Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 103 of 208
Found at i:34500441 original size:64 final size:60
Alignment explanation
Indices: 34500354--34500554 Score: 181
Period size: 60 Copynumber: 3.3 Consensus size: 60
34500344 CACTATAAGA
* * * * *
34500354 GTAGATATATAATTAACTTTCCAA-AGAAGGGGTTTGCCTAAATGAAAGAACTCTGTAATAGT
1 GTAGATATATAATGAACTCTCCAATA-AAGGAGTTTACCTAAATGAAAGAACTCCG-AA-AGT
* **
34500416 AGATATATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGAAAGT
1 -G-TAGATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAAAGAACTCCGAAAGT
* * * ** * * *
34500478 GTAGGTATATAATGAACTCTCCAATGAAA-AAGTTCACCTAAATGAGTGAACACCGTAAGA
1 GTAGATATATAATGAACTCTCCAAT-AAAGGAGTTTACCTAAATGAAAGAACTCCGAAAGT
*
34500538 GTAGACATATAATGAAC
1 GTAGATATATAATGAAC
34500555 GGTTCACTTG
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
60 63 0.53
61 4 0.03
62 3 0.03
63 3 0.03
64 44 0.37
65 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (60 bp):
GTAGATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAAAGAACTCCGAAAGT
Found at i:34500517 original size:60 final size:60
Alignment explanation
Indices: 34500422--34500554 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
34500412 TAGTAGATAT
* * * *
34500422 ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGAAAGTGTAG
1 ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
* *
34500482 GTATATAATGAACTCTCCAATGAAA-AAGTTCACCTAAATGAGTGAACACCGTAAGAGTAG
1 ATATATAATGAACTCTCCAAT-AAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
*
34500542 ACATATAATGAAC
1 ATATATAATGAAC
34500555 GGTTCACTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (60 bp):
ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
Found at i:34500570 original size:47 final size:47
Alignment explanation
Indices: 34500509--34500601 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
34500499 CAATGAAAAA
*
34500509 GTTCACCTAAATGAGTGAACACCGTAAGAGTAGACATATAATGAACG
1 GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAACG
* * ** *
34500556 GTTCACTTGAATGAGTGAACTTCATAAGAGTAGATATATAATGAAC
1 GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAAC
34500602 TCTCTAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (47 bp):
GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAACG
Found at i:34515712 original size:29 final size:29
Alignment explanation
Indices: 34515667--34515726 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
34515657 AAGTGTATGT
*
34515667 ACTAGTAAAAGTGTTATTGCAATGTTTAC
1 ACTAGTAAAAGTATTATTGCAATGTTTAC
34515696 ACTAGTAAAAGTATTATTGCAATGTTTAC
1 ACTAGTAAAAGTATTATTGCAATGTTTAC
34515725 AC
1 AC
34515727 AATTAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (29 bp):
ACTAGTAAAAGTATTATTGCAATGTTTAC
Found at i:34515733 original size:29 final size:29
Alignment explanation
Indices: 34515670--34515733 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
34515660 TGTATGTACT
* *
34515670 AGTAAAAGTGTTATTGCAATGTTTACACT
1 AGTAAAAGTATTATTGCAATGTTTACACA
34515699 AGTAAAAGTATTATTGCAATGTTTACACA
1 AGTAAAAGTATTATTGCAATGTTTACACA
*
34515728 ATTAAA
1 AGTAAA
34515734 CTTTTACACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (29 bp):
AGTAAAAGTATTATTGCAATGTTTACACA
Found at i:34519051 original size:14 final size:14
Alignment explanation
Indices: 34519032--34519061 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34519022 ACCAAAGTTA
34519032 TCCCATTGAATTTC
1 TCCCATTGAATTTC
34519046 TCCCATTGAATTTC
1 TCCCATTGAATTTC
34519060 TC
1 TC
34519062 GGAAATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (14 bp):
TCCCATTGAATTTC
Found at i:34519431 original size:57 final size:60
Alignment explanation
Indices: 34519343--34519482 Score: 189
Period size: 57 Copynumber: 2.4 Consensus size: 60
34519333 TCGGATTACT
* * *
34519343 CGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGGGGGCTATATC-A-A-GATCACC
1 CGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACC
*
34519400 CGTCCGGGCTAGAT-CTTTTTCACACATATTCTTTGGGAGGGCTATATCAGGATAGGATCACC
1 CGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATAGGATCACC
34519462 CGTCCGGGCTAGATCCTTTTT
1 CGTCCGGGCTAGATCCTTTTT
34519483 ACCGTCAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 37 0.51
60 1 0.01
61 1 0.01
62 21 0.29
63 6 0.08
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (60 bp):
CGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACC
Found at i:34526742 original size:33 final size:32
Alignment explanation
Indices: 34526666--34526744 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
34526656 GACATGCCCG
* ** * * *
34526666 TGTGGCCCACACGGCCTACTTGCCCTAGCTTG
1 TGTGGCTCACACGGCCTACTACCCCCAGCCTA
34526698 TGTGG-TCCACACGGCCTACCTACCCCCAGCCTA
1 TGTGGCT-CACACGGCCTA-CTACCCCCAGCCTA
34526731 TGTGGCTCACACGG
1 TGTGGCTCACACGG
34526745 TCTGGTACAC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.42
33 21 0.55
34 1 0.03
ACGTcount: A:0.15, C:0.39, G:0.24, T:0.22
Consensus pattern (32 bp):
TGTGGCTCACACGGCCTACTACCCCCAGCCTA
Found at i:34528449 original size:50 final size:50
Alignment explanation
Indices: 34528387--34528565 Score: 259
Period size: 50 Copynumber: 3.6 Consensus size: 50
34528377 AAATCTCATA
* * ** * * *
34528387 TCCCAGATATAGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
**
34528437 TCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
34528487 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
34528537 TCCCAGACATGGTCTTACATGGGACCTCT
1 TCCCAGACATAGTCTTACATGGGACCTCT
34528566 TTACCCAAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:34533336 original size:15 final size:15
Alignment explanation
Indices: 34533318--34533347 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34533308 TTAAAATAAA
*
34533318 TTTTTAACTTTTTAG
1 TTTTTAAATTTTTAG
34533333 TTTTTAAATTTTTAG
1 TTTTTAAATTTTTAG
34533348 AAAACAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTTAAATTTTTAG
Found at i:34535542 original size:91 final size:91
Alignment explanation
Indices: 34535380--34535566 Score: 272
Period size: 91 Copynumber: 2.1 Consensus size: 91
34535370 TCAGCCACGA
* *
34535380 TCTTATTTATTTTCGACATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCAT
1 TCTTATTTATTTTCGACATGATGCCATAGTGTCTTTCAACTATGGCCTTATACATTTTCCGTCAT
34535445 GTTGCCATAGTGTCTTTCAACTATGG
66 GTTGCCATAGTGTCTTTCAACTATGG
* * * *
34535471 TCTTATTTATTTTCTATCATGTTTCCATAGTGTCTTTCAACTATGGCCTTATACGTTTT-CGAT-
1 TCTTATTTATTTTCGA-CATGATGCCATAGTGTCTTTCAACTATGGCCTTATACATTTTCCG-TC
34535534 ATAG-TGCCATAGTGTCTTTCAACTATGG
64 AT-GTTGCCATAGTGTCTTTCAACTATGG
34535562 TCTTA
1 TCTTA
34535567 CACGTTTTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
91 48 0.55
92 39 0.45
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (91 bp):
TCTTATTTATTTTCGACATGATGCCATAGTGTCTTTCAACTATGGCCTTATACATTTTCCGTCAT
GTTGCCATAGTGTCTTTCAACTATGG
Found at i:34535559 original size:45 final size:46
Alignment explanation
Indices: 34535388--34535611 Score: 251
Period size: 46 Copynumber: 4.9 Consensus size: 46
34535378 GATCTTATTT
* *
34535388 ATTTTCGA-CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTC
1 ATTTTCGATCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATAC
**
34535433 ATTTTCCG-TCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATTT
1 ATTTT-CGATCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATAC
* * *
34535479 ATTTTCTATCATGTTTCCATAGTGTCTTTCAACTATGGCCTTATAC
1 ATTTTCGATCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATAC
* *
34535525 GTTTTCGAT-ATAG-TGCCATAGTGTCTTTCAACTATGGTCTTACAC
1 ATTTTCGATCAT-GTTGCCATAGTGTCTTTCAACTATGGTCTTATAC
* ** ** * *
34535570 GTTTTTTAT-ATAATGTCATAGTGCCTTTCAACTATGGTCTTA
1 ATTTTCGATCATGTTGCCATAGTGTCTTTCAACTATGGTCTTA
34535612 CATGTTTGAA
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
45 73 0.46
46 84 0.54
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (46 bp):
ATTTTCGATCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATAC
Found at i:34535635 original size:45 final size:45
Alignment explanation
Indices: 34535396--34535679 Score: 222
Period size: 45 Copynumber: 6.3 Consensus size: 45
34535386 TTATTTTCGA
**
34535396 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTTCCGT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTA--CATGTTTCTAT
* *
34535442 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTATTTAT-TTTCTAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTA--CATGTTTCTAT
* * * * * *
34535488 CATGTTTCCATAGTGTCTTTCAACTATGGCCTTATACGTTTTCGAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACATG-TTTCTAT
* *
34535534 -AT-AGTGCCATAGTGTCTTTCAACTATGGTCTTACACGTTTTTTAT
1 CATGA-TGCCATAGTGTCTTTCAACTATGGTCTTACATG-TTTCTAT
* * * **
34535579 -ATAATGTCATAGTGCCTTTCAACTATGGTCTTACATGTTTGAAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACATGTTTCTAT
* * * * * * *
34535623 CGTGATGCCATAGCGTATTTTAGCTATAGTCTTAC-TCTTT-TAATT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACATGTTTCT-A-T
34535668 CATGATGCCATA
1 CATGATGCCATA
34535680 ACGCCTTTCA
Statistics
Matches: 200, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
44 12 0.06
45 107 0.54
46 81 0.41
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (45 bp):
CATGATGCCATAGTGTCTTTCAACTATGGTCTTACATGTTTCTAT
Found at i:34540136 original size:19 final size:19
Alignment explanation
Indices: 34540098--34540136 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34540088 AAATAGCAAG
*
34540098 AATTTTTTTTCTAAGTATA
1 AATTTTTTTTCTAAGGATA
34540117 AATTTTATTTTCT-AGGATA
1 AATTTT-TTTTCTAAGGATA
34540136 A
1 A
34540137 CAATTCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
AATTTTTTTTCTAAGGATA
Found at i:34541514 original size:60 final size:61
Alignment explanation
Indices: 34541396--34541528 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 61
34541386 ATTAGCCTAA
* * *
34541396 TAACAAATTTAGTCCTCCAATGTTTACACATTTTATTAATTTGATGCTAAATCT-AAAAAT
1 TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
* * ** *
34541456 TCAACAAATTTAGT-CTTCAATGTTTACAAAATTTA-TCATTTAATTTTAATTCTAAAAAAAT
1 T-AACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCT-AAAAAAT
*
34541517 TAATAAATTTAG
1 TAACAAATTTAG
34541529 CCCTAAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 13 0.21
60 29 0.48
61 19 0.31
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (61 bp):
TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
Found at i:34542305 original size:52 final size:52
Alignment explanation
Indices: 34542169--34542376 Score: 224
Period size: 56 Copynumber: 4.0 Consensus size: 52
34542159 CGGGTCTCGA
* * **
34542169 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGGCATAAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
** **
34542221 AAAATTTTTTTGGGGGGTTTTGGGACATTGATGATCGGTACCAACTTTATCAGATT
1 --AATTTTTTT--GGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
** * *
34542277 AATTTTTTTTTGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
* * *
34542329 -ATTTTTTT--TGTTCTAGGACATTGATGGCCGACACCAACTTTATCAGAT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGAT
34542377 ATATATATAG
Statistics
Matches: 135, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
49 35 0.26
51 8 0.06
52 35 0.26
54 18 0.13
56 39 0.29
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (52 bp):
AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
Found at i:34542354 original size:49 final size:52
Alignment explanation
Indices: 34542260--34542376 Score: 177
Period size: 49 Copynumber: 2.3 Consensus size: 52
34542250 GATGATCGGT
* *
34542260 ACCAACTTTATCAGATTAATTTTTTTTTGGTTTTGGGACACTGATGGCCAAC
1 ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
* *
34542312 ACCAACTTTATCAGATT-A-TTTTTTTT-GTTCTAGGACATTGATGGCCGAC
1 ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
34542361 ACCAACTTTATCAGAT
1 ACCAACTTTATCAGAT
34542377 ATATATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 35 0.57
50 8 0.13
51 1 0.02
52 17 0.28
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (52 bp):
ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
Found at i:34547685 original size:6 final size:6
Alignment explanation
Indices: 34547674--34547757 Score: 82
Period size: 6 Copynumber: 14.2 Consensus size: 6
34547664 ATATAAAAAT
* * * *
34547674 TTGAAA TTGAAA GTTG-TA TTG-AA TTGAAA TTCAAT TTGAAA TTAAAA
1 TTGAAA TTGAAA -TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
* * *
34547721 TAGGAA TTAAAA TTGAAA TTGAAA TTGAAA TTGAAA T
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA T
34547758 GAATTTATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
5 7 0.11
6 52 0.84
7 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (6 bp):
TTGAAA
Found at i:34547975 original size:12 final size:12
Alignment explanation
Indices: 34547960--34547992 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34547950 TTGAATTTCA
*
34547960 AATTAGAATTGG
1 AATTGGAATTGG
34547972 AATTGGAATTGG
1 AATTGGAATTGG
34547984 AATTGGAAT
1 AATTGGAAT
34547993 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (12 bp):
AATTGGAATTGG
Found at i:34548043 original size:18 final size:17
Alignment explanation
Indices: 34547997--34548036 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
34547987 TGGAATGAAA
*
34547997 TTAAAATGAAATTATAT
1 TTAAAATGAAAATATAT
34548014 TTAAAATGAAAATATAT
1 TTAAAATGAAAATATAT
34548031 TTAAAA
1 TTAAAA
34548037 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTAAAATGAAAATATAT
Found at i:34548048 original size:18 final size:17
Alignment explanation
Indices: 34548010--34548048 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
34548000 AAATGAAATT
* *
34548010 ATATTTAAAATGAAAAT
1 ATATTTAAAAAGAAAAA
34548027 ATATTTAAAAAAGAAAAA
1 ATATTT-AAAAAGAAAAA
34548045 ATAT
1 ATAT
34548049 ATTGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
ATATTTAAAAAGAAAAA
Found at i:34552701 original size:89 final size:88
Alignment explanation
Indices: 34552634--34552833 Score: 287
Period size: 87 Copynumber: 2.3 Consensus size: 88
34552624 AATATGCAAC
* * * *
34552634 AAATTAAATTTATAGATATAAGAAAACACAAACATTCTAGAATATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAA-AAAA-ACAAACATTCTAAAAAATTAATACACGAAAATATAAAA
34552699 TTC-AAACAACAAACAATACAGACT
64 TTCGAAACAACAAACAATACAGACT
*
34552723 AAATTAAATTTACAGATACAAAAAAATAAACATTCTAAAAAATTAATACACGAAAATATAAAATT
1 AAATTAAATTTACAGATACAAAAAAACAAACATTCTAAAAAATTAATACACGAAAATATAAAATT
* *
34552788 CG-AACAACAAATAATACAAACT
66 CGAAACAACAAACAATACAGACT
**
34552810 AAATTTGATTTACAGATACAAAAA
1 AAATTAAATTTACAGATACAAAAA
34552834 TTTTGAATAG
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
87 78 0.77
88 4 0.04
89 19 0.19
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.24
Consensus pattern (88 bp):
AAATTAAATTTACAGATACAAAAAAACAAACATTCTAAAAAATTAATACACGAAAATATAAAATT
CGAAACAACAAACAATACAGACT
Found at i:34552772 original size:30 final size:31
Alignment explanation
Indices: 34552738--34552807 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 31
34552728 AAATTTACAG
* *
34552738 ATACAAAAAAATAAACATTCTAA-AA-AATTA
1 ATACAAAAAAATAAA-ATTCGAACAACAAATA
*
34552768 ATACACGAAAATATAAAATTCGAACAACAAATA
1 ATACA--AAAAAATAAAATTCGAACAACAAATA
34552801 ATACAAA
1 ATACAAA
34552808 CTAAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 5 0.15
31 8 0.24
32 11 0.33
33 9 0.27
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.20
Consensus pattern (31 bp):
ATACAAAAAAATAAAATTCGAACAACAAATA
Found at i:34559852 original size:3 final size:3
Alignment explanation
Indices: 34559844--34559882 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
34559834 TCGAAAAACT
34559844 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34559883 GATCAGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34561258 original size:22 final size:20
Alignment explanation
Indices: 34561218--34561258 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
34561208 ATTAACTTAC
*
34561218 TTATATTATATGTATTTATT
1 TTATATTATATATATTTATT
34561238 TTATATTATAAATATATTTAT
1 TTATATTAT--ATATATTTAT
34561259 AATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATTATATATATTTATT
Found at i:34561283 original size:29 final size:29
Alignment explanation
Indices: 34561249--34561309 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
34561239 TATATTATAA
34561249 ATATATTTATAATA-ACTAAAAATAATACT
1 ATATATTTATAATATACTAAAAATAATA-T
* *
34561278 ATATATTTATTATATATTAAAAATAATAT
1 ATATATTTATAATATACTAAAAATAATAT
34561307 ATA
1 ATA
34561310 GATAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATATTTATAATATACTAAAAATAATAT
Found at i:34563273 original size:85 final size:85
Alignment explanation
Indices: 34563158--34563579 Score: 568
Period size: 85 Copynumber: 5.0 Consensus size: 85
34563148 AGCGTTTACA
* * * * *
34563158 GAAAAAATGCCGCTAAAGCTCATGTCCTTTAGCGGTGCTTAGGAAAAAAACGCCGCTAATGATCA
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCA
*
34563223 TGTTCTTTAGCGGCGCTTGG
66 TGTTCTTTAGCGGCGCTTAG
* * *
34563243 GAAAAAACGCCGCTAAAGGA-CATGATCTTTAACGGCGCTTAGGAAAAAAACGCCGCTAATGATC
1 GAAAAAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATC
* *
34563307 ATGTTCTTTAGCGGCGTTTGG
65 ATGTTCTTTAGCGGCGCTTAG
* *
34563328 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAA-GCCGCTAAAAATAA
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCA
* *
34563392 TGATCTTTAGCGGTGCTTAG
66 TGTTCTTTAGCGGCGCTTAG
* * *
34563412 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCG-TTTGGGAAAAAACGCCGCTAAAGATCA
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCA
34563476 TGTTCTTTAGCGGCGCTTAAG
66 TGTTCTTTAGCGGCGCTT-AG
* * * *
34563497 AAAAAAACGCCGCTAAAAATAATGTTCTTTAGCGGCGCTTAGG-AAAAGACGCCGCTAAA-AGT-
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TC
34563559 AGTGTTCTTTAGCGGCGCTTA
65 A-TGTTCTTTAGCGGCGCTTA
34563580 CTTCACAAAT
Statistics
Matches: 301, Mismatches: 29, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
83 10 0.03
84 96 0.32
85 190 0.63
86 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (85 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCTTAG
Found at i:34563359 original size:127 final size:126
Alignment explanation
Indices: 34563158--34563575 Score: 599
Period size: 127 Copynumber: 3.3 Consensus size: 126
34563148 AGCGTTTACA
* * * * * * * *
34563158 GAAAAAATGCCGCTAAAGCTCATGTCCTTTAGCGGTGCTTAGGAAAAAAACGCCGCTAATGATCA
1 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCG-TTTGGGAAAAAACGCCGCTAAAGATCA
* * * *
34563223 TGTTCTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGGA-CATGATCTTTAACGGCGCTTAG
65 TGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAA-AATAATGATCTTTAGCGGCGCTTAG
34563285 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCA
1 G-AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCA
* *
34563350 TGTTCTTTAGCGGCGCTTAGGAAAAAAAGCCGCTAAAAATAATGATCTTTAGCGGTGCTTAG
65 TGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAATAATGATCTTTAGCGGCGCTTAG
34563412 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
1 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
* *
34563477 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCGCTAAAAATAATGTTCTTTAGCGGCGCTTAG
66 GTTCTTTAGCGGCGCTT-AGGAAAAAACGCCGCTAAAAATAATGATCTTTAGCGGCGCTTAG
* *
34563539 GAAAAGACGCCGCTAA-AAGT-AGTGTTCTTTAGCGGCG
1 GAAAAAACGCCGCTAATGA-TCA-TGTTCTTTAGCGGCG
34563576 CTTACTTCAC
Statistics
Matches: 266, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
126 84 0.32
127 151 0.57
128 31 0.12
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (126 bp):
GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAATAATGATCTTTAGCGGCGCTTAG
Found at i:34563579 original size:42 final size:42
Alignment explanation
Indices: 34563158--34563579 Score: 562
Period size: 42 Copynumber: 10.0 Consensus size: 42
34563148 AGCGTTTACA
* * * *
34563158 GAAAAAATGCCGCTAAAGCTCATGTCCTTTAGCGGTGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
34563200 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTGG
1 G-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
34563243 GAAAAAACGCCGCTAAAGGA-CATGATCTTTAACGGCGCTTAG
1 GAAAAAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTTAG
* * *
34563285 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGG
1 G-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
34563328 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * * * *
34563370 GAAAAAAAGCCGCTAAAAATAATGATCTTTAGCGGTGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
34563412 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
34563454 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AG
* * *
34563497 AAAAAAACGCCGCTAAAAATAATGTTCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
34563539 GAAAAGACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 GAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
34563580 CTTCACAAAT
Statistics
Matches: 334, Mismatches: 39, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.01
42 222 0.66
43 110 0.33
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (42 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:34564050 original size:21 final size:21
Alignment explanation
Indices: 34564026--34564112 Score: 129
Period size: 21 Copynumber: 4.1 Consensus size: 21
34564016 TGCTTTCTCG
* * *
34564026 CTGCTTCTCTCACTGCGGCCT
1 CTGCTTCCCTCGCTGCAGCCT
*
34564047 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
34564068 CTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
*
34564089 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
34564110 CTG
1 CTG
34564113 TTTTAAGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.03, C:0.46, G:0.20, T:0.31
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:34569586 original size:50 final size:50
Alignment explanation
Indices: 34569466--34569714 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
34569456 GATAATAACA
* * * ** * *
34569466 TGCCAAAGCCATGTCCCAGGCATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
34569517 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
34569567 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
34569617 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
34569672 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
34569715 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:34569643 original size:100 final size:104
Alignment explanation
Indices: 34569465--34569714 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
34569455 TGATAATAAC
* **
34569465 ATGCCAAAGCCATGTCCCAGGCATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
34569530 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
34569567 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
34569630 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
34569672 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34569715 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:34570073 original size:30 final size:30
Alignment explanation
Indices: 34570039--34570096 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34570029 CCTCAACTCT
*
34570039 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
34570069 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
34570097 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:34572427 original size:9 final size:9
Alignment explanation
Indices: 34572388--34572744 Score: 243
Period size: 9 Copynumber: 40.8 Consensus size: 9
34572378 TATGTATTAA
*
34572388 GTAAATTAT
1 GTAAGTTAT
34572397 GTAAGTTAT
1 GTAAGTTAT
*
34572406 GTACGTGTA-
1 GTAAGT-TAT
34572415 -TAAGTTAT
1 GTAAGTTAT
34572423 GTAAGTTAT
1 GTAAGTTAT
*
34572432 GT-A-TTAA
1 GTAAGTTAT
34572439 GTAAGCTATATAT
1 GTAAG---T-TAT
34572452 GTAAG-T-T
1 GTAAGTTAT
34572459 GTATA-TTAT
1 GTA-AGTTAT
*
34572468 GTAACTTAT
1 GTAAGTTAT
34572477 GTAAGTTAT
1 GTAAGTTAT
** *
34572486 CAAAGTAAT
1 GTAAGTTAT
*
34572495 GTATGTTAT
1 GTAAGTTAT
34572504 GTAAG-T-T
1 GTAAGTTAT
34572511 GTAAGTTAT
1 GTAAGTTAT
* *
34572520 G-CA-TTAC
1 GTAAGTTAT
*
34572527 GTAACTTAT
1 GTAAGTTAT
34572536 GTAAGTTAT
1 GTAAGTTAT
** *
34572545 CAAAGTAAT
1 GTAAGTTAT
*
34572554 GTATGTTAT
1 GTAAGTTAT
34572563 GTAAG-T-T
1 GTAAGTTAT
34572570 GTAAGTTAT
1 GTAAGTTAT
*
34572579 -TATGTATTAT
1 GTAAG--TTAT
34572589 GTAAGTTAT
1 GTAAGTTAT
34572598 GTAAGTTAT
1 GTAAGTTAT
34572607 GTAAGTTAT
1 GTAAGTTAT
34572616 GT-A-TTAT
1 GTAAGTTAT
*
34572623 GTAGGTTAT
1 GTAAGTTAT
*
34572632 GTAAGTTGT
1 GTAAGTTAT
*
34572641 GTAAGATAT
1 GTAAGTTAT
*
34572650 TTAAGTTAT
1 GTAAGTTAT
*
34572659 GTAAGTTTT
1 GTAAGTTAT
34572668 GT-A-TTAT
1 GTAAGTTAT
34572675 GTAAGTTAT
1 GTAAGTTAT
34572684 GTAAGTTAT
1 GTAAGTTAT
* *
34572693 GTATGCTAT
1 GTAAGTTAT
34572702 GT-A-TTAT
1 GTAAGTTAT
34572709 GTAAGTTGTTAT
1 GTAA---GTTAT
*
34572721 GTTA-TTAT
1 GTAAGTTAT
34572729 GTAAGTTAT
1 GTAAGTTAT
*
34572738 GCAAGTT
1 GTAAGTT
34572745 TAACCACAAG
Statistics
Matches: 270, Mismatches: 46, Indels: 64
0.71 0.12 0.17
Matches are distributed among these distances:
7 43 0.16
8 30 0.11
9 173 0.64
10 6 0.02
11 3 0.01
12 8 0.03
13 7 0.03
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:34572470 original size:16 final size:16
Alignment explanation
Indices: 34572419--34572476 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
34572409 CGTGTATAAG
*
34572419 TTATGTAAGTTATGTA
1 TTATGTAAGTTATATA
* *
34572435 TTAAGTAAG--CTATA
1 TTATGTAAGTTATATA
*
34572449 -TATGTAAGTTGTATA
1 TTATGTAAGTTATATA
*
34572464 TTATGTAACTTAT
1 TTATGTAAGTTAT
34572477 GTAAGTTATC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 4 0.12
16 18 0.56
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATATA
Found at i:34572520 original size:43 final size:44
Alignment explanation
Indices: 34572388--34572744 Score: 201
Period size: 43 Copynumber: 8.2 Consensus size: 44
34572378 TATGTATTAA
* *
34572388 GTAAATTATGTAAGTTATGTACGTGTA--TAAGTTATGTAAGTTAT
1 GTAAGTTAT-TAAGTTATGTATGT-TATGTAAGTTATGTAAGTTAT
* * * * *
34572432 GT-A-TTAAGTAAGCTATATATGTAAGTTGTATA-TTATGTAACTTAT
1 GTAAGTT-ATTAAGTTATGTATGTTA--TGTA-AGTTATGTAAGTTAT
* *
34572477 GTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT
1 GTAAGTTAT-TAAGTTATGTATGTTATGTAAGTTATGTAAGTTAT
* * * * ** * *
34572520 G-CA-TTACGTAACTTATGTAAGTTATCAAAGTAATGTATGTTAT
1 GTAAGTTA-TTAAGTTATGTATGTTATGTAAGTTATGTAAGTTAT
*
34572563 GTAAGTT-GTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATTAAGTTATGTATG--TTATGTAAGTTATGTAAGTTAT
* * *
34572607 GTAAGTTATGT-A-TTATGTAGGTTATGTAAGTTGTGTAAGATAT
1 GTAAGTTAT-TAAGTTATGTATGTTATGTAAGTTATGTAAGTTAT
* *
34572650 TTAAGTTATGTAAGTTTTGTA--TTATGTAAGTTATGTAAGTTAT
1 GTAAGTTAT-TAAGTTATGTATGTTATGTAAGTTATGTAAGTTAT
* * *
34572693 GTATGCTATGT-A-TTATGTAAGTTGTTATGTTA-TTATGTAAGTTAT
1 GTAAGTTAT-TAAGTTATGT-A--TGTTATGTAAGTTATGTAAGTTAT
*
34572738 GCAAGTT
1 GTAAGTT
34572745 TAACCACAAG
Statistics
Matches: 240, Mismatches: 46, Indels: 53
0.71 0.14 0.16
Matches are distributed among these distances:
41 25 0.10
42 19 0.08
43 88 0.37
44 35 0.15
45 49 0.20
46 11 0.05
47 13 0.05
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (44 bp):
GTAAGTTATTAAGTTATGTATGTTATGTAAGTTATGTAAGTTAT
Found at i:34572532 original size:59 final size:60
Alignment explanation
Indices: 34572451--34572606 Score: 237
Period size: 59 Copynumber: 2.6 Consensus size: 60
34572441 AAGCTATATA
34572451 TGTAAGTTGTAT--ATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT
1 TGTAAGTT-TATGCATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT
*
34572510 TGTAAG-TTATGCATTACGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT
1 TGTAAGTTTATGCATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT
* *
34572569 TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAT
1 TGTAAG-T-TTATGCATTATGTAACTTATGTAAGTTAT
34572607 GTAAGTTATG
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
57 3 0.03
58 1 0.01
59 58 0.66
62 26 0.30
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (60 bp):
TGTAAGTTTATGCATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT
Found at i:34572583 original size:19 final size:19
Alignment explanation
Indices: 34572559--34572615 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
34572549 GTAATGTATG
34572559 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
34572578 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
*
34572597 TGTAAGT--TATGTAAGTTA
1 T-TATGTAGTATGTAAGTTA
34572615 T
1 T
34572616 GTATTATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.41
19 16 0.47
20 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:34572622 original size:25 final size:25
Alignment explanation
Indices: 34572377--34572715 Score: 168
Period size: 25 Copynumber: 12.7 Consensus size: 25
34572367 GTTACATAAT
* *
34572377 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
34572402 TTATGTACGTGTATAAGTTATGTAAG
1 TTATGTA-TTATGTAAGTTATGTAAG
*
34572428 TTATGTATTAAGTAAGCTATATATGTAAG
1 TTATGTATTATGTAAG---T-TATGTAAG
* * *
34572457 TTGTATATTATGTAACTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
34572482 TTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
1 TTAT----GT-AT-TATG-TAAGTTA--TGTAAG
* * *
34572516 TTATGCATTACGTAACTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
** * *
34572541 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAG
*
34572568 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTATGTAAGTTATGTAAG
34572594 TTATGTAAGTTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
34572619 TTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTA--TTATGTAAGTTATGTAAG
* * *
34572646 ATATTTAAGTTATGTAAGTTTTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
34572671 TTATGTAAGTTATGTAAGTTATGTATG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
34572698 CTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
34572716 GTTATGTTAT
Statistics
Matches: 241, Mismatches: 44, Indels: 58
0.70 0.13 0.17
Matches are distributed among these distances:
23 1 0.00
24 5 0.02
25 93 0.39
26 36 0.15
27 48 0.20
28 11 0.05
29 26 0.11
30 3 0.01
31 4 0.02
32 4 0.02
34 10 0.04
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:34572644 original size:34 final size:34
Alignment explanation
Indices: 34572377--34572744 Score: 205
Period size: 34 Copynumber: 10.8 Consensus size: 34
34572367 GTTACATAAT
* * *
34572377 TTATGTATTAAGTAAATTATGTAAGTTATGTACG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
* *
34572411 TGTAT-AAGTTATGTAAGTTATGT-A-TTAAGTAAG
1 T-TATGTA-TTATGTAAGTTATGTAAGTTATGTAAG
* * *
34572444 CTATATATGTAAGTTGTATA-TTATGTAACTTATGTAAG
1 TTATGTAT-T-A--TGTA-AGTTATGTAAGTTATGTAAG
** * *
34572482 TTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAGTTATGTAAG
* * * **
34572516 TTATGCATTACGTAACTTATGTAAGTTATCAAAG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
*
34572550 TAATGTATGTTATGTAAG-T-TGTAAG---T-T-A-
1 TTATGTA--TTATGTAAGTTATGTAAGTTATGTAAG
34572578 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
* *
34572612 TTATGTATTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
* * *
34572646 ATATTTAAGTTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAG
* *
34572680 TTATGTAAGTTATGTATGCTATGT-A-TTATGTAAGTTG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAA---G
*
34572717 TTATGTTATTATGTAAGTTATGCAAGTT
1 TTATG-TATTATGTAAGTTATGTAAGTT
34572745 TAACCACAAG
Statistics
Matches: 259, Mismatches: 42, Indels: 62
0.71 0.12 0.17
Matches are distributed among these distances:
26 9 0.03
27 1 0.00
28 12 0.05
29 1 0.00
31 2 0.01
32 19 0.07
33 12 0.05
34 101 0.39
35 20 0.08
36 54 0.21
37 10 0.04
38 15 0.06
39 2 0.01
40 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (34 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
Found at i:34572858 original size:28 final size:28
Alignment explanation
Indices: 34572820--34572889 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
34572810 TAAAAATTTT
*
34572820 ATATAGGTTATGTATTATGTAAGGTAAC
1 ATATAAGTTATGTATTATGTAAGGTAAC
* * *
34572848 ATGTAAGTTATGTATTATGTAAGTTTAC
1 ATATAAGTTATGTATTATGTAAGGTAAC
34572876 ATATAAGTTTATGT
1 ATATAAG-TTATGT
34572890 GATAGTTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (28 bp):
ATATAAGTTATGTATTATGTAAGGTAAC
Found at i:34573094 original size:13 final size:13
Alignment explanation
Indices: 34573076--34573108 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34573066 TAAATTTTAG
*
34573076 TAAGTAACGTATT
1 TAAGTAACATATT
34573089 TAAGTAACATATT
1 TAAGTAACATATT
34573102 TAAGTAA
1 TAAGTAA
34573109 TAAATTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TAAGTAACATATT
Found at i:34576381 original size:22 final size:22
Alignment explanation
Indices: 34576353--34576414 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
34576343 TCGACCCCGG
34576353 AACCCCTAAACCTTAAATCTT-T
1 AACCCCTAAACCTTAAA-CTTGT
*
34576375 AACCCCT-AACTCGT-AACTTGT
1 AACCCCTAAAC-CTTAAACTTGT
34576396 AACCCCTAAACCCTTAAAC
1 AACCCCTAAA-CCTTAAAC
34576415 CCTTAGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.09
21 13 0.39
22 13 0.39
23 4 0.12
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (22 bp):
AACCCCTAAACCTTAAACTTGT
Found at i:34577793 original size:40 final size:40
Alignment explanation
Indices: 34577749--34577840 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
34577739 CGTTTTTTTC
34577749 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGATTTCCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGATTTCCCT
* *
34577789 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGATTTCCCT
* *
34577829 AAAACGCTGCTA
1 TAAACGCCGCTA
34577841 TTTCTCGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAGCGGCGATTTCCCT
Found at i:34578526 original size:30 final size:30
Alignment explanation
Indices: 34578473--34578531 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34578463 AAACCTTTTA
*
34578473 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
34578502 TTTTCCACTAAAACTTTTATTCCCTTCCCA
1 TTTTCC-CCAAAACTTTTACTCCCTTCCCA
34578532 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:34580544 original size:23 final size:22
Alignment explanation
Indices: 34580501--34580545 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
34580491 ATGAGATAAT
* * *
34580501 TAAAAATAATAATATTTTTAAA
1 TAAAAATAAAAAAATTATTAAA
34580523 TAAAAATATAAAAAATTATTAAA
1 TAAAAATA-AAAAAATTATTAAA
34580546 AACGAGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAAAATTATTAAA
Found at i:34580561 original size:9 final size:9
Alignment explanation
Indices: 34580549--34580610 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
34580539 TATTAAAAAC
34580549 GAGAGAGTT
1 GAGAGAGTT
*
34580558 GAGAGACTT
1 GAGAGAGTT
*
34580567 GAGAGGGTTT
1 GAGAGAG-TT
* *
34580577 GGGAGAATTT
1 GAGAG-AGTT
*
34580587 GAGAGAATT
1 GAGAGAGTT
*
34580596 GAGGGAGTT
1 GAGAGAGTT
34580605 GAGAGA
1 GAGAGA
34580611 AGGATGTGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
9 28 0.70
10 12 0.30
ACGTcount: A:0.32, C:0.02, G:0.44, T:0.23
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:34585581 original size:12 final size:12
Alignment explanation
Indices: 34585564--34585596 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34585554 AATAGGATCA
34585564 ATATATGTATTT
1 ATATATGTATTT
*
34585576 ATATATATATTT
1 ATATATGTATTT
34585588 ATATATGTA
1 ATATATGTA
34585597 GTTGAGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
ATATATGTATTT
Found at i:34586979 original size:8 final size:8
Alignment explanation
Indices: 34586966--34586991 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34586956 CTAAAGTGAT
34586966 TTTTCATA
1 TTTTCATA
34586974 TTTTCATA
1 TTTTCATA
34586982 TTTTCATA
1 TTTTCATA
34586990 TT
1 TT
34586992 CTTTGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTCATA
Found at i:34599729 original size:17 final size:17
Alignment explanation
Indices: 34599707--34599745 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
34599697 TGGCATTGTA
34599707 AAGAACGTTTACATTAC
1 AAGAACGTTTACATTAC
34599724 AAGAACGTTTACATTAC
1 AAGAACGTTTACATTAC
34599741 AAGAA
1 AAGAA
34599746 AGACAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
AAGAACGTTTACATTAC
Found at i:34601345 original size:69 final size:68
Alignment explanation
Indices: 34601219--34601353 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 68
34601209 TTTTAATAGT
* *
34601219 TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTATATTAATTTAATATTAAAGTAATT
34601284 ATC
66 ATC
** *
34601287 TTAATATTAAATTTAATTTAATATTTCTAT-TG-ATAAATATTATATTAATTTTATATTAAAGTA
1 TTAATATTAAATTTAATTTAAT-GCT-TATCTGAAT-AATATTATATTAATTTAATATTAAAGTA
34601350 ATTA
63 ATTA
34601354 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
68 24 0.41
69 32 0.54
70 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTATATTAATTTAATATTAAAGTAATT
ATC
Found at i:34604572 original size:26 final size:26
Alignment explanation
Indices: 34604537--34604596 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
34604527 CCTACAGTAT
34604537 TTTCAGAATATCATAACATATATCAA
1 TTTCAGAATATCATAACATATATCAA
* * *
34604563 TTTCAGAATATCATAGCATGTATTAA
1 TTTCAGAATATCATAACATATATCAA
34604589 TTTCAGAA
1 TTTCAGAA
34604597 CACTTACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTCAGAATATCATAACATATATCAA
Found at i:34605361 original size:34 final size:33
Alignment explanation
Indices: 34605309--34605375 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
34605299 GTACAATTGA
* *
34605309 ACAGCTTGGGCCTAAGCCCTTTTTAGTATCAGTG
1 ACAGCTTGGGCCTAAGCCCATCTTAGTA-CAGTG
* * *
34605343 ACAGTTTGGGCTTTAGCCCATCTTAGTACAGTG
1 ACAGCTTGGGCCTAAGCCCATCTTAGTACAGTG
34605376 TCAAAACTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (33 bp):
ACAGCTTGGGCCTAAGCCCATCTTAGTACAGTG
Found at i:34612290 original size:26 final size:26
Alignment explanation
Indices: 34612255--34612314 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
34612245 CCTACAGTAT
34612255 TTTCAGAATATCATAACATATATCAA
1 TTTCAGAATATCATAACATATATCAA
* * *
34612281 TTTCAGAATATCATAGCATGTATTAA
1 TTTCAGAATATCATAACATATATCAA
34612307 TTTCAGAA
1 TTTCAGAA
34612315 CACTTACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTCAGAATATCATAACATATATCAA
Found at i:34613206 original size:23 final size:24
Alignment explanation
Indices: 34613168--34613212 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34613158 CAAATCCTAC
*
34613168 CCATCCAGCCTCTACACACCATCT
1 CCATCCAGACTCTACACACCATCT
*
34613192 CCATCCA-ACTCTACACTCCAT
1 CCATCCAGACTCTACACACCAT
34613213 GAGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.27, C:0.49, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAGACTCTACACACCATCT
Found at i:34615155 original size:26 final size:26
Alignment explanation
Indices: 34615116--34615172 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
34615106 TCGTTATATA
34615116 GCTCTTCATAAGCTTCCCGATTAAAG
1 GCTCTTCATAAGCTTCCCGATTAAAG
* * * * *
34615142 GCTCTTTATGAGCTTTCTGATTAATG
1 GCTCTTCATAAGCTTCCCGATTAAAG
34615168 GCTCT
1 GCTCT
34615173 CCGGAGCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
GCTCTTCATAAGCTTCCCGATTAAAG
Found at i:34615733 original size:22 final size:22
Alignment explanation
Indices: 34615702--34615743 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34615692 TACACCAAAA
*
34615702 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
34615724 TAGGCCTTTAGCGGTGCTTT
1 TAGGCCTTTAGCGGCGCTTT
34615744 GATAAGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:34615863 original size:43 final size:43
Alignment explanation
Indices: 34615806--34615990 Score: 192
Period size: 43 Copynumber: 4.3 Consensus size: 43
34615796 TCTTTTAGAG
* *
34615806 AAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* *** *
34615849 AGAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* * * *
34615892 AAAAATGCCGCTAAAGAACAAGACCTTTAGCGATGCTTTTCCT
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* * * * * * *
34615935 ACAAGCGCCGCTAAAG-CTCATGACTTTTAGCGACGCTTCTACT
1 AAAAACGCCGCTAAAGAC-CAAGACCTTTAGCGACGCTTTTCCC
34615978 AAAAACGCCGCTA
1 AAAAACGCCGCTA
34615991 TGACATTGAC
Statistics
Matches: 116, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
Found at i:34615964 original size:86 final size:86
Alignment explanation
Indices: 34615806--34616033 Score: 225
Period size: 86 Copynumber: 2.7 Consensus size: 86
34615796 TCTTTTAGAG
* * * *
34615806 AAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAGAAACGCCGCTAAAGACTTGG
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACTTGG
* * *
34615871 ACCTTTAGCGGCGCTTTTCCC
66 ACCTTTAGCGACGCTTCTACC
* * * *
34615892 AAAAATGCCGCTAAAGAACAAGACCTTTAGCGATGCTTTTCCTACAAGCGCCGCTAAAG-CTCAT
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACT--T
* *
34615956 -GACTTTTAGCGACGCTTCTACT
64 GGACCTTTAGCGACGCTTCTACC
* * * *
34615978 AAAAACGCCGCT-ATG-ACATTGACTTTTAGCGACGCATTTT--CACAAACGCCACTAAA
1 AAAAACGCCGCTAAAGAACA-AGACCTTTAGCGACGC-TTTTCCCACAAACGCCGCTAAA
34616034 AGCATAACTT
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
84 16 0.14
85 17 0.15
86 83 0.71
87 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACTTGG
ACCTTTAGCGACGCTTCTACC
Found at i:34616095 original size:5 final size:5
Alignment explanation
Indices: 34616085--34616110 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34616075 CTATAATAAA
34616085 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
34616111 TGAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:34618049 original size:8 final size:8
Alignment explanation
Indices: 34618032--34618069 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
34618022 TTTTTGCATG
*
34618032 TTTCCAGT
1 TTTCCCGT
34618040 TTTCCCGT
1 TTTCCCGT
34618048 TTTCCCG-
1 TTTCCCGT
*
34618055 TTTCCAGT
1 TTTCCCGT
34618063 TTTCCCG
1 TTTCCCG
34618070 CACTTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.05, C:0.34, G:0.13, T:0.47
Consensus pattern (8 bp):
TTTCCCGT
Found at i:34618058 original size:15 final size:15
Alignment explanation
Indices: 34618040--34618069 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34618030 TGTTTCCAGT
*
34618040 TTTCCCGTTTTCCCG
1 TTTCCAGTTTTCCCG
34618055 TTTCCAGTTTTCCCG
1 TTTCCAGTTTTCCCG
34618070 CACTTAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.37, G:0.13, T:0.47
Consensus pattern (15 bp):
TTTCCAGTTTTCCCG
Found at i:34622042 original size:13 final size:13
Alignment explanation
Indices: 34622024--34622048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34622014 ATTTATCAAT
34622024 TTTTTAAATATAA
1 TTTTTAAATATAA
34622037 TTTTTAAATATA
1 TTTTTAAATATA
34622049 TCAAATGGTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAATATAA
Found at i:34622345 original size:14 final size:14
Alignment explanation
Indices: 34622328--34622359 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34622318 CTTAAACCTT
34622328 TAACTCCTAACCCC
1 TAACTCCTAACCCC
*
34622342 TAACTGCTAACCCC
1 TAACTCCTAACCCC
34622356 TAAC
1 TAAC
34622360 CCCTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.22
Consensus pattern (14 bp):
TAACTCCTAACCCC
Found at i:34622602 original size:61 final size:63
Alignment explanation
Indices: 34622489--34622618 Score: 203
Period size: 61 Copynumber: 2.1 Consensus size: 63
34622479 CCCCTAACTA
* *
34622489 CTAACCCCTAATCCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
34622552 CTAACCCATAAACCTTATTT-A-ATATAAATTAAAATAA-ACTAATTAATCTAAACCCTAAACC
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAA-AACACTAATTAATCTAAACCCTAAACC
*
34622613 TTAACC
1 CTAACC
34622619 TAACACCGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
61 42 0.67
62 3 0.05
63 18 0.29
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (63 bp):
CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
Found at i:34622685 original size:21 final size:21
Alignment explanation
Indices: 34622645--34622685 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34622635 AACATTAAAT
* * *
34622645 CCCTAACTCTTAATCTCTAAC
1 CCCTAACCCTTAACCCCTAAC
34622666 CCCTAACCCTTAACCCCTAA
1 CCCTAACCCTTAACCCCTAA
34622686 ATCACAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:34622818 original size:16 final size:14
Alignment explanation
Indices: 34622782--34622816 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34622772 CTAAATTAAT
*
34622782 CATATACCCTAAAC
1 CATATATCCTAAAC
34622796 CATATATCCTAAAC
1 CATATATCCTAAAC
34622810 CATATAT
1 CATATAT
34622817 ATTAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CATATATCCTAAAC
Found at i:34622822 original size:14 final size:14
Alignment explanation
Indices: 34622790--34622824 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34622780 ATCATATACC
*
34622790 CTAAACCATATATC
1 CTAAACCATATATA
34622804 CTAAACCATATATA
1 CTAAACCATATATA
*
34622818 TTAAACC
1 CTAAACC
34622825 CTAAACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CTAAACCATATATA
Found at i:34623192 original size:41 final size:41
Alignment explanation
Indices: 34623147--34623421 Score: 361
Period size: 41 Copynumber: 6.7 Consensus size: 41
34623137 TGTTTTTGCA
*
34623147 GCGCTTTTTTAAAAATGCCGCTAAAGCCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** *
34623188 GCGCTTCTCCAAAAACGCCGCTAAATCCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* *
34623229 GCGCTTTTTTAAAAACGTCACTAAAGCCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** *
34623270 GCGCTTCTCCAAAAACGCCGCTAAATCCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* *
34623311 GCGCTTTTTTAAAAACGCCACTAAAACCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** ** *
34623352 GCGCTTCTCCAAAAACGCCGCTAATTCCCTGAGCATTTGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* *
34623393 GCGTTTTTTTAAAAACGCCACTAAAGCCC
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCC
34623422 CGAAAGGTCA
Statistics
Matches: 198, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 198 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
Found at i:34623241 original size:82 final size:82
Alignment explanation
Indices: 34623147--34623421 Score: 487
Period size: 82 Copynumber: 3.4 Consensus size: 82
34623137 TGTTTTTGCA
* *
34623147 GCGCTTTTTTAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
34623212 ATCCCTGAGCATTAGCG
66 ATCCCTGAGCATTAGCG
*
34623229 GCGCTTTTTTAAAAACGTCACTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
34623294 ATCCCTGAGCATTAGCG
66 ATCCCTGAGCATTAGCG
*
34623311 GCGCTTTTTTAAAAACGCCACTAAAACCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
* *
34623376 TTCCCTGAGCATTTGCG
66 ATCCCTGAGCATTAGCG
*
34623393 GCGTTTTTTTAAAAACGCCACTAAAGCCC
1 GCGCTTTTTTAAAAACGCCACTAAAGCCC
34623422 CGAAAGGTCA
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 184 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (82 bp):
GCGCTTTTTTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
ATCCCTGAGCATTAGCG
Found at i:34625263 original size:16 final size:15
Alignment explanation
Indices: 34625230--34625272 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
34625220 TTTTAATAAG
34625230 ATTTAATATTAAATTA
1 ATTTAATATT-AATTA
34625246 ATTTAATATTAATGTA
1 ATTTAATATTAAT-TA
34625262 A-TTAAT-TTAAT
1 ATTTAATATTAAT
34625273 CATAGTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.19
15 8 0.31
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTAATATTAATTA
Found at i:34633259 original size:21 final size:21
Alignment explanation
Indices: 34633198--34633245 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34633188 GGTCGAAAAC
**
34633198 TGAACAGAAGGTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
34633219 TTAACAGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
34633240 TGAACA
1 TGAACA
34633246 AAAGCTCGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:34635193 original size:5 final size:5
Alignment explanation
Indices: 34635183--34635216 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
34635173 GGGGTAGAAG
* *
34635183 GGGAT GGGAT GGGAT GGGAT GGGAG GGGAG GGGA
1 GGGAT GGGAT GGGAT GGGAT GGGAT GGGAT GGGA
34635217 GTAAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.68, T:0.12
Consensus pattern (5 bp):
GGGAT
Found at i:34646182 original size:19 final size:20
Alignment explanation
Indices: 34646143--34646183 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34646133 CTTAAGATAG
*
34646143 TAAAATATATTTGGAATAAT
1 TAAAATATATTTAGAATAAT
*
34646163 TAAAATATTTTTAG-ATAAT
1 TAAAATATATTTAGAATAAT
34646182 TA
1 TA
34646184 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
TAAAATATATTTAGAATAAT
Found at i:34650126 original size:18 final size:17
Alignment explanation
Indices: 34650103--34650137 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34650093 TGTATTTTAC
*
34650103 AAGAATAAGTATACAAAA
1 AAGAATAAATATA-AAAA
34650121 AAGAATAAATATAAAAA
1 AAGAATAAATATAAAAA
34650138 CAATAATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (17 bp):
AAGAATAAATATAAAAA
Found at i:34652600 original size:15 final size:19
Alignment explanation
Indices: 34652557--34652606 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
34652547 TTTTTTGTTT
34652557 TTTATTTTTAATTAATATAA
1 TTTA-TTTTAATTAATATAA
34652577 TTTATTTTAATTAA-A-AA
1 TTTATTTTAATTAATATAA
34652594 -TTA-TTTAATTAAT
1 TTTATTTTAATTAAT
34652607 TCGTGGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 2 0.07
18 1 0.03
19 10 0.34
20 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATTTTAATTAATATAA
Found at i:34654568 original size:21 final size:21
Alignment explanation
Indices: 34654544--34654588 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34654534 CTCGTGTAAC
*
34654544 AATTAACATATACTTCATAAA
1 AATTAACAAATACTTCATAAA
* *
34654565 AATTCAGAAATACTTCATAAA
1 AATTAACAAATACTTCATAAA
34654586 AAT
1 AAT
34654589 ATATATCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
AATTAACAAATACTTCATAAA
Found at i:34659779 original size:12 final size:12
Alignment explanation
Indices: 34659762--34659791 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34659752 GGACACACGG
34659762 CCGTGTCCTAAC
1 CCGTGTCCTAAC
*
34659774 CCGTGTCCTCAC
1 CCGTGTCCTAAC
34659786 CCGTGT
1 CCGTGT
34659792 AACTCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTAAC
Found at i:34661277 original size:25 final size:25
Alignment explanation
Indices: 34661221--34661278 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
34661211 TCAATCCATT
*
34661221 TAAATTATAAATAACATAATAAACA
1 TAAATTTTAAATAACATAATAAACA
** *
34661246 TTCATTTTAAATAACATAA-ACACGA
1 TAAATTTTAAATAACATAATAAAC-A
34661271 TAAATTTT
1 TAAATTTT
34661279 CATACAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (25 bp):
TAAATTTTAAATAACATAATAAACA
Found at i:34664751 original size:765 final size:765
Alignment explanation
Indices: 34663281--34664811 Score: 2981
Period size: 765 Copynumber: 2.0 Consensus size: 765
34663271 TGAAGTTGTA
34663281 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
1 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
34663346 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
66 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
34663411 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
131 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
34663476 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
196 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
34663541 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
261 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
34663606 GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
326 GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
* *
34663671 TCGTCACAACGTCATGAAGAACAAGATCATCGACCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
391 TCGTCACAACGTCATGAAGAACAAGATCATAGACCCAAAGAAAAAGAAAGCGACGTCGTGACGAC
34663736 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTATTTTGAATTAGTTTGGGACTTCATCTAATC
456 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTATTTTGAATTAGTTTGGGACTTCATCTAATC
* *
34663801 TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGATAGGAAAATGTGAGAA
521 TTTAGGTACCTTCACCACCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
34663866 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
586 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
34663931 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
651 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
34663996 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
716 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
34664046 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
1 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
*
34664111 GATATGGTTAGGTAATTCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
66 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
*
34664176 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTTGTTAAACACATCTTTCTGGGATATTCTACCGGT
131 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
34664241 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
196 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
34664306 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
261 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
*
34664371 GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGATGACACGAAGAGCT
326 GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
*
34664436 TCGTCACAACGTCATGAAGAACAAGATCATAGTCCCAAAGAAAAAGAAAGCGACGTCGTGACGAC
391 TCGTCACAACGTCATGAAGAACAAGATCATAGACCCAAAGAAAAAGAAAGCGACGTCGTGACGAC
*
34664501 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
456 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTATTTTGAATTAGTTTGGGACTTCATCTAATC
34664566 TTTAGGTACCTTCACCACCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
521 TTTAGGTACCTTCACCACCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
34664631 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
586 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
34664696 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
651 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
34664761 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
716 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
34664811 A
1 A
34664812 TTATGTCTTG
Statistics
Matches: 757, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
765 757 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (765 bp):
AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
TCGTCACAACGTCATGAAGAACAAGATCATAGACCCAAAGAAAAAGAAAGCGACGTCGTGACGAC
GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTATTTTGAATTAGTTTGGGACTTCATCTAATC
TTTAGGTACCTTCACCACCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
Found at i:34666598 original size:20 final size:21
Alignment explanation
Indices: 34666565--34666605 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
34666555 TTCTATTATT
34666565 TTAATAAGATTTAATATTAAA
1 TTAATAAGATTTAATATTAAA
34666586 TTAATAA-ATTTAATATTAAA
1 TTAATAAGATTTAATATTAAA
34666606 GTGATTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATAAGATTTAATATTAAA
Found at i:34677560 original size:29 final size:30
Alignment explanation
Indices: 34677527--34677588 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
34677517 ACTTAACAAG
* *
34677527 CAAATGCCTCTAAAATAGTAAC-AAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
34677556 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
34677586 CAA
1 CAA
34677589 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:34677641 original size:14 final size:14
Alignment explanation
Indices: 34677622--34677648 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34677612 CAAACAATAA
34677622 CAACATAATAGTAG
1 CAACATAATAGTAG
34677636 CAACATAATAGTA
1 CAACATAATAGTA
34677649 AAATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:34685092 original size:25 final size:25
Alignment explanation
Indices: 34685035--34685106 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
34685025 ACACAATTAC
* *
34685035 CCACTTGACAATCCTTTGGGTTCGA
1 CCACTTGGCAATCCTTTGGGTTCAA
34685060 CCACTTGGCAATCCTTTGGGTTCAA
1 CCACTTGGCAATCCTTTGGGTTCAA
* *
34685085 CCACTTGG-AATACTTTGTGTTC
1 CCACTTGGCAATCCTTTGGGTTC
34685107 CATCAAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 12 0.28
25 31 0.72
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
CCACTTGGCAATCCTTTGGGTTCAA
Found at i:34687119 original size:4 final size:4
Alignment explanation
Indices: 34687110--34687155 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
34687100 TTGAATTTAT
34687110 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
34687156 TATATTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:34688926 original size:15 final size:15
Alignment explanation
Indices: 34688908--34688938 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34688898 AAGAGAGGAA
34688908 AATAGAAAAAACAAG
1 AATAGAAAAAACAAG
*
34688923 AATAGAAAAAAGAAG
1 AATAGAAAAAACAAG
34688938 A
1 A
34688939 TGAAGAAAAG
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:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (15 bp):
AATAGAAAAAACAAG
Found at i:34692175 original size:23 final size:23
Alignment explanation
Indices: 34692131--34692176 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
34692121 TATATACCAT
*
34692131 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAATAGTATA
*
34692154 TATTTTTATTATGTACAT-GTATA
1 TATTATTATTATGTA-ATAGTATA
34692177 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAATAGTATA
Found at i:34692443 original size:19 final size:19
Alignment explanation
Indices: 34692408--34692444 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34692398 ATATATTACC
**
34692408 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
34692427 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
34692445 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:34694705 original size:6 final size:6
Alignment explanation
Indices: 34694694--34694731 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
34694684 TTTTGTTTGC
34694694 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
34694732 CAGTGTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:34699788 original size:6 final size:6
Alignment explanation
Indices: 34699777--34699801 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34699767 TGTTTTATAA
34699777 CTTTGG CTTTGG CTTTGG CTTTGG C
1 CTTTGG CTTTGG CTTTGG CTTTGG C
34699802 ATTTCTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.32, T:0.48
Consensus pattern (6 bp):
CTTTGG
Found at i:34704610 original size:23 final size:23
Alignment explanation
Indices: 34704583--34704637 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
34704573 AAACTAATCC
34704583 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
34704605 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
34704628 TCTCTCAAAT
1 TCTCTCAAAT
34704638 CCATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:34704632 original size:22 final size:21
Alignment explanation
Indices: 34704583--34704637 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
34704573 AAACTAATCC
34704583 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
34704605 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
34704628 TCTCTCAAAT
1 TCTCTCAAAT
34704638 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 13 0.43
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:34704636 original size:11 final size:11
Alignment explanation
Indices: 34704583--34704637 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
34704573 AAACTAATCC
34704583 TCTCTCAAATT
1 TCTCTCAAATT
34704594 TCCTCTC-AATT
1 T-CTCTCAAATT
34704605 TGCTCTCAAATT
1 T-CTCTCAAATT
*
34704617 CCT-TCCAAATT
1 TCTCT-CAAATT
34704628 TCTCTCAAAT
1 TCTCTCAAAT
34704638 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:34706258 original size:17 final size:17
Alignment explanation
Indices: 34706236--34706271 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34706226 GTTCCGAAGT
34706236 TAGCGTGCGTTCAAGAA
1 TAGCGTGCGTTCAAGAA
*
34706253 TAGCGTGCGTTCTAGAA
1 TAGCGTGCGTTCAAGAA
34706270 TA
1 TA
34706272 CATGCCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (17 bp):
TAGCGTGCGTTCAAGAA
Found at i:34707055 original size:45 final size:45
Alignment explanation
Indices: 34707006--34707093 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
34706996 ATATTTTGAA
* *
34707006 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
34707051 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
34707094 TGTAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:34707097 original size:70 final size:70
Alignment explanation
Indices: 34707016--34707163 Score: 269
Period size: 70 Copynumber: 2.1 Consensus size: 70
34707006 TATTTTGATA
*
34707016 TTATTTTATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
*
34707081 GAAGT
66 GAAAT
34707086 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34707151 GAAAT
66 GAAAT
*
34707156 TTTTTTGA
1 TTATTTGA
34707164 GTTATTTTGA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAAT
Found at i:34707137 original size:45 final size:45
Alignment explanation
Indices: 34707086--34707208 Score: 228
Period size: 45 Copynumber: 2.7 Consensus size: 45
34707076 AAATAGAAGT
34707086 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
34707131 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
* *
34707176 TTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGA
34707209 TGTAATAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.50
Consensus pattern (45 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
Found at i:34707208 original size:115 final size:114
Alignment explanation
Indices: 34707006--34707267 Score: 488
Period size: 115 Copynumber: 2.3 Consensus size: 114
34706996 ATATTTTGAA
*
34707006 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATG
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATG
34707071 TAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGT
66 TAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAA-TTTTTTGAGT
34707121 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATG
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATG
*
34707186 TAATAAAATAGAAGTTTATTTGATGTAATAAAATATAAATTTTTTGAGT
66 TAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTGAGT
*
34707235 TATTTTGATATTATTCGATGTAATAAAATAGAA
1 TATTTTGATATTATTTGATGTAATAAAATAGAA
34707268 GTTTATCTGA
Statistics
Matches: 144, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 42 0.29
115 102 0.71
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (114 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATG
TAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTGAGT
Found at i:34707255 original size:69 final size:69
Alignment explanation
Indices: 34707131--34707535 Score: 724
Period size: 69 Copynumber: 5.9 Consensus size: 69
34707121 TATTTTGATA
*
34707131 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATATAAA-TTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34707196 GAAGT
65 GAAGT
*
34707201 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34707266 AAGT
66 AAGT
* *
34707270 TTATCTGATATAATAAAATATAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATATAAA-TTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34707335 GAAGT
65 GAAGT
* *
34707340 TTATTTGATGTAAT-AAA-ATAATTTTTTTGAGTTATTTTGATATTATTTGATGTATTAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34707403 AAGT
66 AAGT
34707407 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34707472 AAGT
66 AAGT
34707476 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
34707536 CATGTGATTA
Statistics
Matches: 321, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
67 58 0.18
68 7 0.02
69 177 0.55
70 79 0.25
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGT
Found at i:34707428 original size:206 final size:206
Alignment explanation
Indices: 34707131--34707535 Score: 740
Period size: 206 Copynumber: 2.0 Consensus size: 206
34707121 TATTTTGATA
34707131 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAAT--AAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34707196 GAAGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
64 GAAGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
34707261 AATAGAAGTTTATCTGATATAATAAAATATAAATTTTTTTGAGTTATTTTGATATTATTTGATGT
129 AATAGAAGTTTATCTGATATAATAAAATATAAA-TTTTTTGAGTTATTTTGATATTATTTGATGT
34707326 AATAAAATAGAAGT
193 AATAAAATAGAAGT
*
34707340 TTATTTGATGTAATAAAAT-AATTTTTTTGAGTTATTTTGATATTATTTGATGTATTAAAATAGA
1 TTATTTGATGTAATAAAATAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
*
34707404 AGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAA
66 AGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAA
* *
34707469 TAGAAGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAAT
131 TAGAAGTTTATCTGATATAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAAT
34707534 AA
196 AA
34707536 CATGTGATTA
Statistics
Matches: 192, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
205 36 0.19
206 137 0.71
209 19 0.10
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (206 bp):
TTATTTGATGTAATAAAATAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
AGTTTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAA
TAGAAGTTTATCTGATATAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAAT
AAAATAGAAGT
Found at i:34710575 original size:125 final size:125
Alignment explanation
Indices: 34710329--34710699 Score: 557
Period size: 125 Copynumber: 3.0 Consensus size: 125
34710319 CAAACATGCT
* * *
34710329 ACTGTAGCAAAAGCGTGTCCATGTGAGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
34710394 GAAGCGATTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
34710454 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGT
* * * * *
34710518 TGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGACCT
65 AGAAGCG-ATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
34710579 ACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
34710644 AAAGCGATTTTATATTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGG
66 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGG
34710700 CCCTAAAAAC
Statistics
Matches: 218, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 41 0.19
125 137 0.63
126 40 0.18
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:34713411 original size:17 final size:17
Alignment explanation
Indices: 34713389--34713424 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34713379 CTAATAAGTT
*
34713389 AAAAAAAAGAAGAAAGA
1 AAAAAAAAAAAGAAAGA
*
34713406 AAAAAAAAAAAGAATGA
1 AAAAAAAAAAAGAAAGA
34713423 AA
1 AA
34713425 TCTTGAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAGA
Found at i:34715786 original size:91 final size:91
Alignment explanation
Indices: 34715631--34715810 Score: 333
Period size: 91 Copynumber: 2.0 Consensus size: 91
34715621 ACACCGATGT
* *
34715631 GTGTGATTCTATGAAAACTTTGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
1 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
34715696 TAACTCGTATGACATGAGTGTATTCA
66 TAACTCGTATGACATGAGTGTATTCA
34715722 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
1 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
*
34715787 TAACTTGTATGACATGAGTGTATT
66 TAACTCGTATGACATGAGTGTATT
34715811 TTATGAGATA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (91 bp):
GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
TAACTCGTATGACATGAGTGTATTCA
Found at i:34726669 original size:131 final size:132
Alignment explanation
Indices: 34726256--34726667 Score: 515
Period size: 131 Copynumber: 3.1 Consensus size: 132
34726246 GAATTGGTAA
* ** * *
34726256 TTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCTTACT
1 TTTCAACCTACTCCACTACTGC-TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACT
* * * * *
34726320 ACCTTAGAAAGACAAGACTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATA
64 ACCTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTA
34726385 CAAT
129 CAAT
* * * * *
34726389 ATTCAACCTACTTCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCCGCTT-CCTATTAT
1 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
* * * *
34726453 CTCGGGAATATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
66 CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
34726518 AT
131 AT
* * * *
34726520 CTTCAACCTACTCTACTGCTGCTCAGGGAGATAGGACT-GTGACTTAAATCTGCTTCCCTACTAC
1 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
** * * * * *
34726584 CTTGGGAAGATAAGATTCGCTATCTTTGATTTTCTTCAGTACTGCTTAGGGAGACAAGATCTACA
66 CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
34726649 AT
131 AT
34726651 TTTCAACCTACTCCACT
1 TTTCAACCTACTCCACT
34726668 GCAAACTCAG
Statistics
Matches: 237, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
130 15 0.06
131 177 0.75
132 28 0.12
133 17 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
AT
Found at i:34726759 original size:89 final size:89
Alignment explanation
Indices: 34726661--34726918 Score: 329
Period size: 89 Copynumber: 2.9 Consensus size: 89
34726651 TTTCAACCTA
* * * * * * *
34726661 CTCCACTGCAAACTCAGGGAGGCAGGGCTGGTGTTTTTGACCTGCTTCACTACTAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
* * *
34726726 ACAAGATCTGTTGTTTTCAG-TCTG
66 ACAAGATCTGCTATCTTCAGCT-TG
* * * * * *
34726750 CTCCGCTGCAAACTCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTTGCTGCCAATATAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
34726815 ACAAGATCTGCTATCTTCAGCTTG
66 ACAAGATCTGCTATCTTCAGCTTG
* * *
34726839 CTCCACTACAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTGCTTCGCTGCCAATACAAGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
34726904 ACAAGATCTGCTATC
66 ACAAGATCTGCTATC
34726919 GTTAGTCTGC
Statistics
Matches: 143, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
89 142 0.99
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATCTTCAGCTTG
Found at i:34727216 original size:11 final size:11
Alignment explanation
Indices: 34727200--34727301 Score: 60
Period size: 11 Copynumber: 9.9 Consensus size: 11
34727190 AAAAAAATTT
34727200 TATTTTAAAAA
1 TATTTTAAAAA
34727211 TATTTT--AAA
1 TATTTTAAAAA
*
34727220 -A--TTAAAAG
1 TATTTTAAAAA
*
34727228 TATTTTTAAAA
1 TATTTTAAAAA
*
34727239 TATTTTTAAAA
1 TATTTTAAAAA
*
34727250 TATTTT-TAAA
1 TATTTTAAAAA
34727260 -A--TTAAAAA
1 TATTTTAAAAA
* *
34727268 AATTTAAAAAAA
1 TATTT-TAAAAA
*
34727280 GTATTTTAAAAG
1 -TATTTTAAAAA
34727292 TATTTTAAAA
1 TATTTTAAAA
34727302 TTTAAAAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 6 0.08
9 6 0.08
10 3 0.04
11 39 0.55
12 9 0.13
13 4 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:34727238 original size:12 final size:11
Alignment explanation
Indices: 34727221--34727261 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
34727211 TATTTTAAAA
34727221 TTAAAAGTATTT
1 TTAAAA-TATTT
34727233 TTAAAATATTT
1 TTAAAATATTT
34727244 TTAAAATATTT
1 TTAAAATATTT
34727255 TTAAAAT
1 TTAAAAT
34727262 TAAAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAAAATATTT
Found at i:34727317 original size:9 final size:8
Alignment explanation
Indices: 34727304--34727328 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34727294 TTTTAAAATT
34727304 TAAAAAAA
1 TAAAAAAA
34727312 TAAAAAAA
1 TAAAAAAA
34727320 TAAAAAAA
1 TAAAAAAA
34727328 T
1 T
34727329 TATTGTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:34727346 original size:5 final size:5
Alignment explanation
Indices: 34727338--34727369 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
34727328 TTATTGTATT
34727338 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC C
34727370 AAAAAAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:34727613 original size:43 final size:44
Alignment explanation
Indices: 34727523--34727625 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 44
34727513 GAGTACCTCT
* * * **
34727523 ACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGTA
1 ACTTCAGGGAGATAAGATTAGTAGCTTCAACCTACTCCACTAAA
* * *
34727567 ACTTCAGGGAGATAAGATTGGTA-TTTCAACCTACTCCATTAAA
1 ACTTCAGGGAGATAAGATTAGTAGCTTCAACCTACTCCACTAAA
34727610 ACTTCAGGGAGATAAG
1 ACTTCAGGGAGATAAG
34727626 GTTTGATGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 30 0.59
44 21 0.41
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGATTAGTAGCTTCAACCTACTCCACTAAA
Found at i:34727883 original size:45 final size:45
Alignment explanation
Indices: 34727828--34728123 Score: 187
Period size: 45 Copynumber: 6.6 Consensus size: 45
34727818 TAATCTGTTC
*
34727828 CACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTTAGTTTGCCT
1 CACTGCAACTTCAGGGAGATAAGACTT-GCCATCTTCAGTTTGCCT
* * ** *
34727873 CACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTT
1 CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
* * * * * **
34727918 CACTGCAACTTCAGGAAGATAAGACTTG-TAACTTTAATCCG-CT
1 CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
* * * * * * *
34727961 CCACTGCAACTTTAGGGAGATAGGATTATTGGC-T-TT-AATCTG-TT
1 -CACTGCAACTTCAGGGAGATAAGA--CTTGCCATCTTCAGTTTGCCT
* * * * * *
34728005 CCACTGCAACTTCAAGGAGATAAGATTTGCCATTTTTAGCTTGCCC
1 -CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
** *
34728051 CACTGCAACTTCAGGG-GAATAAGACTTGCTTTCTTCAGTCTG-CT
1 CACTGCAACTTCAGGGAG-ATAAGACTTGCCATCTTCAGTTTGCCT
* *
34728095 CCACTGCAATTTTAGGGAGATAAGACTTG
1 -CACTGCAACTTCAGGGAGATAAGACTTG
34728124 TAACTTTAAT
Statistics
Matches: 194, Mismatches: 45, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 60 0.31
45 122 0.63
46 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
Found at i:34727964 original size:134 final size:131
Alignment explanation
Indices: 34727742--34727987 Score: 305
Period size: 134 Copynumber: 1.9 Consensus size: 131
34727732 CAGTCTGTTC
*
34727742 CACTGTAACTTCAGAGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGA
1 CACTGTAACTTCAGAGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGAAGATAGA
* ** * *
34727807 ATTATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
66 ATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
34727872 T
131 T
* * * * ** *
34727873 CACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTTCACTGCAACTTCAGGAAGAT
1 CACTGTAACTTCAGAGAGATAAGACTT-C--ACTTCAATCCGCTCCACTGCAACTTCAGGAAGAT
* * *
34727938 AAGACTT-GTAACTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATT
63 -AGAATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
34727988 ATTGGCTTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
131 25 0.26
132 1 0.01
134 64 0.67
135 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (131 bp):
CACTGTAACTTCAGAGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGAAGATAGA
ATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
T
Found at i:34728143 original size:134 final size:133
Alignment explanation
Indices: 34727918--34728167 Score: 308
Period size: 134 Copynumber: 1.9 Consensus size: 133
34727908 CAGTTTGCTT
*
34727918 CACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTTAGGGAGATA
* * ** * *
34727983 GGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAG-GAGATAAGATTTGCCATTTTTAGCTT
66 AGATTAGTAACTTTAATCTGCTCCACTGCAACCT-AAGAGAGATAAGATTTGCCATTTTTAGCTT
34728047 GCCC
130 GCCC
* ** * * *
34728051 CACTGCAACTTCAGG-GGAATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAATTTTAGGGAGA
1 CACTGCAACTTCAGGAAG-ATAAGACTTG-TAACTTCAATCCGCTCCACTGCAACTTTAGGGAGA
* *
34728115 TAAGACTT-GTAACTTTAATCTGCTCCACTGTAACCTAAGAGAGATAGGATTTG
64 TAAGA-TTAGTAACTTTAATCTGCTCCACTGCAACCTAAGAGAGATAAGATTTG
34728168 TGGTTTCATC
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
132 1 0.01
133 28 0.29
134 67 0.68
135 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (133 bp):
CACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTTAGGGAGATA
AGATTAGTAACTTTAATCTGCTCCACTGCAACCTAAGAGAGATAAGATTTGCCATTTTTAGCTTG
CCC
Found at i:34728159 original size:44 final size:43
Alignment explanation
Indices: 34727735--34728160 Score: 189
Period size: 44 Copynumber: 9.6 Consensus size: 43
34727725 CTATCTTCAG
* * * * *
34727735 TCTGTTCCACTGTAACTTCAGAGAGATAAGAC-T-TCACTTCAA
1 TCTGCTCCACTGCAACTTAAG-GAGATAAGACTTGTAACTTTAA
* * * * **
34727777 TCCGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTT-GTAACTTTAA
* * * * *
34727821 TCTGTTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTTAG
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTT-G-TAACTTTAA
* * * * ** * *
34727866 TTTGC-CTCACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAG
1 TCTGCTC-CACTGCAACTT-AAGGAGATAAGACTTG-TAACTTTAA
* * *
34727911 TTTGCTTCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTAAGG-AGATAAGACTTGTAACTTTAA
* * * * **
34727955 TCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTATTGGCTTTAA
1 TCTGCTCCACTGCAAC-TTAAGGAGATAAGACTT-GTAACTTTAA
* * ** * *
34727999 TCTGTTCCACTGCAACTTCAAGGAGATAAGATTTGCCATTTTTA
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTTGTAACTTTAA
* * * * ** * *
34728043 GCTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTCAG
1 TC-TGCTCCACTGCAACTTAAGGAG-ATAAGACTTG-TAACTTTAA
* *
34728089 TCTGCTCCACTGCAATTTTAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAA-CTTAAGGAGATAAGACTTGTAACTTTAA
* *
34728133 TCTGCTCCACTGTAACCTAAGAGAGATA
1 TCTGCTCCACTGCAACTTAAG-GAGATA
34728161 GGATTTGTGG
Statistics
Matches: 286, Mismatches: 79, Indels: 36
0.71 0.20 0.09
Matches are distributed among these distances:
41 3 0.01
42 21 0.07
43 8 0.03
44 126 0.44
45 118 0.41
46 10 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTAAGGAGATAAGACTTGTAACTTTAA
Found at i:34728161 original size:178 final size:178
Alignment explanation
Indices: 34727728--34728165 Score: 646
Period size: 178 Copynumber: 2.5 Consensus size: 178
34727718 AGATTTACTA
* * * * *
34727728 TCTTCAGTCTGTTCCACTGTAACTTCAGAGAGATAAGAC-T-TCACTTCAATCCGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* * *
34727791 ACTTCAGGGAGATAGAATTATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG
66 ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
* * * *
34727856 CCATCTTTAGTTTGCCTCACTGTAACTTCAGGGGGATAAGACTTGCTT
131 CCATCTTTAGCTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
* * *
34727904 TCTTCAGTTTGCTTCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* *
34727969 ACTTTAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTTG
66 ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
*
34728034 CCATTTTTAGCTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
131 CCATCTTTAGCTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
* * * *
34728082 TCTTCAGTCTGCTCCACTGCAATTTTAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* *
34728147 ACCTAAGAGAGATAGGATT
66 ACTTAAGGGAGATAGGATT
34728166 TGTGGTTTCA
Statistics
Matches: 233, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 33 0.14
177 1 0.00
178 199 0.85
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (178 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
CCATCTTTAGCTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
Found at i:34728479 original size:24 final size:24
Alignment explanation
Indices: 34728447--34728524 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
34728437 GATTGTCCCT
*
34728447 ACTGTAATCTCCAAGGTTCAATCC
1 ACTGTAATCTTCAAGGTTCAATCC
34728471 ACTGTAATCTTCAAGGTTCAATCC
1 ACTGTAATCTTCAAGGTTCAATCC
* *
34728495 ACTGTAATCTTCAAGGTTTAGTCC
1 ACTGTAATCTTCAAGGTTCAATCC
34728519 ACTGTA
1 ACTGTA
34728525 TTTTTGGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (24 bp):
ACTGTAATCTTCAAGGTTCAATCC
Found at i:34732723 original size:19 final size:20
Alignment explanation
Indices: 34732699--34732745 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
34732689 TGTGAAAATC
*
34732699 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
34732718 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
34732738 -AATGCAAA
1 TAATGCAAA
34732746 AAGAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:34734535 original size:15 final size:16
Alignment explanation
Indices: 34734517--34734549 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34734507 AAATGTAAAC
34734517 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
34734532 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
34734548 AA
1 AA
34734550 TAAGGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:34735471 original size:16 final size:17
Alignment explanation
Indices: 34735437--34735475 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
34735427 ATATCTAAGA
34735437 TTTATAAAATATTAAATT
1 TTTATAAAATATT-AATT
*
34735455 TTTATAAAATATTATTT
1 TTTATAAAATATTAATT
34735472 TTTA
1 TTTA
34735476 AGTTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATAAAATATTAATT
Found at i:34735506 original size:9 final size:9
Alignment explanation
Indices: 34735492--34735655 Score: 58
Period size: 9 Copynumber: 19.4 Consensus size: 9
34735482 TATTATTTGA
34735492 AAAATATAT
1 AAAATATAT
34735501 AAAATATAT
1 AAAATATAT
34735510 --AAT-TAT
1 AAAATATAT
*
34735516 -AAATTTAT
1 AAAATATAT
34735524 -AAA-ATAT
1 AAAATATAT
34735531 -AAA-ATAT
1 AAAATATAT
34735538 AAAATATAT
1 AAAATATAT
*
34735547 -ATA-AT-T
1 AAAATATAT
34735553 AAAATATAT
1 AAAATATAT
*
34735562 AAAA-AAAGCCT
1 AAAATATA---T
* *
34735573 ACAATATTTT
1 AAAATA-TAT
34735583 GAAACATATAT
1 -AAA-ATATAT
*
34735594 AAAAT-TTT
1 AAAATATAT
*
34735602 ACAATATAT
1 AAAATATAT
*
34735611 AATATATAT
1 AAAATATAT
34735620 -AAATA-A-
1 AAAATATAT
34735626 AAAAT-TAT
1 AAAATATAT
*
34735634 -AAATTTAT
1 AAAATATAT
34735642 ACAAATATAT
1 A-AAATATAT
34735652 AAAA
1 AAAA
34735656 GAACTAAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 42
0.67 0.09 0.24
Matches are distributed among these distances:
6 4 0.03
7 30 0.25
8 28 0.24
9 32 0.27
10 12 0.10
11 8 0.07
12 4 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATATAT
Done.