 final size:39
Alignment explanation
Indices: 684339--684453 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
684329 TTTGACTTTT
* *
684339 AATAAAAAATTTATATATTAGTCATATCTTTTAGATTCC
1 AATAAAAAATCTATACATTAGTCATATCTTTTAGATTCC
* * * * * * *
684378 AATAAATAATCTACACATTACTAATATCTTTCAAAATCC
1 AATAAAAAATCTATACATTAGTCATATCTTTTAGATTCC
* * *
684417 AATAAAAAATCCATGCATTAGTCATAGCTTTTAGATT
1 AATAAAAAATCTATACATTAGTCATATCTTTTAGATT
684454 TTACTTAACC
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (39 bp):
AATAAAAAATCTATACATTAGTCATATCTTTTAGATTCC
Found at i:687078 original size:57 final size:56
Alignment explanation
Indices: 686946--687130 Score: 178
Period size: 57 Copynumber: 3.2 Consensus size: 56
686936 TTCTTAGGTT
* * * * * *
686946 ATGAAAAATGACTTAAAT-ATCTCTAAAATATATGAAATTACATAACAGTCCTTAGATC
1 ATGAAAAATAACCTAAATGA-CCCTAACATACATGAAATTGCATAA-AGTCCTT-GATC
* ** *
687004 ATGGAAAATGGCCTAAATGAACCC-AACATACATGAAATTGTATAAAGT-CTCTGTATC
1 ATGAAAAATAACCTAAATG-ACCCTAACATACATGAAATTGCATAAAGTCCT-TG-ATC
* *
687061 ATGAACAATAACCTAAATGACCCTAACATGCATGAAATTGCATAAAGTCCTTGATC
1 ATGAAAAATAACCTAAATGACCCTAACATACATGAAATTGCATAAAGTCCTTGATC
*
687117 ATGAAAAATGACCT
1 ATGAAAAATAACCT
687131 TAAAATGCAG
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
56 22 0.21
57 46 0.44
58 34 0.32
59 2 0.02
60 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (56 bp):
ATGAAAAATAACCTAAATGACCCTAACATACATGAAATTGCATAAAGTCCTTGATC
Found at i:688079 original size:12 final size:12
Alignment explanation
Indices: 688058--688101 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
688048 AGAAAATCTA
688058 TTTTCTTTTCTT
1 TTTTCTTTTCTT
*
688070 TTTTCCTTTC-T
1 TTTTCTTTTCTT
688081 TTTTCTTTTTCTT
1 TTTTC-TTTTCTT
688094 TTTT-TTTT
1 TTTTCTTTT
688102 AGTTTTTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 13 0.46
13 5 0.18
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:688091 original size:17 final size:17
Alignment explanation
Indices: 688059--688099 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
688049 GAAAATCTAT
688059 TTTC-TTTTCTTTTTTCC
1 TTTCTTTTTCTTTTTT-C
688076 TTTCTTTTTC-TTTTTC
1 TTTCTTTTTCTTTTTTC
688092 TTT-TTTTT
1 TTTCTTTTT
688100 TTAGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 9 0.39
18 5 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTCTTTTTTC
Found at i:688101 original size:17 final size:18
Alignment explanation
Indices: 688058--688100 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
688048 AGAAAATCTA
*
688058 TTTTCTTTTCTTTTTTCC
1 TTTTTTTTTCTTTTTTCC
*
688076 TTTCTTTTTC-TTTTT-C
1 TTTTTTTTTCTTTTTTCC
688092 TTTTTTTTT
1 TTTTTTTTT
688101 TAGTTTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTCC
Found at i:690353 original size:22 final size:22
Alignment explanation
Indices: 690328--690380 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
690318 ATTTTTACTA
690328 GAAAACATTCGATTTAAGGCTT
1 GAAAACATTCGATTTAAGGCTT
**
690350 GAAAACATTCGATTTAAGTTTT
1 GAAAACATTCGATTTAAGGCTT
690372 GAAAACATT
1 GAAAACATT
690381 ATTGATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (22 bp):
GAAAACATTCGATTTAAGGCTT
Found at i:690921 original size:45 final size:46
Alignment explanation
Indices: 690872--690966 Score: 165
Period size: 45 Copynumber: 2.1 Consensus size: 46
690862 CCCTTAATAC
* *
690872 TTAATAACTACTCCCCCTTTTTGTTATCCCTCTTATTTTAAAC-AA
1 TTAATAACTACTCCCCCATTTTGTTATCCCTCTCATTTTAAACAAA
690917 TTAATAACTACTCCCCCATTTTGTTATCCCTCTCATTTTAAACAAA
1 TTAATAACTACTCCCCCATTTTGTTATCCCTCTCATTTTAAACAAA
690963 TTAA
1 TTAA
690967 CAAATTTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 41 0.87
46 6 0.13
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.42
Consensus pattern (46 bp):
TTAATAACTACTCCCCCATTTTGTTATCCCTCTCATTTTAAACAAA
Found at i:694691 original size:41 final size:41
Alignment explanation
Indices: 694634--694712 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
694624 TAATGTATCC
694634 ATACTAGTCACAATGTATCGATACATGAACAGTGATGATCA
1 ATACTAGTCACAATGTATCGATACATGAACAGTGATGATCA
*
694675 ATACTATTCACAATGTATCGATACATGAACAGTGATGA
1 ATACTAGTCACAATGTATCGATACATGAACAGTGATGA
694713 ATAGTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (41 bp):
ATACTAGTCACAATGTATCGATACATGAACAGTGATGATCA
Found at i:694766 original size:13 final size:13
Alignment explanation
Indices: 694748--694772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
694738 TACCAGTTTT
694748 ATGTATCGATACA
1 ATGTATCGATACA
694761 ATGTATCGATAC
1 ATGTATCGATAC
694773 TAATCAAAGT
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):
ATGTATCGATACA
Found at i:695222 original size:13 final size:13
Alignment explanation
Indices: 695204--695229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
695194 TACAGCAAGT
695204 ATGTATCGATACA
1 ATGTATCGATACA
695217 ATGTATCGATACA
1 ATGTATCGATACA
695230 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:697486 original size:21 final size:21
Alignment explanation
Indices: 697448--697492 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
697438 TTGCAAGTTG
*
697448 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
697470 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
697490 AAA
1 AAA
697493 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:699316 original size:15 final size:15
Alignment explanation
Indices: 699296--699326 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
699286 TAAAAATGTC
*
699296 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
699311 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
699326 C
1 C
699327 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:701368 original size:20 final size:20
Alignment explanation
Indices: 701342--701419 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
701332 AATGTCCAAA
701342 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
701362 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
701387 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
701407 TTGTATCGATACA
1 ATGTATCGATACA
701420 CTGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:701426 original size:13 final size:13
Alignment explanation
Indices: 701408--701432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
701398 CATTTTTCTT
701408 TGTATCGATACAC
1 TGTATCGATACAC
701421 TGTATCGATACA
1 TGTATCGATACA
701433 GGGTGATTAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:708209 original size:13 final size:13
Alignment explanation
Indices: 708191--708216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
708181 CAATTTTTTG
708191 TGTATCGATACAT
1 TGTATCGATACAT
708204 TGTATCGATACAT
1 TGTATCGATACAT
708217 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:708302 original size:20 final size:20
Alignment explanation
Indices: 708277--708349 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
708267 ATCTTTTTTT
708277 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
708297 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
708318 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
708338 ATGTATCGATAC
1 ATGTATCGATAC
708350 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:708328 original size:41 final size:42
Alignment explanation
Indices: 708255--708349 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
708245 CTGCCAAGAA
*
708255 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
708297 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
708338 ATGTATCGATAC
1 ATGTATCGATAC
708350 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:708987 original size:16 final size:16
Alignment explanation
Indices: 708956--709001 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
708946 CTCTCCTTTG
708956 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
708974 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
708990 TCTCCCCCTTAA
1 TCTCCCCCTTAA
709002 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:710825 original size:13 final size:13
Alignment explanation
Indices: 710807--710845 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
710797 ATAATCACCC
*
710807 TGTATCGATACAG
1 TGTATCGATACAA
710820 TGTATCGATACAA
1 TGTATCGATACAA
710833 TGTATCGATACAA
1 TGTATCGATACAA
710846 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:710856 original size:20 final size:20
Alignment explanation
Indices: 710831--710909 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
710821 GTATCGATAC
710831 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
710851 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
710876 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
710895 ACATGTATCGATACA
1 A-ATGTATCGATACA
710910 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:712961 original size:15 final size:15
Alignment explanation
Indices: 712925--712962 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
712915 TACATCAATT
* *
712925 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
712940 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
712955 TCATTTTG
1 TCATTTTG
712963 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:717042 original size:13 final size:13
Alignment explanation
Indices: 717024--717049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
717014 CAATTTTTTG
717024 TGTATCGATACAT
1 TGTATCGATACAT
717037 TGTATCGATACAT
1 TGTATCGATACAT
717050 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:717135 original size:20 final size:20
Alignment explanation
Indices: 717110--717182 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
717100 ATCTTTTTTT
717110 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
717130 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
717151 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
717171 ATGTATCGATAC
1 ATGTATCGATAC
717183 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:717161 original size:41 final size:42
Alignment explanation
Indices: 717088--717182 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
717078 CTGCCAAGAA
*
717088 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
717130 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
717171 ATGTATCGATAC
1 ATGTATCGATAC
717183 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:718861 original size:11 final size:11
Alignment explanation
Indices: 718845--718869 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
718835 GTACAGTTGG
718845 AATATTTCAAA
1 AATATTTCAAA
718856 AATATTTCAAA
1 AATATTTCAAA
718867 AAT
1 AAT
718870 CTAGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTTCAAA
Found at i:720869 original size:50 final size:50
Alignment explanation
Indices: 720728--720860 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
720718 ATTTCCTACG
* * * *
720728 TGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAATCCCGAA
1 TGTATCGATACAATGAATAATGTATTGATACATCTAGGTAAAAACCCAAA
* * * * *
720778 TGCATTGATATAATGAAGAATTTATTGATACATCTAGGTAAAAACCCAAAA
1 TGTATCGATACAATGAATAATGTATTGATACATCTAGGTAAAAACCC-AAA
*
720829 TGTATCAATACAATGAATAATGTATTGATACA
1 TGTATCGATACAATGAATAATGTATTGATACA
720861 AACAGTAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 39 0.58
51 28 0.42
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (50 bp):
TGTATCGATACAATGAATAATGTATTGATACATCTAGGTAAAAACCCAAA
Found at i:721829 original size:52 final size:52
Alignment explanation
Indices: 721545--722135 Score: 389
Period size: 52 Copynumber: 11.6 Consensus size: 52
721535 GACGAGAAGA
* * ** * *
721545 ATGATAAAGGTGCTAATATGTTGATTCAAGGCCAGCGGTATTGGGCTTAAAT
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
** * * * * * * * *
721597 ATG-CGAAGATTGTCAATGTGCTGATTCATGGCCGGTGACATTAGACTTGAAG
1 ATGATAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * * * * *
721649 AT-A-AGAAGAATGCCAATGTGCTAATTGAAGACCAGTGACATTGGGCTT-AGG
1 ATGATA-AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * ** *
721700 AATG-TCGAAGATGCTAATATGCTGATTCAAGGTCAATGATATTGGACTT-AA-
1 -ATGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
*
721751 A-GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * **
721802 ATGGTAAATGTGCCAATATGCTGATTCAAGCCCAACGATTTTGGACTT-AAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * *
721853 A--A-AAAGGTGCTAATGTGTTGATTCAAGGCCAACAACATTGGACTTAAAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * ** *
721902 ATGATAAATGTGCCAACATGTTGATTCAAGGCCA-CGATGTTGGACTCGAGAA-
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-TA-AAG
** * * * *
721954 AAAAGAAA-GTGCCAATGTGCTGATTCAAGGCCAGCAACACTGGACTTAAAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
**
722005 ATGATAAAGGTGCCAATA---T-ATTCAAGGCCAGCGATGTTGGACTTGAGAA-
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-A-AAG
* * **
722054 A-GA-AGAAGGTGCCAATGTGCTGATTCAAAGCCAGTAACATTGGACTTAAAG
1 ATGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
722105 ATGATAAAGGTGCCAATATGCTGATTCAAGG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGG
722136 TCAGGGATAT
Statistics
Matches: 412, Mismatches: 97, Indels: 60
0.72 0.17 0.11
Matches are distributed among these distances:
47 1 0.00
48 69 0.17
49 43 0.10
50 10 0.02
51 51 0.12
52 232 0.56
53 6 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
Found at i:721893 original size:100 final size:101
Alignment explanation
Indices: 721715--722135 Score: 539
Period size: 100 Copynumber: 4.2 Consensus size: 101
721705 CGAAGATGCT
* * * *
721715 AATATGCTGATTCAAGGTCAATGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAG
1 AATATGCTGATTCAAGGCCAACGATGTTGGACTTAAAGAAAAAGGTGCCAATGTGCTGATTCAAG
* * *
721780 GCCAGCGACATTGGACTTAAAGATGGTAAATGTGCC
66 GCCAGCAACATTGGACTTAAAGATGATAAAGGTGCC
* * * *
721816 AATATGCTGATTCAAGCCCAACGATTTTGGACTT-AAGAAAAAGGTGCTAATGTGTTGATTCAAG
1 AATATGCTGATTCAAGGCCAACGATGTTGGACTTAAAGAAAAAGGTGCCAATGTGCTGATTCAAG
* *
721880 GCCAACAACATTGGACTTAAAGATGATAAATGTGCC
66 GCCAGCAACATTGGACTTAAAGATGATAAAGGTGCC
* * * * *
721916 AACATGTTGATTCAAGGCC-ACGATGTTGGACTCGAGAAAAAAGAAAGTGCCAATGTGCTGATTC
1 AATATGCTGATTCAAGGCCAACGATGTTGGACT-TA-AAGAAA-AAGGTGCCAATGTGCTGATTC
*
721980 AAGGCCAGCAACACTGGACTTAAAGATGATAAAGGTGCC
63 AAGGCCAGCAACATTGGACTTAAAGATGATAAAGGTGCC
* *
722019 AATA---T-ATTCAAGGCCAGCGATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTC
1 AATATGCTGATTCAAGGCCAACGATGTTGGACTT---AAAGAAAAAGGTGCCAATGTGCTGATTC
* *
722080 AAAGCCAGTAACATTGGACTTAAAGATGATAAAGGTGCC
63 AAGGCCAGCAACATTGGACTTAAAGATGATAAAGGTGCC
722119 AATATGCTGATTCAAGG
1 AATATGCTGATTCAAGG
722136 TCAGGGATAT
Statistics
Matches: 277, Mismatches: 31, Indels: 21
0.84 0.09 0.06
Matches are distributed among these distances:
99 22 0.08
100 149 0.54
101 34 0.12
102 6 0.02
103 58 0.21
104 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
AATATGCTGATTCAAGGCCAACGATGTTGGACTTAAAGAAAAAGGTGCCAATGTGCTGATTCAAG
GCCAGCAACATTGGACTTAAAGATGATAAAGGTGCC
Found at i:721987 original size:203 final size:200
Alignment explanation
Indices: 721759--722135 Score: 540
Period size: 203 Copynumber: 1.9 Consensus size: 200
721749 AAAGATAAAG
* * * *
721759 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAATGTGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACACTGGACTTAAAGATGATAAAGGTGCCAATA---T
* * * *
721824 GATTCAAGCCCAACGATTTTGGACTT-AAGAAAAAGGTGCTAATGTGTTGATTCAAGGCCAACAA
63 -ATTCAAGCCCAACGATGTTGGACTTAAAGAAAAAGGTGCCAATGTGCTGATTCAAAGCCAACAA
* *
721888 CATTGGACTTAAAGATGATAAATGTGCCAACATGTTGATTCAAGGCCACGATGTTGGACTCGAGA
127 CATTGGACTTAAAGATGATAAAGGTGCCAACATGCTGATTCAAGGCCACGATGTTGGACTCGAGA
721953 AAAAAGAAA
192 AAAAAGAAA
721962 GTGCCAATGTGCTGATTCAAGGCCAGCAACACTGGACTTAAAGATGATAAAGGTGCCAATATATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACACTGGACTTAAAGATGATAAAGGTGCCAATATATT
* * * **
722027 CAAGGCCAGCGATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAAGCCAGTAAC
66 CAAGCCCAACGATGTTGGACTT---AAAGAAAAAGGTGCCAATGTGCTGATTCAAAGCCAACAAC
*
722092 ATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGG
128 ATTGGACTTAAAGATGATAAAGGTGCCAACATGCTGATTCAAGG
722136 TCAGGGATAT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
199 22 0.14
200 1 0.01
203 131 0.85
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (200 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCAACACTGGACTTAAAGATGATAAAGGTGCCAATATATT
CAAGCCCAACGATGTTGGACTTAAAGAAAAAGGTGCCAATGTGCTGATTCAAAGCCAACAACATT
GGACTTAAAGATGATAAAGGTGCCAACATGCTGATTCAAGGCCACGATGTTGGACTCGAGAAAAA
AGAAA
Found at i:722319 original size:31 final size:30
Alignment explanation
Indices: 722250--722343 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 30
722240 TAGAAGGAGA
722250 TGCCACT-AGCTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACTGA-CTTGTGTGGGC-TTTGAAA-GGT
*
722282 TACCACTGACTTGTGTGGGCTTTGAAGAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAA-AGGT
* *
722313 TGCCACTGACTTTTGTGGGCGTTGAAAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAGGT
722343 T
1 T
722344 TCTCTACTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.09
31 32 0.57
32 18 0.32
33 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.33, T:0.34
Consensus pattern (30 bp):
TGCCACTGACTTGTGTGGGCTTTGAAAGGT
Found at i:722560 original size:28 final size:28
Alignment explanation
Indices: 722521--722593 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
722511 ACTTATGCCC
722521 CTGA-TTGTGGACTTTGAAAAAACGCCA
1 CTGACTTGTGGACTTTGAAAAAACGCCA
* ***
722548 CTGACTTGTGGACTTCGAAAAGGTGCCA
1 CTGACTTGTGGACTTTGAAAAAACGCCA
* *
722576 CTGACTAGTGGGCTTTGA
1 CTGACTTGTGGACTTTGA
722594 GAAGGGATTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 4 0.11
28 34 0.89
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
CTGACTTGTGGACTTTGAAAAAACGCCA
Found at i:722684 original size:14 final size:13
Alignment explanation
Indices: 722610--722685 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
722600 ATTCGTGTCA
722610 ACAAACATTTCTTG
1 ACAAA-ATTTCTTG
* *
722624 ACGAAGTTTC-TG
1 ACAAAATTTCTTG
* ** *
722636 ACATACGTTCTCG
1 ACAAAATTTCTTG
*
722649 ACAAAAGTTCTTG
1 ACAAAATTTCTTG
722662 ACGAAAATTTCTTG
1 AC-AAAATTTCTTG
722676 ACAACAATTT
1 ACAA-AATTT
722686 TGTTGACAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
12 8 0.17
13 19 0.40
14 21 0.44
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (13 bp):
ACAAAATTTCTTG
Found at i:723959 original size:25 final size:25
Alignment explanation
Indices: 723938--723986 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
723928 CCCTTTTCTT
* *
723938 GTTTCTTTTTCTTTGTGTTTTTTTG
1 GTTTATTTTTCTTTATGTTTTTTTG
*
723963 GTTTATTTTTTTTTATGTTTTTTT
1 GTTTATTTTTCTTTATGTTTTTTT
723987 CTGAAGGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.80
Consensus pattern (25 bp):
GTTTATTTTTCTTTATGTTTTTTTG
Found at i:737736 original size:50 final size:50
Alignment explanation
Indices: 737690--737815 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 50
737680 GCATGTAACG
* * *
737690 ATACATTGAATAATGTATCGATACGTCTAGGT-AAAATCCATAATGTATC
1 ATACAATGAATAATGTATCGATACATCTAGGTAAAAATCCAGAATGTATC
* ** * *
737739 AATACAATGAAGAATGTATTAATACATCTTGGTAAAAATCGAGAATGTATC
1 -ATACAATGAATAATGTATCGATACATCTAGGTAAAAATCCAGAATGTATC
737790 ATTACAATGAATAATGTATCGATACA
1 A-TACAATGAATAATGTATCGATACA
737816 AACAGTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 27 0.43
51 36 0.57
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (50 bp):
ATACAATGAATAATGTATCGATACATCTAGGTAAAAATCCAGAATGTATC
Found at i:743726 original size:17 final size:19
Alignment explanation
Indices: 743701--743742 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
743691 ATTTTATGAA
743701 AAATCTTGTT-A-AATGACC
1 AAATCTTGTTCATAATG-CC
743719 AAAT-TTGTTCATAATGCC
1 AAATCTTGTTCATAATGCC
743737 AAATCT
1 AAATCT
743743 GCATGTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (19 bp):
AAATCTTGTTCATAATGCC
Found at i:746539 original size:112 final size:111
Alignment explanation
Indices: 746387--746592 Score: 249
Period size: 112 Copynumber: 1.8 Consensus size: 111
746377 AGATTGTTAG
* * *
746387 GATCTTGGTCTTGATATAACAGAGTACGAATAATATCGAAAAA-AGGTTTGAAAAACA-ATAAAC
1 GATCTTGGTCTTGATATAACAGAGTAC-AATAAAACCGAAAAATA-CTTTGAAAAA-ATAT-AAC
** *
746450 AAGTTTTATTCTTTTAAAAATACTCT-AAAACCGTATTCTAAGTTATTAA
62 AAGTTTTATTAATTCAAAAATACTCTGAAAACCGTATTCTAAGTTATTAA
* * *
746499 GATCTTGGTTTTGATATAACAAAGATTA-AATAAAACCGAAAAATACTTTGAAAAAATATAATAA
1 GATCTTGGTCTTGATATAAC--AGAGTACAATAAAACCGAAAAATACTTTGAAAAAATATAACAA
746563 GTTTTATTAATTCAAAAATACTCTGAAAAC
64 GTTTTATTAATTCAAAAATACTCTGAAAAC
746593 ATTCTTCTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
111 26 0.32
112 48 0.60
113 1 0.01
114 5 0.06
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (111 bp):
GATCTTGGTCTTGATATAACAGAGTACAATAAAACCGAAAAATACTTTGAAAAAATATAACAAGT
TTTATTAATTCAAAAATACTCTGAAAACCGTATTCTAAGTTATTAA
Found at i:747542 original size:20 final size:20
Alignment explanation
Indices: 747517--747591 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
747507 TTTTATCGAG
747517 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
747537 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
747557 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
747577 ATGTATCGATACATT
1 ATGTATCGATACATT
747592 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:747621 original size:91 final size:89
Alignment explanation
Indices: 747468--747641 Score: 267
Period size: 91 Copynumber: 1.9 Consensus size: 89
747458 ATTTACCCAG
* * * * *
747468 ATGTATCGATGCATTGTTCAATGTATCATACATTCTGTCTTTTATCGAGATGTATCGATACATTT
1 ATGTATCGATACATTCTTCAATGTATCATACATTCTATCTTTTACCGAGATGTATCAATACATTT
747533 TTCAATGTATCGATACATGTATGA
66 TTCAATGTATCGATACATGTATGA
* *
747557 ATGTATTGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCTAGATGTATCAATACAT
1 ATGTATCGATACATTCTTCAATGTATC-ATACATTCTATC-TTTTACCGAGATGTATCAATACAT
747622 TTTTCAATGTATCGATACAT
64 TTTTCAATGTATCGATACAT
747642 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
89 24 0.32
90 11 0.14
91 41 0.54
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (89 bp):
ATGTATCGATACATTCTTCAATGTATCATACATTCTATCTTTTACCGAGATGTATCAATACATTT
TTCAATGTATCGATACATGTATGA
Found at i:749940 original size:98 final size:98
Alignment explanation
Indices: 749768--750011 Score: 373
Period size: 98 Copynumber: 2.5 Consensus size: 98
749758 TATTCATTGA
*
749768 GGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCTCGTTTTTAAAACTTATCAAGATTT
1 GGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTT
749833 GAAACTTATTCTTGCCTAAATTATCATTGTCAGG
66 GAAACTTATTCTTGCCTAAATTATCATTGT-AGG
* * * * *
749867 GG-CACTCCAACCTCATTCCTCTGAGGGAATACTCCTACCCCATTTTTAAAACTTGTCAAGATTT
1 GGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTT
* *
749931 GAAACTTATTCTTGCCTAAATTATTATTGTTGG
66 GAAACTTATTCTTGCCTAAATTATCATTGTAGG
* * *
749964 GGACACTCCAACCCCATTCCACCGAGGGGATACTACAACCCCGTTTTT
1 GGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
750012 CAACCAAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
97 4 0.03
98 123 0.95
99 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (98 bp):
GGACACTCCAACCTCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTT
GAAACTTATTCTTGCCTAAATTATCATTGTAGG
Found at i:756998 original size:20 final size:20
Alignment explanation
Indices: 756973--757030 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
756963 GAAAAACCTA
756973 GATGTATCGATACAATGTTC
1 GATGTATCGATACAATGTTC
756993 GATGTATCGATACAATGTTC
1 GATGTATCGATACAATGTTC
**
757013 TTTGTATCGATACAATGT
1 GATGTATCGATACAATGT
757031 ACCGATACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (20 bp):
GATGTATCGATACAATGTTC
Found at i:759536 original size:20 final size:20
Alignment explanation
Indices: 759511--759561 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
759501 ACCCTTGAAA
759511 GTATCGATACATATCCAGAT
1 GTATCGATACATATCCAGAT
759531 GTATCGATACATATCCAGAT
1 GTATCGATACATATCCAGAT
759551 GTATCGATACA
1 GTATCGATACA
759562 CTATGCTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACATATCCAGAT
Found at i:759625 original size:20 final size:19
Alignment explanation
Indices: 759579--759635 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
759569 TTGTATCGAT
* *
759579 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGC
*
759598 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
759617 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
759636 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:760641 original size:13 final size:13
Alignment explanation
Indices: 760623--760647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
760613 TACATTATGC
760623 TTTGTATCGATAA
1 TTTGTATCGATAA
760636 TTTGTATCGATA
1 TTTGTATCGATA
760648 CATAAAACTG
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:0.16, T:0.48
Consensus pattern (13 bp):
TTTGTATCGATAA
Found at i:761587 original size:13 final size:13
Alignment explanation
Indices: 761568--761602 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
761558 AATGATCGTA
761568 GTATCGATACATT
1 GTATCGATACATT
* *
761581 TTATCGATGCATT
1 GTATCGATACATT
761594 GTATCGATA
1 GTATCGATA
761603 GAAGGGCACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:763067 original size:13 final size:13
Alignment explanation
Indices: 763049--763075 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
763039 ATAGAAAGGG
763049 AGATTATTTTTGA
1 AGATTATTTTTGA
763062 AGATTATTTTTGA
1 AGATTATTTTTGA
763075 A
1 A
763076 ACAAAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGATTATTTTTGA
Found at i:763214 original size:30 final size:28
Alignment explanation
Indices: 763061--763220 Score: 236
Period size: 28 Copynumber: 5.6 Consensus size: 28
763051 ATTATTTTTG
763061 AAGATTATTTTTG-AA--ACAAAAAGGGAA
1 AAGA-TATTTTTGAAATTACAAAAAGGG-A
*
763088 AGAGATATTTTTAAAATTACAAAAAGGGA
1 A-AGATATTTTTGAAATTACAAAAAGGGA
763117 AAGATATTTTTGAAATTACAAAAAGGGA
1 AAGATATTTTTGAAATTACAAAAAGGGA
763145 AAGATATTTTTGAAATTACAAAAAGGGA
1 AAGATATTTTTGAAATTACAAAAAGGGA
763173 AAGATATTTTTGAAATTACAAAAAGGGA
1 AAGATATTTTTGAAATTACAAAAAGGGA
*
763201 AAGTGATATTTTTGACATTA
1 AA--GATATTTTTGAAATTA
763221 ATTTGTTTTG
Statistics
Matches: 124, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
27 8 0.06
28 89 0.72
29 2 0.02
30 25 0.20
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (28 bp):
AAGATATTTTTGAAATTACAAAAAGGGA
Found at i:766897 original size:14 final size:14
Alignment explanation
Indices: 766878--766906 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
766868 CCCCGATTTC
766878 TTACACTCGTAGCA
1 TTACACTCGTAGCA
766892 TTACACTCGTAGCA
1 TTACACTCGTAGCA
766906 T
1 T
766907 ATGATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (14 bp):
TTACACTCGTAGCA
Found at i:767050 original size:21 final size:21
Alignment explanation
Indices: 767024--767070 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
767014 AGCTATTTCT
767024 TCATCCGACTCAACTTCTTCA
1 TCATCCGACTCAACTTCTTCA
767045 TCATCCGACTCAACTTCTTCA
1 TCATCCGACTCAACTTCTTCA
767066 TCATC
1 TCATC
767071 ATTATCATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (21 bp):
TCATCCGACTCAACTTCTTCA
Found at i:767473 original size:32 final size:32
Alignment explanation
Indices: 767437--767499 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
767427 ATTGGACTTA
*
767437 GAAAGAGATGCCACCAACTTGTGTGGGCTTTT
1 GAAAGAGATGCCACCAACTTGTGTAGGCTTTT
* * *
767469 GAAAGGGTTGCCACCCACTTGTGTAGGCTTT
1 GAAAGAGATGCCACCAACTTGTGTAGGCTTT
767500 AAGAAGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (32 bp):
GAAAGAGATGCCACCAACTTGTGTAGGCTTTT
Found at i:767507 original size:32 final size:31
Alignment explanation
Indices: 767445--767573 Score: 116
Period size: 32 Copynumber: 4.0 Consensus size: 31
767435 TAGAAAGAGA
*
767445 TGCCACCAACTTGTGTGGGCTTT-TGAAAGGGT
1 TGCCACCAACTTGTGT-GGCTTTAAG-AAGGGT
*
767477 TGCCACCCACTTGTGTAGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGT-GGCTTTAAGAAGGGT
* ** *
767509 TGTCACTGACTTGTATGGCCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGG-CTTTAAGAAGGGT
* * * *
767541 TGCCACTAGCTTGTGTGCGTTTTAAAAAGGGT
1 TGCCACCAACTTGTGTG-GCTTTAAGAAGGGT
767573 T
1 T
767574 TTCCACTAGG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
31 2 0.02
32 77 0.95
33 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGCTTTAAGAAGGGT
Found at i:767795 original size:28 final size:28
Alignment explanation
Indices: 767761--767814 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
767751 AATTGTGGAC
*
767761 TTCGAAGAAATGCCACTGACTTATGGTG
1 TTCGAAGAAATGCCACTGACTAATGGTG
**
767789 TTCGAAGAGGTGCCACTGACTAATGG
1 TTCGAAGAAATGCCACTGACTAATGG
767815 GTTTTGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (28 bp):
TTCGAAGAAATGCCACTGACTAATGGTG
Found at i:769221 original size:22 final size:21
Alignment explanation
Indices: 769164--769229 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 21
769154 CCTTTTCTAG
769164 TTTGTTTTTGTTTTTTTCTTTTGC
1 TTTG-TTTT-TTTTTTT-TTTTGC
769188 TTT-TATTATTTTTTTTTTTTGC
1 TTTGT-TT-TTTTTTTTTTTTGC
769210 TTTGTTGTTTTTTTTTTTTT
1 TTTGTT-TTTTTTTTTTTTT
769230 TTTGGTATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
22 23 0.61
23 11 0.29
24 4 0.11
ACGTcount: A:0.03, C:0.05, G:0.09, T:0.83
Consensus pattern (21 bp):
TTTGTTTTTTTTTTTTTTTGC
Found at i:775206 original size:26 final size:25
Alignment explanation
Indices: 775145--775206 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
775135 AGTTTTTTTA
775145 TAAAAAAATAGGGTTGAGTATCCCC
1 TAAAAAAATAGGGTTGAGTATCCCC
**
775170 TCAAAGGAATAGGGTTGAAGTATCCCC
1 T-AAAAAAATAGGGTTG-AGTATCCCC
775197 -AAAAATAATA
1 TAAAAA-AATA
775207 ATTTAGGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 4 0.13
26 17 0.57
27 9 0.30
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.23
Consensus pattern (25 bp):
TAAAAAAATAGGGTTGAGTATCCCC
Found at i:777528 original size:13 final size:13
Alignment explanation
Indices: 777510--777534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
777500 ACAAAACTTA
777510 TGTATCGATACAT
1 TGTATCGATACAT
777523 TGTATCGATACA
1 TGTATCGATACA
777535 ATTTGTACAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:781363 original size:18 final size:19
Alignment explanation
Indices: 781342--781381 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
781332 AAAAAGCCTT
781342 AGTCAAC-AAAAAGTCCAA
1 AGTCAACTAAAAAGTCCAA
*
781360 AGTCAACTTAAAAAGTCTAA
1 AGTCAAC-TAAAAAGTCCAA
781380 AG
1 AG
781382 GCTATGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.17
Consensus pattern (19 bp):
AGTCAACTAAAAAGTCCAA
Found at i:781686 original size:20 final size:19
Alignment explanation
Indices: 781661--781709 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
781651 ACACCCAGAT
781661 TATCGATACATATTGCTTGG
1 TATCGATACATATT-CTTGG
* *
781681 TATCGATACATGTTCTTTG
1 TATCGATACATATTCTTGG
*
781700 TAGCGATACA
1 TATCGATACA
781710 CCATAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (19 bp):
TATCGATACATATTCTTGG
Found at i:781868 original size:63 final size:63
Alignment explanation
Indices: 781769--781905 Score: 195
Period size: 63 Copynumber: 2.2 Consensus size: 63
781759 TATTCATAAT
* * * *
781769 TGAATTGTATCGATACATTGAGCCCAACGACTAGAATTTCAAATGCTTTGTATCGATATATGG
1 TGAATTGTATCAATACATTGAGCCCAACGACTAGAATTTCAAATGCATTGTATCGATACATGA
* * *
781832 TGAATTGTATCAATACATTGAGCTCAAC-AGCTAGAATTTCAATTGCATTGTATCGATACATTA
1 TGAATTGTATCAATACATTGAGCCCAACGA-CTAGAATTTCAAATGCATTGTATCGATACATGA
781895 TGAATTGTATC
1 TGAATTGTATC
781906 CATATATAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 65 0.98
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (63 bp):
TGAATTGTATCAATACATTGAGCCCAACGACTAGAATTTCAAATGCATTGTATCGATACATGA
Found at i:782058 original size:10 final size:10
Alignment explanation
Indices: 782043--782067 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
782033 AAGATCAAAG
782043 AGAAACAACA
1 AGAAACAACA
782053 AGAAACAACA
1 AGAAACAACA
782063 AGAAA
1 AGAAA
782068 GCCAAGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.16, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAACAACA
Found at i:787597 original size:8 final size:8
Alignment explanation
Indices: 787586--787714 Score: 74
Period size: 8 Copynumber: 16.0 Consensus size: 8
787576 AATAATAAGT
787586 AAAAATCA
1 AAAAATCA
* *
787594 AAAATTTA
1 AAAAATCA
787602 AAAAAT-A
1 AAAAATCA
*
787609 AAATAATAA
1 AAA-AATCA
787618 TAAAAAT-A
1 -AAAAATCA
* *
787626 ATAAATTA
1 AAAAATCA
787634 AAGAAAT-A
1 AA-AAATCA
*
787642 AAAAAACA
1 AAAAATCA
787650 AAAAA-CAA
1 AAAAATC-A
787658 AAAAATC-
1 AAAAATCA
787665 AAAAATC-
1 AAAAATCA
787672 AAAAAT-A
1 AAAAATCA
787679 AAAAATCA
1 AAAAATCA
*
787687 TTAAAAATAATA
1 --AAAAAT--CA
787699 AAAAATCA
1 AAAAATCA
787707 AAAAATCA
1 AAAAATCA
787715 TAAACAAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
7 32 0.32
8 42 0.42
9 9 0.09
10 15 0.15
12 1 0.01
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (8 bp):
AAAAATCA
Found at i:787610 original size:7 final size:7
Alignment explanation
Indices: 787586--787712 Score: 67
Period size: 7 Copynumber: 16.9 Consensus size: 7
787576 AATAATAAGT
787586 AAAAATCA
1 AAAAAT-A
*
787594 AAAATTTA
1 AAAA-ATA
787602 AAAAATA
1 AAAAATA
787609 AAATAATAA
1 AAA-AAT-A
787618 TAAAAATA
1 -AAAAATA
*
787626 ATAAATTA
1 A-AAAATA
787634 AAGAAATAA
1 AA-AAAT-A
*
787643 AAAAACA
1 AAAAATA
*
787650 AAAAACAA
1 AAAAA-TA
*
787658 AAAAATC
1 AAAAATA
*
787665 AAAAATC
1 AAAAATA
787672 AAAAATA
1 AAAAATA
*
787679 AAAAATC
1 AAAAATA
**
787686 ATTAA-A
1 AAAAATA
*
787692 AATAATA
1 AAAAATA
787699 AAAAATCA
1 AAAAAT-A
787707 AAAAAT
1 AAAAAT
787713 CATAAACAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
6 4 0.04
7 41 0.44
8 38 0.40
9 8 0.09
10 3 0.03
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:787622 original size:17 final size:16
Alignment explanation
Indices: 787569--787727 Score: 73
Period size: 17 Copynumber: 9.7 Consensus size: 16
787559 TTATTCGTAT
*
787569 AAAATATAATAATAAGTA
1 AAAATA-AAAAATAA-TA
* *
787587 AAAATCAAAAAT-TTAA
1 AAAATAAAAAATAAT-A
787603 AAAATAAAATAATAATA
1 AAAATAAAA-AATAATA
*
787620 AAAATAATAAATTAA-A
1 AAAATAA-AAAATAATA
*
787636 GAAATAAAAAA-ACA-A
1 AAAATAAAAAATA-ATA
*
787651 AAAA-CAAAAA-AATCA
1 AAAATAAAAAATAAT-A
*
787666 AAAATCAAAAATAA-A
1 AAAATAAAAAATAATA
*
787681 AAATCATTAAAAATAATAA
1 AAA--ATAAAAAATAAT-A
*
787700 AAAATCAAAAAATCATA
1 AAAAT-AAAAAATAATA
787717 AACAA-AAAAAA
1 AA-AATAAAAAA
787728 ACGTGAAAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
13 1 0.01
14 7 0.06
15 18 0.16
16 28 0.25
17 37 0.33
18 18 0.16
19 4 0.04
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:787632 original size:33 final size:33
Alignment explanation
Indices: 787569--787644 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
787559 TTATTCGTAT
*
787569 AAAATATAATAATAAGTAAAAATCAAAAATTTAA
1 AAAATAAAATAATAAGTAAAAATCAAAAA-TTAA
787603 AAAATAAAATAATAA-TAAAAAT-AATAAATTAA
1 AAAATAAAATAATAAGTAAAAATCAA-AAATTAA
787635 AGAAATAAAA
1 A-AAATAAAA
787645 AAACAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 7 0.18
33 18 0.46
34 14 0.36
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAATAAAATAATAAGTAAAAATCAAAAATTAA
Found at i:787644 original size:40 final size:39
Alignment explanation
Indices: 787570--787710 Score: 96
Period size: 39 Copynumber: 3.5 Consensus size: 39
787560 TATTCGTATA
* *
787570 AAATATAATAATAAGTAAAAATCAAAAATTTAAAAAATA
1 AAATATAATAATAAATAAAAATCAAAAATATAAAAAATA
* *
787609 AAATAATAATAA-AAATAATAAATTAAAGAA-ATAAAAAAACA
1 AAAT-ATAATAATAAATAA-AAATCAAA-AATAT-AAAAAATA
* *
787650 AAAAACAA-AA-AAATCAAAAATCAAAAATA-AAAAATCATTA
1 AAATATAATAATAAAT-AAAAATCAAAAATATAAAAA--A-TA
*
787690 AAA-ATAATAAAAAATCAAAAA
1 AAATATAATAATAAAT-AAAAA
787711 ATCATAAACA
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
37 5 0.06
38 2 0.02
39 27 0.33
40 26 0.32
41 22 0.27
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (39 bp):
AAATATAATAATAAATAAAAATCAAAAATATAAAAAATA
Found at i:787703 original size:20 final size:18
Alignment explanation
Indices: 787586--787718 Score: 71
Period size: 20 Copynumber: 7.1 Consensus size: 18
787576 AATAATAAGT
*
787586 AAAAATC-AAAAAT-TTA
1 AAAAATCAAAAAATAATA
787602 AAAAAT-AAAATAATAATAA
1 AAAAATCAAAA-AATAAT-A
*
787621 AAATAAT-AAATTAAAGAAATA
1 AAA-AATCAAA--AAA-TAATA
* *
787642 AAAAAACAAAAAA-CA-A
1 AAAAATCAAAAAATAATA
*
787658 AAAAATCAAAAATCAAAAATA
1 AAAAATC-AAAA--AATAATA
787679 AAAAATCATTAAAAATAATA
1 AAAAATCA--AAAAATAATA
*
787699 AAAAATCAAAAAATCATA
1 AAAAATCAAAAAATAATA
787717 AA
1 AA
787719 CAAAAAAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
16 16 0.17
17 8 0.09
18 12 0.13
19 9 0.10
20 24 0.26
21 17 0.18
22 7 0.08
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (18 bp):
AAAAATCAAAAAATAATA
Found at i:788460 original size:89 final size:92
Alignment explanation
Indices: 788276--788460 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 92
788266 AAAACAGCAA
788276 GAGCACGTGAAAATGGCAGCAACAATGGAAAAGAAAAACATGAAGAAACAAGCAGCCACATGGAG
1 GAGCACGTGAAAATGGCAGCAACAATGGAAAAGAAAAACATGAAG-AACAAGCAGCCACATGGAG
* *
788341 ACATGAAAGAAACAAACAACAAAGCATG
65 ACACGAAAGAAACAAACAACAAAGAATG
* * ** * *
788369 GAGCATGTGAAAATGGCAGCAACAATGG-AAAGCAAAATGTGAAG-AC-AGTAGCCTCATGGAGA
1 GAGCACGTGAAAATGGCAGCAACAATGGAAAAGAAAAACATGAAGAACAAGCAGCCACATGGAGA
*
788431 CACGAAAGAAACAAACAGCAAAGAATG
66 CACGAAAGAAACAAACAACAAAGAATG
788458 GAG
1 GAG
788461 TGGCAACTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
89 41 0.49
90 2 0.02
92 13 0.16
93 27 0.33
ACGTcount: A:0.50, C:0.16, G:0.25, T:0.09
Consensus pattern (92 bp):
GAGCACGTGAAAATGGCAGCAACAATGGAAAAGAAAAACATGAAGAACAAGCAGCCACATGGAGA
CACGAAAGAAACAAACAACAAAGAATG
Found at i:792108 original size:51 final size:51
Alignment explanation
Indices: 792041--792137 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
792031 ATACATTCTC
792041 TTTTTTACCCAGATGTAGCGATACATTTTTCAATGAATCGATACATTTTGT
1 TTTTTTACCCAGATGTAGCGATACATTTTTCAATGAATCGATACATTTTGT
* * * *
792092 TTTTTTACCCATATGTATCGATATATTTTTCAATGTATCGATACAT
1 TTTTTTACCCAGATGTAGCGATACATTTTTCAATGAATCGATACAT
792138 CTAGTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.45
Consensus pattern (51 bp):
TTTTTTACCCAGATGTAGCGATACATTTTTCAATGAATCGATACATTTTGT
Found at i:798997 original size:12 final size:12
Alignment explanation
Indices: 798980--799027 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
798970 TTTCCTAGTT
798980 TTTCTTTTTTTC
1 TTTCTTTTTTTC
*
798992 TTTCTTTTTTTT
1 TTTCTTTTTTTC
799004 TTCTCTCTTTTTTC
1 TT-TCT-TTTTTTC
*
799018 CTTCTTTTTT
1 TTTCTTTTTT
799028 AGCTAAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 18 0.58
13 6 0.19
14 7 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:799001 original size:11 final size:11
Alignment explanation
Indices: 798978--799027 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
798968 ATTTTCCTAG
*
798978 TTTTTCTTTTT
1 TTTTTCTTTCT
*
798989 TTCTTTCTTTTT
1 TT-TTTCTTTCT
*
799001 TTTTTCTCTCT
1 TTTTTCTTTCT
*
799012 TTTTTCCTTCT
1 TTTTTCTTTCT
799023 TTTTT
1 TTTTT
799028 AGCTAAACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 23 0.68
12 11 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:799002 original size:15 final size:15
Alignment explanation
Indices: 798984--799016 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
798974 CTAGTTTTTC
*
798984 TTTTTTTCTTTCTTT
1 TTTTTTTCTCTCTTT
798999 TTTTTTTCTCTCTTT
1 TTTTTTTCTCTCTTT
799014 TTT
1 TTT
799017 CCTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTCTCTCTTT
Found at i:799012 original size:19 final size:18
Alignment explanation
Indices: 798978--799027 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
798968 ATTTTCCTAG
798978 TTTTTCTTTTTTTCTTTC
1 TTTTTCTTTTTTTCTTTC
798996 TTTTT-TTTTTCTCTCTTT-
1 TTTTTCTTTTT-T-TCTTTC
799014 TTTCCTTCTTTTTT
1 TTT--TTCTTTTTT
799028 AGCTAAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.19
18 9 0.33
19 5 0.19
20 3 0.11
21 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTTC
Found at i:799965 original size:165 final size:161
Alignment explanation
Indices: 799642--800257 Score: 581
Period size: 166 Copynumber: 3.8 Consensus size: 161
799632 AAAATGGAGA
* * *
799642 TTTCAAAGAAAAAATTC-AAAACTCATAAAAATGAATGAATTTTTAAAAACAAAATCAATATG-A
1 TTTCAAGGAAAAAA-TCAAAAACTCATAAAAATGAATGAATTTTTAAAAA-TAAATTAATATGAA
* * * * * * * * *
799705 ATCAAAGATGATGCTTGATAAATTCTAAAAATTGACAACCGAGAAAAATCCCCTCAGAAAAATTT
64 ATAAAAAATAATGTTTGATAAATTTTAAAAATTGAAAAACAAGAAAAATCCCCTCA-AAAAAATT
*
799770 ACGGAGTAAAAAATACCATATTTAAGAAAAATAAAAG
128 ACGGAGTAGAAAATA-CATATTT-AGAAAAA-AAAAG
* * *
799807 TTTCAAGGAAAATATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAATTAATTAATATGAAG
1 TTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTT-AAAAATAAATTAATATGAAA
* * * *
799872 TAAAAAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCTCCTCAAAAAAATTAC
65 TAAAAAATAATGTTTGATAAATTTTAAAAATTGAAAAACAAGAAAAATCCCCTCAAAAAAATTAC
* *
799937 AGAGTAGAAAACACTATATTTCAGAAAAAAAAGAAAG
130 GGAGTAGAAAATAC-ATATTT-AG--AAAAAA-AAAG
* *
799974 TTTTAAGG----AA--AAAAA-T-A-AAAAATGAATGAATTTTTAAAAATAAAATTAATAAGAAA
1 TTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTAAAAAT-AAATTAATATGAAA
** * * *
800030 TAAATGATAATGTTTGATGAATTTTAAAAATTGAAAAAAAAAGAAAAATCCCCTCGAAAAAATTT
65 TAAAAAATAATGTTTGATAAATTTTAAAAATTG-AAAAACAAGAAAAATCCCCTC-AAAAAAATT
*
800095 ACGGAGTAGAAAATACATATTTTGAAAAAAAAAG
128 ACGGAGTAGAAAATACATATTTAGAAAAAAAAAG
** * * * * * *
800129 AATTTCAAGGAAAAAATCAAAAGTTGATGAAAATGATTGAATTTTTTAAAACTGAATTAATATAA
1 --TTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAA-TTTTTAAAAATAAATTAATATGA
* * * * * *
800194 AATAAATAAA-AATATATGATAAATTTTAAAAATTAAAAAATAAGAAAAATCCTCTAAAAAAAAT
63 AATAAA-AAATAATGTTTGATAAATTTTAAAAATTGAAAAACAAGAAAAATCCCCTCAAAAAAAT
800258 CTATGGAGAA
Statistics
Matches: 376, Mismatches: 52, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
155 4 0.01
156 6 0.02
157 13 0.03
158 60 0.16
159 25 0.07
160 23 0.06
161 7 0.02
163 5 0.01
164 11 0.03
165 94 0.25
166 101 0.27
167 27 0.07
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (161 bp):
TTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTAAAAATAAATTAATATGAAAT
AAAAAATAATGTTTGATAAATTTTAAAAATTGAAAAACAAGAAAAATCCCCTCAAAAAAATTACG
GAGTAGAAAATACATATTTAGAAAAAAAAAG
Found at i:800024 original size:158 final size:157
Alignment explanation
Indices: 799659--800144 Score: 561
Period size: 158 Copynumber: 3.0 Consensus size: 157
799649 GAAAAAATTC
* * * *
799659 AAAACTCATAAAAATGAATGAATTTTTAAAAACAAAATCAATATGAATCAAAGATGATGCTTGAT
1 AAAACTCATAAAAATGAATGAATTTTTAAAAATAAAATTAATATGAATAAAAGATGATGTTTGAT
* * * * *
799724 AAATTCTAAAAATTGACAACCGAGAAAAATCCCCTCAGAAAAATTTACGGAGTAAAAAATACCAT
66 GAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCA-AAAAATTTACGGAGTAGAAAATA-CAT
*
799789 ATTTA-AGAAAAATAAAAGTTTCAAGGAAAATATCA
129 ATTTAGA-AAAAAAAAAAGTTTCAAGG---A-A--A
* *
799824 AAAACTCATAAAAATGAATGAATTTTTGAAAAAT-TAATTAATATGAAGTAAAAAATGATGTTTG
1 AAAACTCATAAAAATGAATGAATTTTT-AAAAATAAAATTAATATGAA-TAAAAGATGATGTTTG
* * * *
799888 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCTCCTCAAAAAAATTACAGAGTAGAAAACACTA
64 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAATTTACGGAGTAGAAAATAC-A
*
799953 TATTTCAGAAAAAAAAGAAAGTTTTAAGGAAA
128 TATTT-AGAAAAAAAA-AAAGTTTCAAGGAAA
* * *
799985 AAAA-T-A-AAAAATGAATGAATTTTTAAAAATAAAATTAATAAGAAATAAATGATAATGTTTGA
1 AAAACTCATAAAAATGAATGAATTTTTAAAAATAAAATTAATATG-AATAAAAGATGATGTTTGA
**
800047 TGAATTTTAAAAATTGAAAAAAAAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATACA
65 TGAATTTTAAAAATTG-AAAACCAAGAAAAATCCCCTC-AAAAAATTTACGGAGTAGAAAATACA
*
800112 TATTTTGAAAAAAAAAGAA-TTTCAAGGAAA
128 TATTTAGAAAAAAAAA-AAGTTTCAAGGAAA
800142 AAA
1 AAA
800145 TCAAAAGTTG
Statistics
Matches: 280, Mismatches: 30, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
157 20 0.07
158 68 0.24
159 27 0.10
160 23 0.08
161 5 0.02
163 1 0.00
164 2 0.01
165 63 0.22
166 59 0.21
167 12 0.04
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (157 bp):
AAAACTCATAAAAATGAATGAATTTTTAAAAATAAAATTAATATGAATAAAAGATGATGTTTGAT
GAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAATTTACGGAGTAGAAAATACATAT
TTAGAAAAAAAAAAAGTTTCAAGGAAA
Found at i:800164 original size:324 final size:323
Alignment explanation
Indices: 799668--800257 Score: 771
Period size: 324 Copynumber: 1.8 Consensus size: 323
799658 CAAAACTCAT
* *
799668 AAAAATGAATGAATTTTTAAAAACAAAATCAATATGAATCAAAGATGATGCTTGATAAATTCTAA
1 AAAAATGAATGAATTTTTAAAAACAAAATCAATAAGAATCAAAGATAATGCTTGATAAATTCTAA
* ***
799733 AAATTGACAACCGAGAAAAATCCCCTCAGAAAAATTTACGGAGTAAAAAATACCATATTTAAGAA
66 AAATTGAAAAAAAAGAAAAATCCCCTCAGAAAAATTTACGGAGTAAAAAATACCATATTTAAGAA
* *
799798 AAATAAAAGTTTCAAGGAAAATATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAATTAATT
131 AAATAAAAGTTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAATGAATT
* * * * * * * * *
799863 AATATGAAGTAAA-AAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAAT-CTCCTC
196 AATATAAAATAAATAAA-AATATATGATAAATTTTAAAAATTAAAAAACAAGAAAAATCCT-CTA
799926 AAAAAAATTACAGAGTAGAAAACACTATATTTCAGAAAAAAAAGAAAGTTTTAAGGAAAAAAATA
259 AAAAAAATTACAGAGTAGAAAACACTATATTTCAGAAAAAAAAGAAAGTTTTAAGGAAAAAAATA
* * * * *
799991 AAAAATGAATGAATTTTTAAAAATAAAATTAATAAGAAAT-AAATGATAATGTTTGATGAATTTT
1 AAAAATGAATGAATTTTTAAAAACAAAATCAATAAG-AATCAAA-GATAATGCTTGATAAATTCT
*
800055 AAAAATTGAAAAAAAAAGAAAAATCCCCTC-GAAAAAATTTACGGAGTAGAAAATA-CATATTT-
64 AAAAATTG-AAAAAAAAGAAAAATCCCCTCAG-AAAAATTTACGGAGTAAAAAATACCATATTTA
* ** * * * * *
800117 TGAAAAA-AAAAGAATTTCAAGGAAAAAATCAAAAGTTGATGAAAATGATTGAATTTTTTAAAAC
127 AGAAAAATAAAAG--TTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAA
*
800181 TGAATTAATATAAAATAAATAAAAATATATGATAAATTTTAAAAATTAAAAAATAAGAAAAATCC
190 TGAATTAATATAAAATAAATAAAAATATATGATAAATTTTAAAAATTAAAAAACAAGAAAAATCC
800246 TCTAAAAAAAAT
255 TCTAAAAAAAAT
800258 CTATGGAGAA
Statistics
Matches: 227, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
322 5 0.02
323 42 0.19
324 136 0.60
325 44 0.19
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (323 bp):
AAAAATGAATGAATTTTTAAAAACAAAATCAATAAGAATCAAAGATAATGCTTGATAAATTCTAA
AAATTGAAAAAAAAGAAAAATCCCCTCAGAAAAATTTACGGAGTAAAAAATACCATATTTAAGAA
AAATAAAAGTTTCAAGGAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAATGAATT
AATATAAAATAAATAAAAATATATGATAAATTTTAAAAATTAAAAAACAAGAAAAATCCTCTAAA
AAAAATTACAGAGTAGAAAACACTATATTTCAGAAAAAAAAGAAAGTTTTAAGGAAAAAAATA
Found at i:801146 original size:21 final size:19
Alignment explanation
Indices: 801104--801141 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
801094 GTTTGGCTTA
801104 TTTTTCTTTTTTTTCTTTC
1 TTTTTCTTTTTTTTCTTTC
801123 TTTTT-TTCTTTTTTCTTTC
1 TTTTTCTT-TTTTTTCTTTC
801142 ACTTTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTTTC
Found at i:802840 original size:15 final size:15
Alignment explanation
Indices: 802820--802851 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
802810 CCTATCCTAA
802820 ATGCACACCTTTGGC
1 ATGCACACCTTTGGC
*
802835 ATGCACACTTTTGGC
1 ATGCACACCTTTGGC
802850 AT
1 AT
802852 AAAAGCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (15 bp):
ATGCACACCTTTGGC
Found at i:807667 original size:52 final size:52
Alignment explanation
Indices: 807589--807789 Score: 330
Period size: 52 Copynumber: 3.9 Consensus size: 52
807579 CGAAATATGA
807589 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
**
807641 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
807693 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
807745 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
807790 ATGTATCGAT
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 140 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:807796 original size:13 final size:13
Alignment explanation
Indices: 807778--807802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807768 CAAAGATTAG
807778 TGTATCGATACAA
1 TGTATCGATACAA
807791 TGTATCGATACA
1 TGTATCGATACA
807803 TTTGAGTAAT
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:807880 original size:33 final size:33
Alignment explanation
Indices: 807843--807909 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
807833 AGTAGCTTAA
807843 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
807876 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
807909 A
1 A
807910 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:807883 original size:13 final size:13
Alignment explanation
Indices: 807865--807889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807855 CAAAAAAATA
807865 TGTATCGATACAT
1 TGTATCGATACAT
807878 TGTATCGATACA
1 TGTATCGATACA
807890 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:809232 original size:52 final size:52
Alignment explanation
Indices: 809100--809311 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
809090 GAAAAGTGAT
* * * * * * * *
809100 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
809154 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
809207 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
809250 AAAGGTGCCAATATGCTGATTCAAGGTCGGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
809302 AAAGGTGCCA
1 AAAGGTGCCA
809312 CCGATTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:809268 original size:43 final size:43
Alignment explanation
Indices: 809207--809296 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
809197 TAAAGATGGA
*
809207 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
809250 AAAGGTGCCAATATGCTGATTCAAGGTCGGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
809293 AAAG
1 AAAG
809297 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:809275 original size:21 final size:21
Alignment explanation
Indices: 809208--809276 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
809198 AAAGATGGAA
809208 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
809229 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
809251 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
809272 AAGGT
1 AAGGT
809277 CGGCTACATT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 11 0.31
22 6 0.17
23 5 0.14
24 4 0.11
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:809341 original size:30 final size:30
Alignment explanation
Indices: 809300--809822 Score: 405
Period size: 30 Copynumber: 18.1 Consensus size: 30
809290 CTTAAAGATG
* * **
809300 GAAAA-GGTGCCACCGATTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809329 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809358 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
***
809386 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809416 GAACAGGGTG-C-C--AC---TGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809439 --AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*** *
809467 GAAAAATATGCCATTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809497 GAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809527 --AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809555 --AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809583 GAAAAGGGTGCCACTAACTTGTGGGC---T
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
* * * * **
809610 GAAAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAA
1 GAAAAGGGTGCCACT-GACTTGTGGGCTT----TT
* * * * *
809644 GAAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 G-AAAAGGGTGCCACTGACTTGTGGGCTTTT
* * **
809675 GAAAA-GATGCCACCGACTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*
809704 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
* *
809733 G--AAGGTTGCCACTGACTTGTGGGCTTTC
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
***
809761 GAAAAAAATGCCACTGACTTGTGGGC-TTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
*** * *
809790 GAAAAAAATGTCACTGACTTGTGGACTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTTT
809820 GAA
1 GAA
809823 GGGTGATGAA
Statistics
Matches: 405, Mismatches: 59, Indels: 59
0.77 0.11 0.11
Matches are distributed among these distances:
21 6 0.01
22 1 0.00
23 10 0.02
25 2 0.00
26 3 0.01
27 62 0.15
28 71 0.18
29 59 0.15
30 167 0.41
31 1 0.00
34 1 0.00
35 22 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
GAAAAGGGTGCCACTGACTTGTGGGCTTTT
Found at i:809450 original size:21 final size:23
Alignment explanation
Indices: 809407--809452 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
809397 CACTGACTTG
809407 TGGGCTTTTGAACAGGGTGCCAC
1 TGGGCTTTTGAACAGGGTGCCAC
*
809430 TGGGCTTTT-AA-AGGTTGCCAC
1 TGGGCTTTTGAACAGGGTGCCAC
809451 TG
1 TG
809453 ACTTGTGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 9 0.41
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (23 bp):
TGGGCTTTTGAACAGGGTGCCAC
Found at i:809467 original size:81 final size:81
Alignment explanation
Indices: 809350--809597 Score: 367
Period size: 81 Copynumber: 3.0 Consensus size: 81
809340 CACTGATTTG
*
809350 TGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTT
1 TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTT
*
809414 TTGAACAGGGTGCCAC
66 TTGAAAAGGGTGCCAC
*
809430 TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCATTGACTTGTGGGCTT
1 TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTT
809495 TTGAAAAGGGTGCCACTAAC
66 TTGAAAAGGGTG-C-C--AC
**
809515 TTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT-AAAGGT-TGCCACTGACTTGTGGG
1 ---TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGG
809578 CTTTTGAAAAGGGTGCCAC
63 CTTTTGAAAAGGGTGCCAC
809597 T
1 T
809598 AACTTGTGGG
Statistics
Matches: 154, Mismatches: 6, Indels: 17
0.87 0.03 0.10
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 68 0.44
82 3 0.02
83 1 0.01
84 1 0.01
85 3 0.02
86 31 0.20
87 4 0.03
88 37 0.24
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (81 bp):
TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTT
TTGAAAAGGGTGCCAC
Found at i:809598 original size:86 final size:86
Alignment explanation
Indices: 809430--809824 Score: 323
Period size: 86 Copynumber: 4.5 Consensus size: 86
809420 AGGGTGCCAC
* ** *
809430 TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCATTGACTTGTGGGCTT
1 TGGGCTTTAAAAGGTTGCCACTGACTTGTGGGCTTTT-AAAGGT-TGCCACTGACTTGTGGGCTT
*
809495 TTGAAAAGGGTGCCACTAACTTG
64 TTGAAAAGGATGCCACTAACTTG
*
809518 TGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT
1 TGGGCTTTAAAAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT
*
809583 GAAAAGGGTGCCACTAACTTG
66 GAAAAGGATGCCACTAACTTG
* * * * ** * * *
809604 TGGGC-TGAAAAGAG-TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTG
1 TGGGCTTTAAAAG-GTTGCCACT-GACTTGTGGGCTT-TTAAAG-----G-TTGCCACTGACTTG
* * **
809666 TGGACTTTGGAAAA-GATGCCACCGACTTG
57 TGGGCTTTTGAAAAGGATGCCACTAACTTG
* * * *
809695 TGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTT
1 TGGGCTT--TAAAAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTT
* ** *
809759 TCGAAAAAAATGCCACTGACTTG
64 TTGAAAAGGATGCCACTAACTTG
*** * * *
809782 TGGGCTTTGAAAAAAATGTCACTGACTTGTGGACTTTTGAAGG
1 TGGGCTTT-AAAAGGTTGCCACTGACTTGTGGGCTTTTAAAGG
809825 GTGATGAATG
Statistics
Matches: 252, Mismatches: 38, Indels: 35
0.78 0.12 0.11
Matches are distributed among these distances:
84 1 0.00
85 20 0.08
86 94 0.37
87 33 0.13
88 37 0.15
91 18 0.07
92 27 0.11
93 2 0.01
94 19 0.08
95 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (86 bp):
TGGGCTTTAAAAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT
GAAAAGGATGCCACTAACTTG
Found at i:811265 original size:1 final size:1
Alignment explanation
Indices: 811261--811409 Score: 127
Period size: 1 Copynumber: 149.0 Consensus size: 1
811251 CCGGACCCCC
* * * * * * * *
811261 TTTTTTTGTTTTTGTTTGTTTTTTTTTTGTTTTTGTTTGTTTTTTTTTGTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** ** * * *
811326 TTTTGTTTTGTTTTTTTTTTGTTTTTTCATTTTTTTCATTTTTTTTTGTTTTGTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
811391 TTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
811410 GGAGGACGCC
Statistics
Matches: 112, Mismatches: 36, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 112 1.00
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:811280 original size:10 final size:10
Alignment explanation
Indices: 811261--811409 Score: 178
Period size: 10 Copynumber: 14.5 Consensus size: 10
811251 CCGGACCCCC
811261 TTTTTTTGTT
1 TTTTTTTGTT
*
811271 TTTGTTTGTTT
1 TTTTTTTG-TT
811282 TTTTTTTGTT
1 TTTTTTTGTT
*
811292 TTTGTTTGTT
1 TTTTTTTGTT
811302 TTTTTTTGTTT
1 TTTTTTTG-TT
811313 TTTTTTTGTT
1 TTTTTTTGTT
811323 TTTTTTTGTT
1 TTTTTTTGTT
811333 TTGTTTTT-TT
1 TT-TTTTTGTT
811343 TTTGTTTT-TT
1 TTT-TTTTGTT
*
811353 CATTTTTTTCATT
1 --TTTTTTT-GTT
811366 TTTTTTTGTT
1 TTTTTTTGTT
*
811376 TTGTTTTGTT
1 TTTTTTTGTT
811386 TTTTTTT-TT
1 TTTTTTTGTT
811395 TTTTTTTGTT
1 TTTTTTTGTT
811405 TTTTT
1 TTTTT
811410 GGAGGACGCC
Statistics
Matches: 123, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
9 10 0.08
10 73 0.59
11 35 0.28
12 3 0.02
13 2 0.02
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:811287 original size:21 final size:21
Alignment explanation
Indices: 811261--811409 Score: 159
Period size: 21 Copynumber: 7.2 Consensus size: 21
811251 CCGGACCCCC
811261 TTTTTTTGTTTTTGTTTGTTT
1 TTTTTTTGTTTTTGTTTGTTT
811282 TTTTTTTGTTTTTGTTTG-TT
1 TTTTTTTGTTTTTGTTTGTTT
*
811302 TTTTTTTGTTTTT-TTTTTGTT
1 TTTTTTTGTTTTTGTTTGT-TT
811323 TTTTTTTG-TTTTGTTT-TTT
1 TTTTTTTGTTTTTGTTTGTTT
* * **
811342 TTTTGTTTTTTCATTTTTTTCATT
1 TTTT-TTTGTT--TTTGTTTGTTT
811366 TTTTTTTG-TTTTGTTTTGTTT
1 TTTTTTTGTTTTTG-TTTGTTT
811387 TTTTTTT-TTTTT-TTTGTTT
1 TTTTTTTGTTTTTGTTTGTTT
811406 TTTT
1 TTTT
811410 GGAGGACGCC
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
19 20 0.18
20 26 0.24
21 48 0.44
22 1 0.01
23 9 0.08
24 6 0.05
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.87
Consensus pattern (21 bp):
TTTTTTTGTTTTTGTTTGTTT
Found at i:811289 original size:11 final size:11
Alignment explanation
Indices: 811261--811409 Score: 148
Period size: 11 Copynumber: 13.4 Consensus size: 11
811251 CCGGACCCCC
811261 TTTTTTTG-TT
1 TTTTTTTGTTT
*
811271 TTTGTTTGTTT
1 TTTTTTTGTTT
811282 TTTTTTTG-TT
1 TTTTTTTGTTT
*
811292 TTTGTTTG-TT
1 TTTTTTTGTTT
811302 TTTTTTTGTTT
1 TTTTTTTGTTT
811313 TTTTTTTG-TT
1 TTTTTTTGTTT
811323 TTTTTTTGTTT
1 TTTTTTTGTTT
811334 TGTTTTTT-TTT
1 T-TTTTTTGTTT
*
811345 TGTTTTTTCATTT
1 T-TTTTTT-GTTT
811358 TTTTCATTT-TTT
1 TTTT--TTTGTTT
811370 TTTGTTTTGTTTT
1 TTT-TTTTG-TTT
*
811383 GTTTTTTTTTTT
1 -TTTTTTTGTTT
811395 TTTTTTTGTTT
1 TTTTTTTGTTT
811406 TTTT
1 TTTT
811410 GGAGGACGCC
Statistics
Matches: 121, Mismatches: 6, Indels: 23
0.81 0.04 0.15
Matches are distributed among these distances:
10 35 0.29
11 50 0.41
12 18 0.15
13 12 0.10
14 6 0.05
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:821115 original size:10 final size:10
Alignment explanation
Indices: 821100--821126 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
821090 ATGTATCAAG
821100 CAAAAACAAA
1 CAAAAACAAA
821110 CAAAAACAAA
1 CAAAAACAAA
821120 CAAAAAC
1 CAAAAAC
821127 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:825325 original size:52 final size:52
Alignment explanation
Indices: 825247--825447 Score: 330
Period size: 52 Copynumber: 3.9 Consensus size: 52
825237 CGAAATATGA
825247 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
**
825299 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
825351 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
825403 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
825448 ATGTATCGAT
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 140 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:825454 original size:13 final size:13
Alignment explanation
Indices: 825436--825460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
825426 CAAAGATTAG
825436 TGTATCGATACAA
1 TGTATCGATACAA
825449 TGTATCGATACA
1 TGTATCGATACA
825461 TTTGAGTAAT
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:825538 original size:33 final size:33
Alignment explanation
Indices: 825501--825567 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
825491 AGTAGCTTAA
825501 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
825534 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
825567 A
1 A
825568 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:825541 original size:13 final size:13
Alignment explanation
Indices: 825523--825547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
825513 CAAAAAAATA
825523 TGTATCGATACAT
1 TGTATCGATACAT
825536 TGTATCGATACA
1 TGTATCGATACA
825548 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:826106 original size:123 final size:123
Alignment explanation
Indices: 825934--826280 Score: 358
Period size: 123 Copynumber: 2.8 Consensus size: 123
825924 GACCAGAATG
* * * * * ** * **
825934 AAACCATCTAAGTCAACGAGTTAGAAAGGTTGACTAAGATGAAAGCATATGAGTCAATGAGTTAG
1 AAACCATATGAGTTAACAAGTTAGAAAGGTTGACCAAGACAAAACCATATGAGTCAACAAGTTAG
* * ** *
825999 AAAAGTTGACTAAAACAAAACCATACGAGTCAATGAGTTAGAATGGTTGACCAAGACA
66 AAAGGTTGACTAAGACAAAACCATACGAGTCAATGAGTTAGAAAAGTTAACCAAGACA
** *
826057 AAACCATATGAGTTAATGAGTTA-AAAGGATTGGCCAAGACAAAACCATATGAGTCAACAAGTTA
1 AAACCATATGAGTTAACAAGTTAGAAAGG-TTGACCAAGACAAAACCATATGAGTCAACAAGTTA
* * * * *
826121 -AAGGGGTTGAAC-GAGACAAAACTATATGAGTCAATGAGTTAGAAAAGTTAATCAAGACA
65 GAA-AGGTTG-ACTAAGACAAAACCATACGAGTCAATGAGTTAGAAAAGTTAACCAAGACA
* ** ** *
826180 AAACCATATGAGTTAACAAGTTAGAATGGTTGACCAAGATGAAATTATATGAGTCAACAAGCTAG
1 AAACCATATGAGTTAACAAGTTAGAAAGGTTGACCAAGACAAAACCATATGAGTCAACAAGTTAG
* * *
826245 AATGGTTAACTAAGACAAAACCATACAAGTCAATGA
66 AAAGGTTGACTAAGACAAAACCATACGAGTCAATGA
826281 AAGATAACTA
Statistics
Matches: 182, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
122 9 0.05
123 165 0.91
124 8 0.04
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (123 bp):
AAACCATATGAGTTAACAAGTTAGAAAGGTTGACCAAGACAAAACCATATGAGTCAACAAGTTAG
AAAGGTTGACTAAGACAAAACCATACGAGTCAATGAGTTAGAAAAGTTAACCAAGACA
Found at i:826269 original size:82 final size:82
Alignment explanation
Indices: 825934--826269 Score: 336
Period size: 82 Copynumber: 4.1 Consensus size: 82
825924 GACCAGAATG
* * * * * ** *
825934 AAACCATCTAAGTCAACGAGTTAGAAAGGTTGACTAAGATGAAAGCATATGAGTCAATGAGTTAG
1 AAACCATATGAGTCAACAAGTTAGAATGGTTGACCAAGACAAAACCATATGAGTCAATGAGTTAG
* *
825999 AAAAGTTGACTAAAACA
66 AAAAGTTAACTAAGACA
* ** *
826016 AAACCATACGAGTCAATGAGTTAGAATGGTTGACCAAGACAAAACCATATGAGTTAATGAGTTA-
1 AAACCATATGAGTCAACAAGTTAGAATGGTTGACCAAGACAAAACCATATGAGTCAATGAGTTAG
* ** *
826080 AAAGGATTGGCCAAGACA
66 AAAAG-TTAACTAAGACA
* * * *
826098 AAACCATATGAGTCAACAAGTTA-AAGGGGTTGAACGAGACAAAACTATATGAGTCAATGAGTTA
1 AAACCATATGAGTCAACAAGTTAGAA-TGGTTGACCAAGACAAAACCATATGAGTCAATGAGTTA
826162 GAAAAGTTAA-TCAAGACA
65 GAAAAGTTAACT-AAGACA
* ** ** ** *
826180 AAACCATATGAGTTAACAAGTTAGAATGGTTGACCAAGATGAAATTATATGAGTCAACAAGCTAG
1 AAACCATATGAGTCAACAAGTTAGAATGGTTGACCAAGACAAAACCATATGAGTCAATGAGTTAG
**
826245 AATGGTTAACTAAGACA
66 AAAAGTTAACTAAGACA
826262 AAACCATA
1 AAACCATA
826270 CAAGTCAATG
Statistics
Matches: 210, Mismatches: 38, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
81 6 0.03
82 197 0.94
83 7 0.03
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (82 bp):
AAACCATATGAGTCAACAAGTTAGAATGGTTGACCAAGACAAAACCATATGAGTCAATGAGTTAG
AAAAGTTAACTAAGACA
Found at i:826277 original size:41 final size:41
Alignment explanation
Indices: 825934--826269 Score: 246
Period size: 41 Copynumber: 8.2 Consensus size: 41
825924 GACCAGAATG
* * * * * * **
825934 AAACCATCTAAGTCAACGAGTTAGAAAGGTTGACTAAGATG
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
* ** ** * * *
825975 AAAGCATATGAGTCAATGAGTTAGAAAAGTTGACTAAAACA
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
* ** *
826016 AAACCATACGAGTCAATGAGTTAGAATGGTTGACCAAGACA
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
* ** * **
826057 AAACCATATGAGTTAATGAGTTA-AAAGGATTGGCCAAGACA
1 AAACCATATGAGTCAACAAGTTAGAATGG-TTAACCAAGACA
* *
826098 AAACCATATGAGTCAACAAGTTA-AAGGGGTTGAA-CGAGACA
1 AAACCATATGAGTCAACAAGTTAGAA-TGGTT-AACCAAGACA
* ** ** *
826139 AAACTATATGAGTCAATGAGTTAGAAAAGTTAATCAAGACA
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
* * **
826180 AAACCATATGAGTTAACAAGTTAGAATGGTTGACCAAGATG
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
** * *
826221 AAATTATATGAGTCAACAAGCTAGAATGGTTAACTAAGACA
1 AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
826262 AAACCATA
1 AAACCATA
826270 CAAGTCAATG
Statistics
Matches: 239, Mismatches: 51, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
40 6 0.03
41 229 0.96
42 4 0.02
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (41 bp):
AAACCATATGAGTCAACAAGTTAGAATGGTTAACCAAGACA
Found at i:826438 original size:105 final size:103
Alignment explanation
Indices: 826297--826649 Score: 309
Period size: 105 Copynumber: 3.4 Consensus size: 103
826287 ACTAAAGTGG
* * *
826297 AACCTAAGTCAAAAAAGAGTTGGCAAGGATAAAACCATACAAAGCAACAAGTTAAAGGTTGGCCA
1 AACCTAAGTCAAAAAAGAATTGGCAA-GATGAAACCATACAAACCAACAAGTTAAAGGTT-GCCA
* *
826362 AGACGAAACAATACAAATCAACGAAGGGTGACTAGGGTGA
64 AGACGAAACAATATAAATCAACGAAGGGTAACTAGGGTGA
* * * * * *
826402 AACCTAAGTCGAAAAGGAATTGGCCAAGATGAAACCATACAAACCAACAAATTAGAGGTTGACTA
1 AACCTAAGTCAAAAAAGAATTGG-CAAGATGAAACCATACAAACCAACAAGTTAAAGGTTGCCAA
* * * * *
826467 GCATGAAACCAA-ATAACTGAATGAAGGGTAACTAGGGAGA
65 G-ACGAAA-CAATATAAATCAACGAAGGGTAACTAGGGTGA
** * * ** * * *
826507 AACCTAAGTTGAAAAAGAAGTTGGCAAAATGAAACCATACGAACCAATGAGTTAAAGTTTAACTA
1 AACCTAAGTCAAAAAAGAA-TTGGCAAGATGAAACCATACAAACCAACAAGTTAAAGGTT-GCCA
* * * * * *
826572 AGAC-AAACCATATAAGTCAACAAAAGGTAACCAAGGTGA
64 AGACGAAACAATATAAATCAACGAAGGGTAACTAGGGTGA
*
826611 AACCTAAGT-AAAAAAGGAGTTGGTC-AGATGAAACCATAC
1 AACCTAAGTCAAAAAA-GAATTGG-CAAGATGAAACCATAC
826650 GAAGAGTTGA
Statistics
Matches: 198, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
103 24 0.12
104 39 0.20
105 123 0.62
106 12 0.06
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (103 bp):
AACCTAAGTCAAAAAAGAATTGGCAAGATGAAACCATACAAACCAACAAGTTAAAGGTTGCCAAG
ACGAAACAATATAAATCAACGAAGGGTAACTAGGGTGA
Found at i:826758 original size:35 final size:35
Alignment explanation
Indices: 826719--826787 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
826709 AATTAAAAAG
826719 GAGTTGGCCGA-GAAGAAACCATATGAACCAATAAA
1 GAGTTGG-CGAGGAAGAAACCATATGAACCAATAAA
* *
826754 GAGTTGGCTAGGATGAAACCATATGAACCAATAA
1 GAGTTGGCGAGGAAGAAACCATATGAACCAATAA
826788 GTTAGAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (35 bp):
GAGTTGGCGAGGAAGAAACCATATGAACCAATAAA
Found at i:828185 original size:13 final size:13
Alignment explanation
Indices: 828167--828202 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
828157 ATTTTTCTTT
828167 TATCGATACAATG
1 TATCGATACAATG
*
828180 TATCGATACACTG
1 TATCGATACAATG
828193 TATCGATACA
1 TATCGATACA
828203 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:830671 original size:20 final size:19
Alignment explanation
Indices: 830616--830671 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
830606 AAAACCCTTA
*
830616 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
830636 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
830656 AATGTATCGATACATG
1 AAAGTATCGATACATG
830672 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:830759 original size:13 final size:13
Alignment explanation
Indices: 830741--830766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
830731 TACACAAAAT
830741 ATGTATCGATACA
1 ATGTATCGATACA
830754 ATGTATCGATACA
1 ATGTATCGATACA
830767 TAAAAAAATT
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:830764 original size:32 final size:34
Alignment explanation
Indices: 830723--830787 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
830713 TTGCCAAGCT
* *
830723 TGTATCGATACA-CAAAATA-TGTATCGATACAA
1 TGTATCGATACATAAAAAAATTGTATCGATACAA
830755 TGTATCGATACATAAAAAAATTGTATCGATACA
1 TGTATCGATACATAAAAAAATTGTATCGATACA
830788 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 5 0.17
34 12 0.41
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (34 bp):
TGTATCGATACATAAAAAAATTGTATCGATACAA
Found at i:832135 original size:20 final size:20
Alignment explanation
Indices: 832092--832136 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
832082 ACTGGGCCAT
**
832092 ATGTATCGATACAATTCTTG
1 ATGTATCGATACAATTCTAC
832112 ATGTATCGATACAATT-TAAC
1 ATGTATCGATACAATTCT-AC
832132 ATGTA
1 ATGTA
832137 CAGTGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCTAC
Found at i:843002 original size:10 final size:10
Alignment explanation
Indices: 842987--843013 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
842977 ATGTATCAAG
842987 CAAAAACAAA
1 CAAAAACAAA
842997 CAAAAACAAA
1 CAAAAACAAA
843007 CAAAAAC
1 CAAAAAC
843014 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:847222 original size:52 final size:51
Alignment explanation
Indices: 847144--847292 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
847134 CGAAATATGA
*
847144 AAATTTGCCTGCATGTATCAATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
847196 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
847248 AAATTTGCCTGCATGTATCGATACACAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
847293 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:847299 original size:13 final size:13
Alignment explanation
Indices: 847281--847305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
847271 CACAGATCAG
847281 TGTATCGATACAA
1 TGTATCGATACAA
847294 TGTATCGATACA
1 TGTATCGATACA
847306 TTTAAGTGAT
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:847383 original size:33 final size:33
Alignment explanation
Indices: 847346--847412 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
847336 AGTAGCTTAA
847346 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
847379 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
847412 A
1 A
847413 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Done.