Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold277
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: 582610
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 3 of 4
Found at i:337469 original size:13 final size:13
Alignment explanation
Indices: 337451--337476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
337441 ACAAAGATCC
337451 ATGTATCGATACA
1 ATGTATCGATACA
337464 ATGTATCGATACA
1 ATGTATCGATACA
337477 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:337472 original size:33 final size:33
Alignment explanation
Indices: 337430--337496 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
337420 AAAATTTCCA
***
337430 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
337463 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
337496 A
1 A
337497 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:337540 original size:19 final size:18
Alignment explanation
Indices: 337516--337583 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
337506 CAGTAGCTAA
337516 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
337535 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
337550 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
337567 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
337584 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:337556 original size:13 final size:13
Alignment explanation
Indices: 337538--337562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337528 ACAATACTTA
337538 TGTATCGATACAT
1 TGTATCGATACAT
337551 TGTATCGATACA
1 TGTATCGATACA
337563 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:337560 original size:32 final size:32
Alignment explanation
Indices: 337519--337581 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
337509 TAGCTAATTA
*
337519 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
337551 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
337582 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:337663 original size:21 final size:21
Alignment explanation
Indices: 337639--337695 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
337629 CATTTGTAGG
337639 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
337660 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
337681 ATGTATCGATACATT
1 ATGTATCGATACATT
337696 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:337705 original size:1 final size:1
Alignment explanation
Indices: 337699--337739 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
337689 ATACATTTAA
***
337699 TTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
337740 CAAACACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:337723 original size:21 final size:21
Alignment explanation
Indices: 337697--337737 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
337687 CGATACATTT
337697 AATTTTTTTTTTTTTTTTTTC
1 AATTTTTTTTTTTTTTTTTTC
337718 AATTTTTTTTTTTTTTTTTT
1 AATTTTTTTTTTTTTTTTTT
337738 TTCAAACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.02, G:0.00, T:0.88
Consensus pattern (21 bp):
AATTTTTTTTTTTTTTTTTTC
Found at i:337729 original size:23 final size:23
Alignment explanation
Indices: 337699--337742 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
337689 ATACATTTAA
337699 TTTTTTTTTTTTTTTTTTCAATT
1 TTTTTTTTTTTTTTTTTTCAATT
337722 TTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTCAA
337743 ACACTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTTCAATT
Found at i:338476 original size:79 final size:77
Alignment explanation
Indices: 338380--338993 Score: 358
Period size: 79 Copynumber: 7.8 Consensus size: 77
338370 ACAACGGGGC
* *
338380 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAGTAAAATCGAGATTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAA-TAAAATCGGGATTGGAGTATCCCCTC
* *
338445 AAAAAATAACAGGT
65 -GAAAATAACGGGT
** * * **
338459 TGGAGTATCCTTGATTATAGAAAATTAG-TATTTTAAAAATAAAATCGGGATTGGAGTATCCCCG
1 TGGAGTATCCCCGATTAT-GAAAAATCGATATTTT-GGAATAAAATCGGGATTGGAGTATCCCC-
*
338523 T-GAAAATAATGGGGT
63 TCGAAAATAA-CGGGT
* * * * ** *
338538 TGGAGTATCCCCAACTATGAGAAATCAATATTTTGGAATAAAGCCGGGGTTGGAGTATCCCCTCG
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAATAAAATCGGGATTGGAGTATCCCCTCG
338603 AAAATAACGGGGT
66 AAAATAAC-GGGT
* *** ** * * *** *
338616 TGGAGTAT-CCC--TGATGAAATAA-CG--GGGTTGGAGTATCCCCAATTGTGA-AAAATTAGT-
1 TGGAGTATCCCCGATTATGAAA-AATCGATATTTTGGA--AT--AAAATCGGGATTGGAGTA-TC
*** **
338673 GTTTTAAAAATAAAATCGGGGT
60 CCCTCGAAAAT--AA-C-GGGT
* * * * * * * * *
338695 TGGAGTAGCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGAATT-GACGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTT-GGAATAAAATCGGGATTGGA-GTATCCCCT
338759 CGAAAATAACGAGGT
64 CGAAAATAACG-GGT
* * * *
338774 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAA-CAGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTG-GAATAAAATC-GGGATTGGAGTATCCCCT
*
338838 CGGAAATAACAGGGT
64 CGAAAATAAC-GGGT
* * * *
338853 TGGAGTATCCCCGATTATGAGAAATTGATATTTTAGAAATAAAA-CAGGG-TTGGAGTGTCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTT-GGAATAAAATC-GGGATTGGAGTATCCCCT
338916 CGAAAATAACGGGTT
64 CGAAAATAACGGG-T
* * * *
338931 TGGAGTATCCTCGATTATGAAAAGTCGGTGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTGG-AATAAAATCGGGA-TTGGAGTATCCCC
338994 GATTAGGAAA
Statistics
Matches: 408, Mismatches: 90, Indels: 74
0.71 0.16 0.13
Matches are distributed among these distances:
73 5 0.01
75 8 0.02
76 11 0.03
77 14 0.03
78 118 0.29
79 204 0.50
80 19 0.05
81 9 0.02
82 13 0.03
83 2 0.00
84 3 0.01
85 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (77 bp):
TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAATAAAATCGGGATTGGAGTATCCCCTCG
AAAATAACGGGT
Found at i:338617 original size:28 final size:28
Alignment explanation
Indices: 338582--338655 Score: 116
Period size: 28 Copynumber: 2.6 Consensus size: 28
338572 GGAATAAAGC
338582 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
338610 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
338638 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
338656 AATTGTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 34 0.79
29 3 0.07
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:338712 original size:51 final size:51
Alignment explanation
Indices: 338638--338742 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
338628 GATGAAATAA
*
338638 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAAAAATAAAAT
1 CGGGGTTGGAGTAGCCCCAATTGTGAAAAATTAGTGTTTTAAAAATAAAAT
* * * * *
338689 CGGGGTTGGAGTAGCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTAGCCCCAATTGTGAAAAATTAGTGTTTTAAAAATAAAAT
338740 CGG
1 CGG
338743 AATTGACGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTAGCCCCAATTGTGAAAAATTAGTGTTTTAAAAATAAAAT
Found at i:338984 original size:157 final size:158
Alignment explanation
Indices: 338691--338993 Score: 411
Period size: 157 Copynumber: 1.9 Consensus size: 158
338681 AATAAAATCG
* * *
338691 GGGTTGGAGTAGCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGAATTGACGTATCC
1 GGGTTGGAGTAGCCCCGATTATGGAGAATTGATATTTTAGAAATAAAATCGGAATTGACGTATCC
*
338756 CCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAACAG
66 CCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACAG
*
338821 GGGTTGGAGTATCCCCTCGGAAATAACA
131 GAGTTGGAGTATCCCCTCGGAAATAACA
* * *
338849 GGGTTGGAGTATCCCCGATTAT-GAGAAATTGATATTTTAGAAATAAAA-CAGG-GTTGGA-GTG
1 GGGTTGGAGTAGCCCCGATTATGGAG-AATTGATATTTTAGAAATAAAATC-GGAATT-GACGTA
* * * *
338910 TCCCCTCGAAAATAACG-GGTTTGGAGTATCCTCGATTATGAAAAGTCGGTGTTTTGGAAATAAA
63 TCCCCTCGAAAATAACGAGG-TTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAA
338974 ATC-GGAGTTGGAGTATCCCC
127 A-CAGGAGTTGGAGTATCCCC
338994 GATTAGGAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
156 2 0.02
157 81 0.63
158 45 0.35
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (158 bp):
GGGTTGGAGTAGCCCCGATTATGGAGAATTGATATTTTAGAAATAAAATCGGAATTGACGTATCC
CCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACAG
GAGTTGGAGTATCCCCTCGGAAATAACA
Found at i:339106 original size:102 final size:102
Alignment explanation
Indices: 338925--339111 Score: 279
Period size: 102 Copynumber: 1.8 Consensus size: 102
338915 TCGAAAATAA
* * ***
338925 CGGGTTTGGAGTATCCTCGATTATGAAAAGTCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAGTCGGTGTTTCAAAAATAAAATCGGAGTTGGAGTAT
338990 CCCCGATTAGGAAAAATTGATGTTTTGAAAATGAAAC
66 CCCCGATTAGGAAAAATTGATGTTTTGAAAATGAAAC
* *
339027 CGGGGTTGGAGTATCCCCGATTGTGGAAAA-TTGGTGTTTCAAAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAGTCGGTGTTTCAAAAATAAAATCGGAGTTGGAGTA
339091 TCCCCGATT-GTGAAAAATTGA
65 TCCCCGATTAG-GAAAAATTGA
339112 GAAACTTAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 1 0.01
102 70 0.92
103 5 0.07
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (102 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAGTCGGTGTTTCAAAAATAAAATCGGAGTTGGAGTAT
CCCCGATTAGGAAAAATTGATGTTTTGAAAATGAAAC
Found at i:339108 original size:51 final size:51
Alignment explanation
Indices: 338930--339110 Score: 238
Period size: 51 Copynumber: 3.5 Consensus size: 51
338920 AATAACGGGT
* * * * *
338930 TTGGAGTATCCTCGATTATGAAAAGTCGGTGTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAG
* * * *
338981 TTGGAGTATCCCCGATTAG-GAAAAATTGATGTTTTGAAAATGAAACCGGGG
1 TTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGAAAATAAAATCGGAG
* **
339032 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAG
339083 TTGGAGTATCCCCGATTGTGAAAAATTG
1 TTGGAGTATCCCCGATTGTGAAAAATTG
339111 AGAAACTTAA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.01
51 110 0.99
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAG
Found at i:342687 original size:21 final size:21
Alignment explanation
Indices: 342656--342708 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
342646 ATTTGAGTAG
* *
342656 TTATAATTTTTTTAATTGTAA
1 TTATTATTTTTTTAAATGTAA
342677 TT-TTGATTTTTTTAAATGTAA
1 TTATT-ATTTTTTTAAATGTAA
342698 TTATTATTTTT
1 TTATTATTTTT
342709 CGTTATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (21 bp):
TTATTATTTTTTTAAATGTAA
Found at i:344707 original size:2 final size:2
Alignment explanation
Indices: 344702--344726 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
344692 TTACTTTGCA
344702 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
344727 GCTTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:345359 original size:31 final size:31
Alignment explanation
Indices: 345324--345403 Score: 160
Period size: 31 Copynumber: 2.6 Consensus size: 31
345314 AAATGTTGCC
345324 TGTCCAGCTGTCATGGCTCAACTCTGTTTGT
1 TGTCCAGCTGTCATGGCTCAACTCTGTTTGT
345355 TGTCCAGCTGTCATGGCTCAACTCTGTTTGT
1 TGTCCAGCTGTCATGGCTCAACTCTGTTTGT
345386 TGTCCAGCTGTCATGGCT
1 TGTCCAGCTGTCATGGCT
345404 GATTTTGGCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (31 bp):
TGTCCAGCTGTCATGGCTCAACTCTGTTTGT
Found at i:345766 original size:21 final size:21
Alignment explanation
Indices: 345726--345791 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
345716 TTTTGTTTAA
*
345726 TATTTTA-ATAAATTAATAATT
1 TATTTTATATAAATT-TTAATT
*
345747 TATTTTATATAAATTTTAATA
1 TATTTTATATAAATTTTAATT
* *
345768 TA-TTTATAT-ATTTTTATTT
1 TATTTTATATAAATTTTAATT
345787 TATTT
1 TATTT
345792 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.24
20 9 0.24
21 13 0.34
22 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATATAAATTTTAATT
Found at i:345785 original size:14 final size:15
Alignment explanation
Indices: 345768--345832 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
345758 AATTTTAATA
345768 TATTTATATAT-TTT
1 TATTTATATATATTT
*
345782 TATTT-TATTTATTT
1 TATTTATATATATTT
* *
345796 TATTTTTATTATATTA
1 TATTTATA-TATATTT
345812 TATTTTATATAATATTT
1 TA-TTTATAT-ATATTT
345829 TATT
1 TATT
345833 ACTTTTTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 13 0.32
15 2 0.05
16 10 0.24
17 12 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTATATATATTT
Found at i:345801 original size:20 final size:21
Alignment explanation
Indices: 345760--345819 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
345750 TTTATATAAA
* *
345760 TTTTAATATATT-TA-TATAT
1 TTTTATTATATTATATTTTAT
*
345779 TTTTATTTTATT-TATTTTAT
1 TTTTATTATATTATATTTTAT
345799 TTTTATTATATTATATTTTAT
1 TTTTATTATATTATATTTTAT
345820 ATAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.34
20 15 0.43
21 8 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTATATTATATTTTAT
Found at i:354360 original size:22 final size:20
Alignment explanation
Indices: 354341--354378 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
354331 GGTTATGTTC
*
354341 ACATTAATTTATACTAATGT
1 ACATTAAGTTATACTAATGT
*
354361 ACATTTAGTTATACTAAT
1 ACATTAAGTTATACTAAT
354379 ACTTGAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (20 bp):
ACATTAAGTTATACTAATGT
Found at i:354751 original size:22 final size:22
Alignment explanation
Indices: 354700--354853 Score: 150
Period size: 22 Copynumber: 7.0 Consensus size: 22
354690 GGTTTAGGGT
* *
354700 ATATGTACATTTGGTT-TATTC
1 ATATGTACATTTAGTTATAGTC
*
354721 ACATGTACATTTAGTTATAGTC
1 ATATGTACATTTAGTTATAGTC
*
354743 ATATGTACATTTACTTATAGTC
1 ATATGTACATTTAGTTATAGTC
*
354765 ATATGTACATTTGGTTATAGTC
1 ATATGTACATTTAGTTATAGTC
* * * * *
354787 ATATGTATATTCAATTATATTG
1 ATATGTACATTTAGTTATAGTC
* ** *
354809 ATGTGTACATTTAGTTATCTTG
1 ATATGTACATTTAGTTATAGTC
*
354831 GTATGTACATTTA-TTGATAGTC
1 ATATGTACATTTAGTT-ATAGTC
354853 A
1 A
354854 CATATTTTCG
Statistics
Matches: 107, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
21 16 0.15
22 91 0.85
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (22 bp):
ATATGTACATTTAGTTATAGTC
Found at i:360226 original size:52 final size:52
Alignment explanation
Indices: 360154--360275 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
360144 TGAAAATTGG
* *
360154 CCTGCATGTGTCGATACATTTCATCGTGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
* *
360206 CCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTT
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
360258 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
360276 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:360286 original size:52 final size:52
Alignment explanation
Indices: 360154--360295 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
360144 TGAAAATTGG
* ** *
360154 CCTGCATGTGTCGATACATTTCATCGTGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTA
* ** *
360206 CCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTT
1 CCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTA
*
360258 CCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CCTGCATGTATCGATACATAACAT-AGTGTATCGATACA
360296 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (52 bp):
CCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:360302 original size:13 final size:13
Alignment explanation
Indices: 360284--360308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
360274 CAAAGATCAG
360284 TGTATCGATACAA
1 TGTATCGATACAA
360297 TGTATCGATACA
1 TGTATCGATACA
360309 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:362375 original size:22 final size:21
Alignment explanation
Indices: 362327--362386 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
362317 GTTTTAGGAT
362327 TATGTACATTCAGTTTATTCA
1 TATGTACATTCAGTTTATTCA
362348 TATGTACAATT-AGTTATACTT-A
1 TATGTAC-ATTCAGTT-TA-TTCA
*
362370 TATGTACTTTCA-TTTAT
1 TATGTACATTCAGTTTAT
362387 ATGCATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 15 0.44
22 14 0.41
23 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (21 bp):
TATGTACATTCAGTTTATTCA
Found at i:364489 original size:22 final size:22
Alignment explanation
Indices: 364464--364538 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
364454 AATTATAACT
*
364464 GAATATACATATTACTAGAATC
1 GAATGTACATATTACTAGAATC
*
364486 GAATGTACATATTACTAGAATG
1 GAATGTACATATTACTAGAATC
* *
364508 GAATGTACATATGACTA-AAGTT
1 GAATGTACATATTACTAGAA-TC
364530 GAATGTACA
1 GAATGTACA
364539 CATAATCGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 2 0.04
22 46 0.96
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (22 bp):
GAATGTACATATTACTAGAATC
Found at i:364873 original size:22 final size:23
Alignment explanation
Indices: 364817--364875 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
364807 TTTCGTATAT
*
364817 CTAAATGTACATATGACTAAAGA
1 CTAAATGTACATATGACTAAAAA
*
364840 C--AATGTAGATATGAC-AAAAA
1 CTAAATGTACATATGACTAAAAA
364860 CTAAATGTACATATGA
1 CTAAATGTACATATGA
364876 GTACGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 12 0.39
23 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (23 bp):
CTAAATGTACATATGACTAAAAA
Found at i:374107 original size:43 final size:43
Alignment explanation
Indices: 373961--374124 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
373951 GCATTTAATT
* * * *
373961 CTTTTTTCCCTTTGTCCTCAAAGAGCAGGATGCCTTCTTTTTTTC
1 CTTTTTT--CTTTGTCCTCAAGGAGCAAGACGCATTCTTTTTTTC
* * * *
374006 CTTTTTTTCTTTGTCCTCAATGAGCAAAACGCA-T-TTTATCTC
1 C-TTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTCTTTTTTTC
* ** * *
374048 ATTTTCCCATTGTCCTCAAGGAGCAAGACGTATTCTTTTTTTC
1 CTTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTCTTTTTTTC
*
374091 CTTTTTTCTTTGTCCTCAAGGAGCAAGACCCATT
1 CTTTTTTCTTTGTCCTCAAGGAGCAAGACGCATT
374125 TCATTCTTCT
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 25 0.27
42 7 0.07
43 35 0.37
44 20 0.21
45 1 0.01
46 6 0.06
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (43 bp):
CTTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTCTTTTTTTC
Found at i:374173 original size:85 final size:85
Alignment explanation
Indices: 373897--374173 Score: 282
Period size: 85 Copynumber: 3.3 Consensus size: 85
373887 CTTTTAGTCT
** * * *
373897 TCAAAGAGCAAGACAAAC-C-TTTTTT-C-TTTTTCTTTTTTCCTCAAGGAGCAGGATGCATTTA
1 TCAAAGAGCAAGACGTACTCTTTTTTTCCTTTTTTC-TTTGTCCTCAAGGAGCAAGACGCATTTA
373958 ATTCTT-TTTTCCCTTTGTCC
65 ATTCTTCTTTTCCCTTTGTCC
* * * * *
373978 TCAAAGAGCAGGATG-CCTTCTTTTTTTCCTTTTTTTCTTTGTCCTCAATGAGCAAAACGCATTT
1 TCAAAGAGCAAGACGTAC-TCTTTTTTTCC-TTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTT
* *
374042 TA-TC-TCATTTTCCCATTGTCC
64 AATTCTTC-TTTTCCCTTTGTCC
* * * *
374063 TCAAGGAGCAAGACGTATTCTTTTTTTCCTTTTTTCTTTGTCCTCAAGGAGCAAGACCCATTTCA
1 TCAAAGAGCAAGACGTACTCTTTTTTTCCTTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTTAA
*
374128 TTCTTCTTTTCCCTTTATCC
66 TTCTTCTTTTCCCTTTGTCC
* *
374148 TCAAAAAAGCAAAACGTACTCTTTTT
1 TC-AAAGAGCAAGACGTACTCTTTTT
374174 CCTTTGTCCT
Statistics
Matches: 158, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
80 1 0.01
81 12 0.08
82 1 0.01
83 7 0.04
84 35 0.22
85 75 0.47
86 27 0.17
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (85 bp):
TCAAAGAGCAAGACGTACTCTTTTTTTCCTTTTTTCTTTGTCCTCAAGGAGCAAGACGCATTTAA
TTCTTCTTTTCCCTTTGTCC
Found at i:374355 original size:31 final size:31
Alignment explanation
Indices: 374305--374580 Score: 225
Period size: 31 Copynumber: 8.9 Consensus size: 31
374295 ACCTTAGAAT
*
374305 GTCAAAGCCCACACAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *
374336 GTAAAAGCCAACGCGAGTTGGTAGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * **
374367 GTCAAAGCCCGCACAAATTGACGGCA-CCTGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
* *
374398 GTCAAGGCCCACAGGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * *
374429 GTCAAAGTCCACATGAGTTGGTAGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
** * **
374460 GTCAAAGCCTGCACAAGTTGGCAGCA-CCTAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
* *
374491 GTCAAAGCCTACATGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * * ** *
374522 GTCAAAACCCCCACAAGTTAGCAGCA-CTTCA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
* *
374553 GTCAAAGCCCACACAAGTTGGTGACACC
1 GTCAAAGCCCACACGAGTTGGTGGCACC
374581 TAAGTCCGAG
Statistics
Matches: 188, Mismatches: 51, Indels: 11
0.75 0.20 0.04
Matches are distributed among these distances:
30 8 0.04
31 173 0.92
32 7 0.04
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (31 bp):
GTCAAAGCCCACACGAGTTGGTGGCACCCTA
Found at i:374548 original size:93 final size:93
Alignment explanation
Indices: 374305--374586 Score: 318
Period size: 93 Copynumber: 3.0 Consensus size: 93
374295 ACCTTAGAAT
* * *
374305 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGT-AAAAGCCAACGCGAGTTGGTAGCACCCTAGT
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAA-CCCACACGAGTTGGTAGCACCCTAGT
* * * *
374369 CAAAGCCCGCACAAATTGACGGCACCTGA
65 CAAAGCCCGCACAAGTTGGCAGCACCTAA
* * ** *
374398 GTCAAGGCCCACAGGAGTTGGTGGCACCCTAGTCAAAGTCCACATGAGTTGGTAGCACCCTAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAACCCACACGAGTTGGTAGCACCCTAGTC
*
374463 AAAGCCTGCACAAGTTGGCAGCACCTAA
66 AAAGCCCGCACAAGTTGGCAGCACCTAA
* * * * * * *
374491 GTCAAAGCCTACATGAGTTGGTGGCACCCTAGTCAAAACCCCCACAAGTTAGCAGCA-CTTCAGT
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAACCCACACGAGTTGGTAGCACCCT-AGT
* *
374555 CAAAGCCCACACAAGTTGG-TGACACCTAA
65 CAAAGCCCGCACAAGTTGGCAG-CACCTAA
374584 GTC
1 GTC
374587 CGAGTTAAGT
Statistics
Matches: 159, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
92 3 0.02
93 153 0.96
94 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.17
Consensus pattern (93 bp):
GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAACCCACACGAGTTGGTAGCACCCTAGTC
AAAGCCCGCACAAGTTGGCAGCACCTAA
Found at i:376919 original size:2 final size:2
Alignment explanation
Indices: 376914--376943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
376904 CTTTTTTAGA
376914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
376944 TGGCTCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:378096 original size:22 final size:22
Alignment explanation
Indices: 378065--378130 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
378055 TTAGCAAAAC
*
378065 TGAATATATATATGACTATAAT
1 TGAATATATATATAACTATAAT
* *
378087 TGAATGTATATATAACTATAAC
1 TGAATATATATATAACTATAAT
* * *
378109 TCAATATACATATTACTATAAT
1 TGAATATATATATAACTATAAT
378131 GAAATCTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (22 bp):
TGAATATATATATAACTATAAT
Found at i:378428 original size:22 final size:23
Alignment explanation
Indices: 378397--378450 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
378387 AGGTAGAATA
*
378397 TAAATATACAAT-TGACTATAAC
1 TAAATGTACAATATGACTATAAC
378419 TAAATGTAC-ATATGACTATAAC
1 TAAATGTACAATATGACTATAAC
*
378441 TAGATGTACA
1 TAAATGTACA
378451 GTTACAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (23 bp):
TAAATGTACAATATGACTATAAC
Found at i:380280 original size:11 final size:10
Alignment explanation
Indices: 380255--380279 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
380245 GAAGATGAAA
380255 TTTTTCTTTT
1 TTTTTCTTTT
380265 TTTTTCTTTT
1 TTTTTCTTTT
380275 TTTTT
1 TTTTT
380280 TTGTTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:381083 original size:18 final size:19
Alignment explanation
Indices: 381047--381083 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
381037 ACTACTCAGA
*
381047 TCTAGGTTTGATATCAAGT
1 TCTAAGTTTGATATCAAGT
381066 TCTAAGTTTGAT-TCAAGT
1 TCTAAGTTTGATATCAAGT
381084 CTTGGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (19 bp):
TCTAAGTTTGATATCAAGT
Found at i:385019 original size:19 final size:20
Alignment explanation
Indices: 384973--385027 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
384963 CTGCCAGTTT
*
384973 CATGTATCGATACAATTTAA
1 CATGTATCGATACAATTGAA
*
384993 -AGTGTATCGATACTA-TGAA
1 CA-TGTATCGATACAATTGAA
385012 CATGTATCGATACAAT
1 CATGTATCGATACAAT
385028 GCATCGATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:385992 original size:34 final size:36
Alignment explanation
Indices: 385925--386008 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 36
385915 AATTTCCCCA
* *
385925 TGCATTCATAAAAAATGATATCAAGGCAAACATTAAT
1 TGCATTCAT-GAAAATGATAGCAAGGCAAACATTAAT
*
385962 TGCATTCATGAAAA-GATAGCAA-GCAAACATTCAT
1 TGCATTCATGAAAATGATAGCAAGGCAAACATTAAT
* *
385996 TACAATCATGAAA
1 TGCATTCATGAAA
386009 GCAAACATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 22 0.52
35 7 0.17
36 4 0.10
37 9 0.21
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (36 bp):
TGCATTCATGAAAATGATAGCAAGGCAAACATTAAT
Found at i:386096 original size:18 final size:18
Alignment explanation
Indices: 386069--386103 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
386059 ATACAATTAG
*
386069 AAAATAACTATTCCTATA
1 AAAATAACTAATCCTATA
*
386087 AAAATGACTAATCCTAT
1 AAAATAACTAATCCTAT
386104 GACTAATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATAACTAATCCTATA
Found at i:392215 original size:3 final size:3
Alignment explanation
Indices: 392207--392240 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
392197 CGAGTCAACT
392207 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
392241 TGATGGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:393923 original size:20 final size:20
Alignment explanation
Indices: 393893--393946 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
393883 TGCCAGTTTT
* * *
393893 ATGTATTGATACAATTTAAG
1 ATGTATCGATACAATTGAAC
* *
393913 GTGTATCGATACTA-TGAAC
1 ATGTATCGATACAATTGAAC
393932 ATGTATCGATACAAT
1 ATGTATCGATACAAT
393947 GTATCGATAC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:393950 original size:13 final size:13
Alignment explanation
Indices: 393932--393956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
393922 TACTATGAAC
393932 ATGTATCGATACA
1 ATGTATCGATACA
393945 ATGTATCGATAC
1 ATGTATCGATAC
393957 TAAACAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:393955 original size:32 final size:33
Alignment explanation
Indices: 393914--393977 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
393904 CAATTTAAGG
**
393914 TGTATCGATACT-ATGAACATGTATCGATACAA
1 TGTATCGATACTAAACAACATGTATCGATACAA
*
393946 TGTATCGATACTAAACAATATGTATCGATACA
1 TGTATCGATACTAAACAACATGTATCGATACA
393978 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAACAACATGTATCGATACAA
Found at i:398449 original size:30 final size:30
Alignment explanation
Indices: 398398--398473 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
398388 CATTTCAAAC
*
398398 AAAAGAAAATAAGAGAGCTATAGCAAAG-A
1 AAAAGAAAATAAGAAAGCTATAGCAAAGCA
*
398427 AAAAGAAAAGAGAGAAAGCTATAGCAAAGCA
1 AAAAGAAAATA-AGAAAGCTATAGCAAAGCA
398458 AAAA-AAAATAAGAAAG
1 AAAAGAAAATAAGAAAG
398474 AAAAAAAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.38
30 21 0.50
31 5 0.12
ACGTcount: A:0.66, C:0.07, G:0.20, T:0.08
Consensus pattern (30 bp):
AAAAGAAAATAAGAAAGCTATAGCAAAGCA
Found at i:403683 original size:18 final size:18
Alignment explanation
Indices: 403642--403686 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
403632 TTTTCTTCTT
*
403642 TTTG-TTATTAGTTCTTA
1 TTTGTTTATTAGTTCCTA
* *
403659 ATAGTTTATTAGTTCCTA
1 TTTGTTTATTAGTTCCTA
403677 TTTGTTTATT
1 TTTGTTTATT
403687 TAATTGTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTGTTTATTAGTTCCTA
Found at i:405994 original size:7 final size:7
Alignment explanation
Indices: 405973--406011 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
405963 TTTAAAAGAT
405973 ATTTTAA
1 ATTTTAA
**
405980 ATGATAA
1 ATTTTAA
405987 ATTTTAA
1 ATTTTAA
405994 ATTTTAA
1 ATTTTAA
406001 ATTTTAA
1 ATTTTAA
406008 ATTT
1 ATTT
406012 GTTAAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (7 bp):
ATTTTAA
Found at i:408250 original size:24 final size:28
Alignment explanation
Indices: 408222--408278 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
408212 TTTAATTTTT
408222 TATAATTTT-T-TATATATTTAAA-ATA
1 TATAATTTTATATATATATTTAAATATA
*
408247 -ATAATTTTATATTTATATTTAAATATA
1 TATAATTTTATATATATATTTAAATATA
408274 TATAA
1 TATAA
408279 AATAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 8 0.30
25 1 0.04
26 11 0.41
27 3 0.11
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAATTTTATATATATATTTAAATATA
Found at i:408696 original size:12 final size:12
Alignment explanation
Indices: 408681--408750 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
408671 ATAACTTTGG
408681 ATATAATAAAAA
1 ATATAATAAAAA
*
408693 ATATAATATAAA
1 ATATAATAAAAA
* *
408705 ATA-AA-ATATA
1 ATATAATAAAAA
*
408715 ATATAATAAATA
1 ATATAATAAAAA
408727 ATATATATAATATAA
1 ATATA-ATAA-A-AA
408742 ATAT-ATAAA
1 ATATAATAAA
408751 TATATTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
10 7 0.14
11 4 0.08
12 24 0.49
13 8 0.16
14 1 0.02
15 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAATAAAAA
Found at i:408703 original size:17 final size:17
Alignment explanation
Indices: 408681--408760 Score: 92
Period size: 17 Copynumber: 4.6 Consensus size: 17
408671 ATAACTTTGG
408681 ATATAATAAAAAATATA
1 ATATAATAAAAAATATA
408698 ATATAA-AATAAAATATA
1 ATATAATAA-AAAATATA
*
408715 ATATAATAAATAATAT-
1 ATATAATAAAAAATATA
*
408731 ATATAATATAAATATATAA
1 ATATAATA-AAAAATAT-A
*
408750 ATATATTAAAA
1 ATATAATAAAA
408761 TTTATATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.19
17 32 0.59
18 5 0.09
19 7 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAATAAAAAATATA
Found at i:408760 original size:50 final size:50
Alignment explanation
Indices: 408681--408779 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
408671 ATAACTTTGG
408681 ATATAATAAAAAATATAATATAAAATAAAATATAATA-TAATAAATAATAT
1 ATATAATAAAAAATATAATATAAAATAAAAT-TAATATTAATAAATAATAT
* * * * *
408731 ATATAATATAAATATATAA-ATATATTAAAATTTATATTAATATATAATA
1 ATATAATA-AAAAATATAATATAAAATAAAATTAATATTAATAAATAATA
408780 ATTTAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.10
50 29 0.69
51 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (50 bp):
ATATAATAAAAAATATAATATAAAATAAAATTAATATTAATAAATAATAT
Found at i:408772 original size:20 final size:20
Alignment explanation
Indices: 408724--408784 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
408714 AATATAATAA
**
408724 ATAATATATATAATATAAATAT
1 ATAA-ATATATAATA-ATTTAT
408746 ATAAATATATTAA-AATTTAT
1 ATAAATATA-TAATAATTTAT
*
408766 ATTAATATATAATAATTTA
1 ATAAATATATAATAATTTA
408785 AAATAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.09
20 18 0.53
21 6 0.18
22 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAATATATAATAATTTAT
Found at i:408797 original size:26 final size:26
Alignment explanation
Indices: 408695--408798 Score: 72
Period size: 27 Copynumber: 3.8 Consensus size: 26
408685 AATAAAAAAT
*
408695 ATAATATAAAATAAAATATAATATAATAA
1 ATAATATAAAAT-AATTATAATAT-AT-A
*
408724 ATAATAT-ATATAA-TATAAATATATA
1 ATAATATAAAATAATTAT-AATATATA
*
408749 A-ATATATTAAAAT-TTATATTAATATATA
1 ATA-ATA-TAAAATAAT-TA-TAATATATA
*
408777 ATAATTTAAAATAATTATAATA
1 ATAATATAAAATAATTATAATA
408799 AAAAAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
24 1 0.02
25 5 0.08
26 11 0.18
27 18 0.30
28 17 0.28
29 9 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAATATAAAATAATTATAATATATA
Found at i:409287 original size:5 final size:5
Alignment explanation
Indices: 409273--409317 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
409263 AGGTCGCCTG
*
409273 TTTCT CTTCT TTTCT TTTCT TTTCT TTTCGT TTT-T TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T TTTCT TTTCT TTTCT
409318 ATCTCTTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:411271 original size:14 final size:14
Alignment explanation
Indices: 411247--411283 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
411237 TAATAAAATA
411247 AAAATTATAAATATT
1 AAAATT-TAAATATT
*
411262 AAGATTTAAATATT
1 AAAATTTAAATATT
411276 AAAATTTA
1 AAAATTTA
411284 TTAAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:413283 original size:22 final size:22
Alignment explanation
Indices: 413241--413283 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
413231 ATATTATACT
*
413241 GATAAAAAAATACATAAATATG
1 GATAAAAAAATAAATAAATATG
*
413263 GATAAAACAAA-AAATATATAT
1 GATAAAA-AAATAAATAAATAT
413284 ATTAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
GATAAAAAAATAAATAAATATG
Found at i:413790 original size:3 final size:3
Alignment explanation
Indices: 413782--413825 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
413772 AAATTAAAAC
*
413782 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
413826 TCTTCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:413967 original size:4 final size:4
Alignment explanation
Indices: 413942--413980 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
413932 TCTATTCTTC
* * *
413942 ATAT ACAT ATAA ATAC ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
413981 ATCTAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (4 bp):
ATAT
Found at i:413980 original size:10 final size:10
Alignment explanation
Indices: 413942--413976 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
413932 TCTATTCTTC
413942 ATATACATAT
1 ATATACATAT
*
413952 AAATACATAT
1 ATATACATAT
*
413962 ATATATATAT
1 ATATACATAT
413972 ATATA
1 ATATA
413977 TATAATCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:414473 original size:2 final size:2
Alignment explanation
Indices: 414466--414492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
414456 AAATTTTTAA
414466 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
414493 AATTATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:415173 original size:2 final size:2
Alignment explanation
Indices: 415166--415196 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
415156 GTTCCAAATA
415166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
415197 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:415201 original size:2 final size:2
Alignment explanation
Indices: 415196--415231 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
415186 ATATATATAT
415196 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
415232 TTAATTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:415496 original size:2 final size:2
Alignment explanation
Indices: 415478--415520 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
415468 ATTAATTGGA
* *
415478 AT AT CT AT AT AT GT AT AT AT -T AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
415518 AT A
1 AT A
415521 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:415525 original size:2 final size:2
Alignment explanation
Indices: 415520--415555 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
415510 ATATATATAT
415520 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
415556 CATCTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:416346 original size:6 final size:6
Alignment explanation
Indices: 416298--416364 Score: 66
Period size: 6 Copynumber: 10.7 Consensus size: 6
416288 TTAAGTTTTT
*
416298 ATTTAA A-TTATA ATTTAA A-ATAA ATATTAAA ATATTAAA ATTTAA ATTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA AT-TT-AA AT-TT-AA ATTTAA ATTTAA
416349 ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTT
416365 TAATGGATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
5 7 0.13
6 29 0.54
7 6 0.11
8 12 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:417118 original size:17 final size:17
Alignment explanation
Indices: 417096--417128 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
417086 ATTAAATTAT
417096 TTATTTAAATTTAAAAA
1 TTATTTAAATTTAAAAA
417113 TTATTTAAATTTAAAA
1 TTATTTAAATTTAAAA
417129 GAGTTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATTTAAATTTAAAAA
Found at i:418197 original size:22 final size:22
Alignment explanation
Indices: 418172--418225 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
418162 ATATATAATA
*
418172 AAATAATAAT-TTATCAAAAAGT
1 AAATAAT-ATCTTATCAAAAAAT
*
418194 AAATTATATCTTATCAAAAAAT
1 AAATAATATCTTATCAAAAAAT
*
418216 AAATTATATC
1 AAATAATATC
418226 ATGAGCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATAATATCTTATCAAAAAAT
Found at i:418378 original size:3 final size:3
Alignment explanation
Indices: 418357--418394 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
418347 TTATTTGAAG
* *
418357 ATT ATT CTT A-T AGT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
418395 TCAAGTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:422878 original size:63 final size:63
Alignment explanation
Indices: 422680--422870 Score: 348
Period size: 63 Copynumber: 3.0 Consensus size: 63
422670 AACGCCCAAG
422680 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCACA-GTCCAAATATT
1 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCA-AGGTCCAAATATT
*
422743 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCACGGTCCAAATATT
1 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCAAGGTCCAAATATT
*
422806 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCAAGGTCCAAATGTT
1 TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCAAGGTCCAAATATT
422869 TT
1 TT
422871 TTCTGCAGTA
Statistics
Matches: 124, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 124 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (63 bp):
TTGTGTGCAGGCTCTTTGCTGCTCAACAAAGATCATTGGCATCCTTAGCAAGGTCCAAATATT
Found at i:424375 original size:21 final size:20
Alignment explanation
Indices: 424351--424389 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
424341 AATGTTACTC
424351 AAACTATTAAAAAAGTTATTA
1 AAACTATTAAAAAA-TTATTA
*
424372 AAACTATTATAAAATTAT
1 AAACTATTAAAAAATTAT
424390 ATTAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
AAACTATTAAAAAATTATTA
Found at i:424381 original size:12 final size:11
Alignment explanation
Indices: 424355--424460 Score: 57
Period size: 11 Copynumber: 9.8 Consensus size: 11
424345 TTACTCAAAC
*
424355 TATTAAAAAAGT
1 TATTAAAATA-T
424367 TATTAAAACTAT
1 TATTAAAA-TAT
424379 TA-TAAAAT-T
1 TATTAAAATAT
*
424388 ATATTAAGA-AT
1 -TATTAAAATAT
*
424399 TATCAAAATTAT
1 TATTAAAA-TAT
424411 T-TTAAAA-AT
1 TATTAAAATAT
424420 TATTAAAAT-T
1 TATTAAAATAT
* *
424430 ATATCAATA-AT
1 -TATTAAAATAT
424441 TATTAAAAT-T
1 TATTAAAATAT
424451 ATATTAAAAT
1 -TATTAAAAT
424461 TAAAAAAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 25
0.68 0.08 0.23
Matches are distributed among these distances:
9 4 0.05
10 23 0.32
11 31 0.42
12 14 0.19
13 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:424408 original size:21 final size:20
Alignment explanation
Indices: 424367--424473 Score: 115
Period size: 21 Copynumber: 5.1 Consensus size: 20
424357 TTAAAAAAGT
*
424367 TATTAAAACTATTATAAAATTA
1 TATTAAAATTA-T-TAAAATTA
*
424389 TATTAAGAATTATCAAAATTA
1 TATTAA-AATTATTAAAATTA
*
424410 TTTTAAAAATTATTAAAATTA
1 TATT-AAAATTATTAAAATTA
*
424431 TATCAATAATTATTAAAATTA
1 TATTAA-AATTATTAAAATTA
**
424452 TATTAAAATTAAAAAAATTA
1 TATTAAAATTATTAAAATTA
424472 TA
1 TA
424474 CGAATGGTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
20 16 0.22
21 44 0.60
22 9 0.12
23 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (20 bp):
TATTAAAATTATTAAAATTA
Found at i:424569 original size:21 final size:21
Alignment explanation
Indices: 424507--424594 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
424497 AAGGTTATTA
*
424507 AAAAGTT-ACAAAAATAATATC
1 AAAAGTTAAC-AAAATTATATC
* *
424528 AAAGGTTAAACAAAATCATATC
1 AAAAGTT-AACAAAATTATATC
*
424550 AAAAGTTAATAAAATTATAT-
1 AAAAGTTAACAAAATTATATC
*
424570 AAAATGTTACCAAAATTATATC
1 AAAA-GTTAACAAAATTATATC
424592 AAA
1 AAA
424595 GATTGCTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.07
21 31 0.55
22 19 0.34
23 2 0.04
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (21 bp):
AAAAGTTAACAAAATTATATC
Found at i:424594 original size:11 final size:11
Alignment explanation
Indices: 424538--424594 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
424528 AAAGGTTAAA
*
424538 CAAAATCATAT
1 CAAAATTATAT
424549 CAAAAGTTA-AT
1 CAAAA-TTATAT
424560 -AAAATTATAT
1 CAAAATTATAT
*
424570 -AAAATGT-TAC
1 CAAAAT-TATAT
424580 CAAAATTATAT
1 CAAAATTATAT
424591 CAAA
1 CAAA
424595 GATTGCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 3 0.08
10 14 0.37
11 19 0.50
12 2 0.05
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (11 bp):
CAAAATTATAT
Found at i:424652 original size:21 final size:21
Alignment explanation
Indices: 424626--424667 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
424616 ATTTACAAAT
*
424626 TTTATA-CAAATAGTTGTTAAA
1 TTTATATCAAA-AGTTATTAAA
424647 TTTATATCAAAAGTTATTAAA
1 TTTATATCAAAAGTTATTAAA
424668 AAGTTGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (21 bp):
TTTATATCAAAAGTTATTAAA
Found at i:424724 original size:21 final size:22
Alignment explanation
Indices: 424675--424727 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
424665 AAAAAGTTGC
* *
424675 CAAAATAATATCAAAGGTTAAA
1 CAAAATTATATCAAAAGTTAAA
424697 CAAAATTATATCAAAAGTT-AA
1 CAAAATTATATCAAAAGTTAAA
*
424718 TAAAATTATA
1 CAAAATTATA
424728 AAATGTTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (22 bp):
CAAAATTATATCAAAAGTTAAA
Found at i:424754 original size:27 final size:27
Alignment explanation
Indices: 424708--424773 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
424698 AAAATTATAT
424708 CAAAAGTTAATAAAATTATAAAATGTTAC
1 CAAAA-TT-ATAAAATTATAAAATGTTAC
*
424737 CAAAATTATAAACTTATAAAATGTTAC
1 CAAAATTATAAAATTATAAAATGTTAC
424764 CAAAATTATA
1 CAAAATTATA
424774 TCAAAATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 29 0.81
28 2 0.06
29 5 0.14
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (27 bp):
CAAAATTATAAAATTATAAAATGTTAC
Found at i:424813 original size:39 final size:38
Alignment explanation
Indices: 424737--424817 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
424727 AAAATGTTAC
*
424737 CAAAATTATAAACTTATAAAATGTTACCAAAATTATAT
1 CAAAATTATAAACTTATAAAATGATACCAAAATTATAT
* * *
424775 CAAAATCTATAAATTTGTATAAATGATGCCAAAA-TATAT
1 CAAAAT-TATAAACTTATA-AAATGATACCAAAATTATAT
424814 CAAA
1 CAAA
424818 TGTTATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 6 0.16
39 19 0.51
40 12 0.32
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (38 bp):
CAAAATTATAAACTTATAAAATGATACCAAAATTATAT
Found at i:424878 original size:32 final size:29
Alignment explanation
Indices: 424804--424890 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
424794 TAAATGATGC
424804 CAAAATATATCAAATGTTATTAAAATTAT
1 CAAAATATATCAAATGTTATTAAAATTAT
* *
424833 AGAAAAAATATCAAAT-TTACATTAAAAGTTAT
1 -CAAAATATATCAAATGTT--ATTAAAA-TTAT
*
424865 CAAAATCATATCAAATATTATTAAAA
1 CAAAAT-ATATCAAATGTTATTAAAA
424891 GAACACAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
29 2 0.04
30 13 0.27
31 18 0.38
32 13 0.27
33 2 0.04
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (29 bp):
CAAAATATATCAAATGTTATTAAAATTAT
Found at i:424953 original size:20 final size:20
Alignment explanation
Indices: 424916--424967 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
424906 AGAAGCTATC
*
424916 AAAATCATATCAAA-ATTAGA
1 AAAATTATAT-AAAGATTAGA
* **
424936 AAAATTGTATAAAGATTATC
1 AAAATTATATAAAGATTAGA
424956 AAAATTATATAA
1 AAAATTATATAA
424968 TAAATTATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAATTATATAAAGATTAGA
Found at i:424981 original size:9 final size:9
Alignment explanation
Indices: 424912--425142 Score: 69
Period size: 11 Copynumber: 23.2 Consensus size: 9
424902 TATTAGAAGC
424912 TATCAAAAT
1 TATCAAAAT
424921 CATATCAAAAT
1 --TATCAAAAT
**
424932 TAGAAAAATT
1 TATCAAAA-T
424942 GTAT-AAAGAT
1 -TATCAAA-AT
424952 TATCAAAATT
1 TATCAAAA-T
*
424962 ATATAATAAAT
1 -TATCA-AAAT
424973 TATCAAAAT
1 TATCAAAAT
**
424982 GATAAAAAAAT
1 --TATCAAAAT
*
424993 TA--AAAAC
1 TATCAAAAT
425000 TATCAAAAT
1 TATCAAAAT
*
425009 CATAT-AAATGT
1 --TATCAAA-AT
*
425020 TATTAAAATT
1 TATCAAAA-T
425030 ATATCGAAAAT
1 -TATC-AAAAT
425041 TA-CTAAAAT
1 TATC-AAAAT
*
425050 TACTGAAAA-
1 TA-TCAAAAT
425059 TATCCAAAAT
1 TAT-CAAAAT
425069 TATCAAAAT
1 TATCAAAAT
*
425078 AATTACAAAAGT
1 TA-T-CAAAA-T
425090 TATCAAAATT
1 TATCAAAA-T
425100 ATATCAAAGAT
1 -TATCAAA-AT
425111 TATCAAAACTT
1 TATCAAAA--T
*
425122 TATAAAAAGT
1 TATCAAAA-T
425132 TATCAAAAT
1 TATCAAAAT
425141 TA
1 TA
425143 CTATAAATTT
Statistics
Matches: 170, Mismatches: 21, Indels: 60
0.68 0.08 0.24
Matches are distributed among these distances:
7 6 0.04
8 1 0.01
9 48 0.28
10 51 0.30
11 54 0.32
12 10 0.06
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (9 bp):
TATCAAAAT
Found at i:425049 original size:68 final size:68
Alignment explanation
Indices: 424943--425118 Score: 178
Period size: 68 Copynumber: 2.5 Consensus size: 68
424933 AGAAAAATTG
* *
424943 TATAAAGATTATCAAAATTATATAATAAATTATCAAAATGA-TAAAAAAATTAAAAACTATCAAA
1 TATAAAG-TTATCAAAATTATATCA-AAATTATCAAAATGACTAAAAAAATCAAAAACTATCAAA
*
425007 ATCA-
64 ATAAT
* * * * * *
425011 TATAAATGTTATTAAAATTATATCGAAAATTA-CTAAAATTACTGAAAATATCCAAAATTATCAA
1 TATAAA-GTTATCAAAATTATATC-AAAATTATC-AAAATGACTAAAAAAATCAAAAACTATCAA
425075 AATAAT
63 AATAAT
*
425081 TACAAAAGTTATCAAAATTATATCAAAGATTATCAAAA
1 TA-TAAAGTTATCAAAATTATATCAAA-ATTATCAAAA
425119 CTTTATAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
67 1 0.01
68 32 0.36
69 26 0.29
70 26 0.29
71 4 0.04
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (68 bp):
TATAAAGTTATCAAAATTATATCAAAATTATCAAAATGACTAAAAAAATCAAAAACTATCAAAAT
AAT
Found at i:425072 original size:10 final size:9
Alignment explanation
Indices: 425031--425142 Score: 66
Period size: 10 Copynumber: 11.2 Consensus size: 9
425021 ATTAAAATTA
425031 TATCGAAAAT
1 TATC-AAAAT
425041 TA-CTAAAAT
1 TATC-AAAAT
*
425050 TACTGAAAA-
1 TA-TCAAAAT
425059 TATCCAAAAT
1 TAT-CAAAAT
425069 TATCAAAAT
1 TATCAAAAT
*
425078 AATTACAAAAGT
1 TA-T-CAAAA-T
425090 TATCAAAATT
1 TATCAAAA-T
425100 ATATCAAAGAT
1 -TATCAAA-AT
425111 TATCAAAACTT
1 TATCAAAA--T
*
425122 TATAAAAAGT
1 TATCAAAA-T
425132 TATCAAAAT
1 TATCAAAAT
425141 TA
1 TA
425143 CTATAAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
8 1 0.01
9 25 0.30
10 31 0.38
11 22 0.27
12 3 0.04
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (9 bp):
TATCAAAAT
Found at i:425094 original size:21 final size:21
Alignment explanation
Indices: 425063--425140 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
425053 TGAAAATATC
425063 CAAAA-TTATCAAAATAATTA-
1 CAAAAGTTATCAAAAT-ATTAT
425083 CAAAAGTTATCAAAAT-TATAT
1 CAAAAGTTATCAAAATAT-TAT
425104 C-AAAGATTATCAAAACT-TTAT
1 CAAAAG-TTATCAAAA-TATTAT
*
425125 AAAAAGTTATCAAAAT
1 CAAAAGTTATCAAAAT
425141 TACTATAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
19 1 0.02
20 12 0.24
21 32 0.63
22 6 0.12
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (21 bp):
CAAAAGTTATCAAAATATTAT
Found at i:425178 original size:42 final size:42
Alignment explanation
Indices: 425058--425142 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
425048 ATTACTGAAA
425058 ATATCCAAA-ATTATCAAAA-TAATTA-CAAAAGTTATCAAAATT
1 ATAT-CAAAGATTATCAAAACT--TTATCAAAAGTTATCAAAATT
*
425100 ATATCAAAGATTATCAAAACTTTATAAAAAGTTATCAAAATT
1 ATATCAAAGATTATCAAAACTTTATCAAAAGTTATCAAAATT
425142 A
1 A
425143 CTATAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
41 7 0.18
42 31 0.79
43 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (42 bp):
ATATCAAAGATTATCAAAACTTTATCAAAAGTTATCAAAATT
Found at i:425226 original size:21 final size:21
Alignment explanation
Indices: 425202--425244 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
425192 AGGCATAAGC
*
425202 ATTATATCAAAACTTATTAAA
1 ATTATATCAAAACTTATAAAA
*
425223 ATTATATCAAAAGTTATAAAA
1 ATTATATCAAAACTTATAAAA
425244 A
1 A
425245 AAATATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTATATCAAAACTTATAAAA
Found at i:425250 original size:21 final size:21
Alignment explanation
Indices: 425205--425250 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
425195 CATAAGCATT
* **
425205 ATATCAAAACTTATTAAAATT
1 ATATCAAAACTTATAAAAAAA
*
425226 ATATCAAAAGTTATAAAAAAA
1 ATATCAAAACTTATAAAAAAA
425247 ATAT
1 ATAT
425251 TAATTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
ATATCAAAACTTATAAAAAAA
Found at i:425397 original size:21 final size:21
Alignment explanation
Indices: 425363--425490 Score: 100
Period size: 21 Copynumber: 6.2 Consensus size: 21
425353 TTAAGGCTTA
* *
425363 CAAAATTGTGTCAAAAGTTAT
1 CAAAATTATATCAAAAGTTAT
*
425384 CATAATTATATCAAAAGTTAT
1 CAAAATTATATCAAAAGTTAT
* * * * *
425405 CAAAAATGTA-AAAAATTTAA
1 CAAAATTATATCAAAAGTTAT
*
425425 CAAAATTATATTAAAAGTTAT
1 CAAAATTATATCAAAAGTTAT
* * *
425446 CAATATTATATTAAAAG-TCT
1 CAAAATTATATCAAAAGTTAT
* *
425466 CAAAATT-TGTACAACAGTTAT
1 CAAAATTATAT-CAAAAGTTAT
425487 CAAA
1 CAAA
425491 TTGTACAAAG
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
19 2 0.02
20 27 0.33
21 54 0.65
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (21 bp):
CAAAATTATATCAAAAGTTAT
Found at i:425572 original size:24 final size:23
Alignment explanation
Indices: 425545--425593 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
425535 AAAGCTATAA
* *
425545 ATATATCATATTAAAAGTTATATT
1 ATATATCATATAAAAAATTAT-TT
*
425569 ATATATTATATAAAAAATTATTT
1 ATATATCATATAAAAAATTATTT
425592 AT
1 AT
425594 TGTTACTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATCATATAAAAAATTATTT
Found at i:426014 original size:10 final size:10
Alignment explanation
Indices: 425999--426079 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
425989 ACCAATATTG
425999 TATCAAAAGT
1 TATCAAAAGT
*
426009 TATCAAAATT
1 TATCAAAAGT
*
426019 ATATTAAATA-T
1 -TATCAAA-AGT
*
426030 TATCAAAATT
1 TATCAAAAGT
426040 ATATCAAAAGT
1 -TATCAAAAGT
*
426051 TATTAAAAGT
1 TATCAAAAGT
* **
426061 ATATTAAAAAC
1 -TATCAAAAGT
426072 TATCAAAA
1 TATCAAAA
426080 TAATATAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
9 1 0.02
10 32 0.55
11 24 0.41
12 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (10 bp):
TATCAAAAGT
Found at i:426023 original size:42 final size:42
Alignment explanation
Indices: 425950--426099 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
425940 GATGCTTAGA
* *
425950 AAAATTATATCAAATA-TTAT-TAAACTAATATTAAAGATTACC
1 AAAATTATATCAAA-AGTTATCAAAAGT-ATATTAAAGATTACC
* * * * *
425992 AATATTGTATCAAAAGTTATCAAAATTATATTAAATATTATC
1 AAAATTATATCAAAAGTTATCAAAAGTATATTAAAGATTACC
* * * *
426034 AAAATTATATCAAAAGTTATTAAAAGTATATTAAAAACTATC
1 AAAATTATATCAAAAGTTATCAAAAGTATATTAAAGATTACC
* **
426076 AAAATAATAT-AAAAACTATCAAAA
1 AAAATTATATCAAAAGTTATCAAAA
426100 TTGTATAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 12 0.13
42 74 0.82
43 4 0.04
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (42 bp):
AAAATTATATCAAAAGTTATCAAAAGTATATTAAAGATTACC
Found at i:426034 original size:21 final size:20
Alignment explanation
Indices: 425950--426101 Score: 115
Period size: 21 Copynumber: 7.3 Consensus size: 20
425940 GATGCTTAGA
* *
425950 AAAATTATATCAAATATTATT
1 AAAATTATATTAAA-ATTATC
* * *
425971 AAACTAATATTAAAGATTACC
1 AAAATTATATTAAA-ATTATC
* * *
425992 AATATTGTATCAAAAGTTATC
1 AAAATTATATTAAAA-TTATC
426013 AAAATTATATTAAATATTATC
1 AAAATTATATTAAA-ATTATC
* *
426034 AAAATTATATCAAAAGTTATT
1 AAAATTATATTAAAA-TTATC
* *
426055 AAAAGTATATTAAAAACTATC
1 AAAATTATATT-AAAATTATC
* * *
426076 AAAATAATATAAAAACTATC
1 AAAATTATATTAAAATTATC
426096 AAAATT
1 AAAATT
426102 GTATAACATG
Statistics
Matches: 102, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.16
21 81 0.79
22 5 0.05
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTATATTAAAATTATC
Found at i:426654 original size:2 final size:2
Alignment explanation
Indices: 426647--426674 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
426637 GTATTACACC
426647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
426675 TACCCTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:427188 original size:15 final size:16
Alignment explanation
Indices: 427168--427197 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
427158 CTCCTGGTAC
427168 TGCAGCT-CAATCTTT
1 TGCAGCTCCAATCTTT
427183 TGCAGCTCCAATCTT
1 TGCAGCTCCAATCTT
427198 AACTCCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (16 bp):
TGCAGCTCCAATCTTT
Found at i:432898 original size:19 final size:19
Alignment explanation
Indices: 432870--432924 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
432860 TACAAGTTTT
*
432870 AACTATTTTTATTTT-TTAA
1 AACTAATTTTATTTTCTT-A
432889 AACTAATTTTTATTTTCTTA
1 AACTAA-TTTTATTTTCTTA
* *
432909 AACCAATTGTATTTTC
1 AACTAATTTTATTTTC
432925 AAATTTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (19 bp):
AACTAATTTTATTTTCTTA
Found at i:432911 original size:20 final size:20
Alignment explanation
Indices: 432870--432910 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
432860 TACAAGTTTT
432870 AACT-ATTTTTATTTTTTAA
1 AACTAATTTTTATTTTTTAA
432889 AACTAATTTTTATTTTCTTAA
1 AACTAATTTTTATTTT-TTAA
432910 A
1 A
432911 CCAATTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
AACTAATTTTTATTTTTTAA
Found at i:432916 original size:20 final size:20
Alignment explanation
Indices: 432874--432916 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
432864 AGTTTTAACT
*
432874 ATTTTTATTTTTTAAAACTA
1 ATTTTTATTTTTTAAAACCA
432894 ATTTTTATTTTCTT-AAACCA
1 ATTTTTATTTT-TTAAAACCA
432914 ATT
1 ATT
432917 GTATTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTTATTTTTTAAAACCA
Found at i:432959 original size:19 final size:21
Alignment explanation
Indices: 432937--432979 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
432927 ATTTAAACAT
*
432937 AAAAATATAAA-ATAAA-ATA
1 AAAAATACAAATATAAATATA
432956 AAAAATACAAATATAAATATA
1 AAAAATACAAATATAAATATA
432977 AAA
1 AAA
432980 TATTTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAATACAAATATAAATATA
Found at i:432980 original size:19 final size:18
Alignment explanation
Indices: 432930--432981 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
432920 TTTTCAAATT
432930 TAAACATAAAAATATA-AAA
1 TAAA-ATAAAAA-ATACAAA
432949 TAAAATAAAAAATACAAA
1 TAAAATAAAAAATACAAA
*
432967 TATAAATATAAAATA
1 TA-AAATAAAAAATA
432982 TTTTTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 15 0.50
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAAAAAATACAAA
Found at i:437538 original size:12 final size:12
Alignment explanation
Indices: 437520--437552 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
437510 GAGAAAGAAG
437520 AGATAGGAGGAA
1 AGATAGGAGGAA
*
437532 TGATAGGAGGAA
1 AGATAGGAGGAA
437544 AGATAGGAG
1 AGATAGGAG
437553 AGATAGTAGA
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:0.45, C:0.00, G:0.42, T:0.12
Consensus pattern (12 bp):
AGATAGGAGGAA
Found at i:437577 original size:42 final size:42
Alignment explanation
Indices: 437509--437604 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
437499 TAGCCCTCAA
* * *
437509 AGAGAAAGAAGAGATAGGAGGAATGATAGGAGGAAAGATAGG
1 AGAGATAGTAGAGATAGAAGGAATGATAGGAGGAAAGATAGG
* *
437551 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGAAGGAATGATAGGAGGAAAGATAGG
*
437593 AGAGATAATAGA
1 AGAGATAGTAGA
437605 TAGAGCATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.40, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGAAGGAATGATAGGAGGAAAGATAGG
Found at i:437590 original size:12 final size:12
Alignment explanation
Indices: 437518--437594 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 12
437508 AAGAGAAAGA
437518 AGAGATAGGAGG
1 AGAGATAGGAGG
437530 A-ATGATAGGAGG
1 AGA-GATAGGAGG
*
437542 AAAGAT---AGG
1 AGAGATAGGAGG
*
437551 AGAGAT---AGT
1 AGAGATAGGAGG
*
437560 AGAGATAGAAGG
1 AGAGATAGGAGG
437572 -GATGATAGGAGG
1 AGA-GATAGGAGG
437584 AGAGATAGGAG
1 AGAGATAGGAG
437595 AGATAATAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
9 16 0.30
11 3 0.06
12 32 0.59
13 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:437617 original size:42 final size:42
Alignment explanation
Indices: 437531--437629 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
437521 GATAGGAGGA
* *
437531 ATGATAGGAGGAAAGATAGGAGAGATAGTAGAGATAGAAGGG
1 ATGATAGGAGGAAAGATAGGAGAGATAATAGAGAGAGAAGGG
* * * *
437573 ATGATAGGAGGAGAGATAGGAGAGATAATAGATAGAGCATGG
1 ATGATAGGAGGAAAGATAGGAGAGATAATAGAGAGAGAAGGG
*
437615 ATGACAGGA-GAAAGA
1 ATGATAGGAGGAAAGA
437630 GAGAAGAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 5 0.10
42 44 0.90
ACGTcount: A:0.45, C:0.02, G:0.38, T:0.14
Consensus pattern (42 bp):
ATGATAGGAGGAAAGATAGGAGAGATAATAGAGAGAGAAGGG
Found at i:443807 original size:19 final size:18
Alignment explanation
Indices: 443760--443845 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
443750 TTTTAAACAA
*
443760 TTTGTATCGATACAAATAG
1 TTTGTATCGATACATA-AG
*
443779 TAACTGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
443799 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
443815 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
443831 TTTTGTATCGATACA
1 -TTTGTATCGATACA
443846 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 24 0.44
20 3 0.05
21 13 0.24
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:443820 original size:13 final size:13
Alignment explanation
Indices: 443802--443859 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
443792 ACATAAGTGT
443802 TGTATCGATACAA
1 TGTATCGATACAA
443815 TGTATCGATACATAA
1 TGTATCGATAC--AA
443830 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
443847 TGTATCGCTACAA
1 TGTATCGATACAA
443860 AGCTACTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:443824 original size:32 final size:32
Alignment explanation
Indices: 443783--443858 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
443773 AAATAGTAAC
443783 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
443815 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
443847 TGTATCGCTACA
1 TGTATCGATACA
443859 AAGCTACTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:443914 original size:20 final size:21
Alignment explanation
Indices: 443879--443919 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
443869 CAAGGAAATG
443879 TATCGATACATTGTATCGATA
1 TATCGATACATTGTATCGATA
*
443900 TATCGAT-CTTTGTATCGATA
1 TATCGATACATTGTATCGATA
443920 CATCTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
TATCGATACATTGTATCGATA
Found at i:446361 original size:76 final size:75
Alignment explanation
Indices: 446276--446457 Score: 260
Period size: 76 Copynumber: 2.4 Consensus size: 75
446266 TTCATCTCGA
446276 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAA-CTCCG
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACT-CAACCT-CG
* *
446340 TTATTTTCGAGG
64 TTATTTCCAAGG
* *
446352 GGATACTCCAACCCCGGTTTTATGTCTAAAACATCAATTTTTTATCGGGGATACTCAACCTCGTT
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCAACCTCGTT
446417 ATTTCCAAGG
66 ATTTCCAAGG
* * *
446427 GGATACTTCAACCCTGGCTTTATATT-TAAAA
1 GGATACTCCAACCCCGGTTTTAT-TTCTAAAA
446458 ATATTATTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
75 40 0.42
76 56 0.58
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (75 bp):
GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCAACCTCGTT
ATTTCCAAGG
Found at i:446593 original size:51 final size:52
Alignment explanation
Indices: 446538--446651 Score: 178
Period size: 51 Copynumber: 2.2 Consensus size: 52
446528 TTTTCGAGGA
* * * *
446538 GATACTTCAACCT-CGATTTTATTTCTAAAATACCAATTTTTCACAATCGGG
1 GATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
446589 GATACTCCAA-CTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
1 GATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
446640 GATACTCCAACC
1 GATACTCCAACC
446652 CCGCTATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 2 0.04
51 54 0.95
52 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (52 bp):
GATACTCCAACCTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
Found at i:461082 original size:22 final size:21
Alignment explanation
Indices: 461035--461083 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
461025 TTTTCTTAGT
**
461035 GTTTCTTTTTTGTTTTGCTTT
1 GTTTCTTTTTTGTTTTGCTAA
* *
461056 TTTTCTTTTTTTTTTGTGCTAA
1 GTTTCTTTTTTGTTT-TGCTAA
461078 GTTTCT
1 GTTTCT
461084 CCTCCCCTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.04, C:0.10, G:0.12, T:0.73
Consensus pattern (21 bp):
GTTTCTTTTTTGTTTTGCTAA
Found at i:462013 original size:32 final size:33
Alignment explanation
Indices: 461950--462017 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
461940 CGTTACAAGC
* **
461950 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCAATACATACTATGGTGTATCGATA
461983 CAATGTATCAATACATACTAT-GTGTATCGATA
1 CAATGTATCAATACATACTATGGTGTATCGATA
462015 CAA
1 CAA
462018 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (33 bp):
CAATGTATCAATACATACTATGGTGTATCGATA
Found at i:464086 original size:21 final size:20
Alignment explanation
Indices: 464057--464099 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
464047 GGCTAGTGTG
*
464057 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
464078 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
464098 GG
1 GG
464100 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:464560 original size:13 final size:13
Alignment explanation
Indices: 464542--464580 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
464532 ATAATCCCCC
*
464542 TGTATCGATACAG
1 TGTATCGATACAA
464555 TGTATCGATACAA
1 TGTATCGATACAA
464568 TGTATCGATACAA
1 TGTATCGATACAA
464581 AGAATTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:470780 original size:34 final size:32
Alignment explanation
Indices: 470737--470805 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 32
470727 CGTTACAAGC
**
470737 CAATGTATCGATACATTTTATGGTGTTATCGATA
1 CAATGTATCGATACATACTAT-GTG-TATCGATA
470771 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
470803 CAA
1 CAA
470806 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.33
33 3 0.09
34 19 0.58
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:471213 original size:14 final size:15
Alignment explanation
Indices: 471179--471218 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
471169 AGATCCTAAC
471179 AATT-ATTTTAATTT
1 AATTAATTTTAATTT
471193 AATTTAATTTTAA-TT
1 AA-TTAATTTTAATTT
471208 AATTAATTTTA
1 AATTAATTTTA
471219 TCTTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.46
15 6 0.25
16 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTAATTTTAATTT
Found at i:471987 original size:303 final size:303
Alignment explanation
Indices: 471648--472242 Score: 783
Period size: 303 Copynumber: 2.0 Consensus size: 303
471638 TTGAAAATAG
*
471648 AAAAAATTCTAAAACTCATAAAATAAATAAAATTTTT-TAAAACTGGTTTAATACAAATT-AGAC
1 AAAAAATTCTAAAACTCATAAAATAAATAAAATTTTTCT-AAACTGATTTAATACAAATTAAG-C
* *
471711 AACAATATTTGAAGAATTTTGGAAATTATAAATTTAGAAAAAT-CC-TTCCAAGGAAATTTACGA
64 AACAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATTCCAA--AAATTTACGA
* *
471774 AGTAGAAAACTT-TATATTTTAGTAACAGAAAAAATTCTAAAACTCATAAAATAAATT-GAATTC
127 AGTAGAAAA-TTCTATATCTTAGTAACAG-AAAAATTCTAAAACTCATAAAATAAATTAAAATT-
* * * *
471837 TT-TAAAACTGATTTAATATAAATTAA-AAATAATATTTAAACAATTTTTAAAATTATAAACTAA
189 TTCT-AAACTAATTTAATAGAAATTAAGAAATAATATTTAAACAATTTTGAAAATCATAAACTAA
* *
471900 AAAAAATTCTACCGAAGAAATTTACGGAGTAGAAAACTCCGTCTCTCGGTA
253 AAAAAATCCTACCGAAGAAATTCACGGAGTAGAAAACTCCGTCTCTCGGTA
** *
471951 AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCTAAACTGATTTAATATAAATTAAGCAA
1 AAAAAATTCTAAAACTCATAAAATAAATAAAATTTTTCTAAACTGATTTAATACAAATTAAGCAA
* ** * *
472016 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATTGGAAAAATTTACGGATTA
66 CAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATTCCAAAAATTTACGAAGTA
* * *
472081 GAAAATTCTGTATCTTAGTAATAGGAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCTAAA
131 GAAAATTCTATATCTTAGTAACAGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCTAAA
* * * * * *
472146 CTAATTTAATAGGAATTAAGAAATAATATTTGAAGAATTTTGGAAATCATAAACTTAGAAAAATC
196 CTAATTTAATAGAAATTAAGAAATAATATTTAAACAATTTTGAAAATCATAAACTAAAAAAAATC
* * *
472211 CTATCGGAGAAATTCAGGGAGTAGAAAACTCC
261 CTACCGAAGAAATTCACGGAGTAGAAAACTCC
472243 ATATTTTGAA
Statistics
Matches: 253, Mismatches: 31, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
302 50 0.20
303 194 0.77
304 5 0.02
305 4 0.02
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (303 bp):
AAAAAATTCTAAAACTCATAAAATAAATAAAATTTTTCTAAACTGATTTAATACAAATTAAGCAA
CAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATTCCAAAAATTTACGAAGTA
GAAAATTCTATATCTTAGTAACAGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCTAAA
CTAATTTAATAGAAATTAAGAAATAATATTTAAACAATTTTGAAAATCATAAACTAAAAAAAATC
CTACCGAAGAAATTCACGGAGTAGAAAACTCCGTCTCTCGGTA
Found at i:472163 original size:153 final size:154
Alignment explanation
Indices: 471495--472265 Score: 711
Period size: 153 Copynumber: 5.1 Consensus size: 154
471485 TTTATATATA
* * * * * * *
471495 AAAAAATGC-AAAACTTATAAAATAAATTAAATTTTCACAAAATAATTTAATATGAATTTAATAA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTC-TAAACTGATTTAATAT-AAATTAAGAA
* * * * * * * ** *
471559 A-AATATTTGATGAATTTTAAAAATTTTAAAATGAGAAGAAT-CCAACAAAAAAAATTTATGGAG
64 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATC-CGAAAAATTTACGGAG
*
471622 TAGAAAACTTC-ATATCTT-GAAAATAG
128 TAGAAAACTTCTATATCTTAG-TAATAG
* * * *
471648 AAAAAATTCTAAAACTCATAAAATAAATAAAATTTTTTAAAACTGGTTTAATACAAATT-AGACA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTCT-AAACTGATTTAATATAAATTAAGA-A
* * * * *
471712 ACAATATTTGAAGAATTTTGGAAATTATAAATTTAGAAAAAT-CCTTCC-AAGGAAATTTACGAA
64 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATCCGAA--AAATTTACGGA
* *
471775 GTAGAAAACTT-TATATTTTAGTAACAG
127 GTAGAAAACTTCTATATCTTAGTAATAG
*
471802 AAAAAATTCTAAAACTCATAAAATAAATTGAATTCTT-TAAAACTGATTTAATATAAATTAA-AA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATT-TTCT-AAACTGATTTAATATAAATTAAGAA
* * * * * * *
471865 ATAATATTTAAACAATTTTTAAAATTATAAACTAAAAAAAATTCTA-CCGAAGAAATTTACGGAG
64 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATCCGAA-AAATTTACGGAG
** * * *
471929 TAGAAAAC-TCCGTCTC-TCG--GTA-
128 TAGAAAACTTCTATATCTTAGTAATAG
* *
471951 AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCTAAACTGATTTAATATAAATTAAGCAA
1 AAAAAATTCTAAAACTCATAAAATAAATT-AAATTTTCTAAACTGATTTAATATAAATTAAGAAA
** *
472016 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATTGGAAAAATTTACGGATTA
65 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATCCGAAAAATTTACGGAGTA
*
472081 GAAAA-TTCTGTATCTTAGTAATAG
130 GAAAACTTCTATATCTTAGTAATAG
* * **
472105 -GAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCTAAACTAATTTAATAGGAATTAAGAAA
1 AAAAAATTCTAAAACTCATAAAATAAATT-AAATTTTCTAAACTGATTTAATATAAATTAAGAAA
* * * * * * *
472169 TAATATTTGAAGAATTTTGGAAATCATAAACTTAGAAAAATCCTATCGGAGAAATTCAGGGAGTA
65 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATCCGAAAAATTTACGGAGTA
* * *
472234 GAAAAC-TCCATAT-TTTGAAAATAG
130 GAAAACTTCTATATCTTAG-TAATAG
472258 AAAAAATT
1 AAAAAATT
472266 TGAAAGAAAA
Statistics
Matches: 508, Mismatches: 85, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
149 53 0.10
150 69 0.14
151 5 0.01
152 10 0.02
153 204 0.40
154 163 0.32
155 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (154 bp):
AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTCTAAACTGATTTAATATAAATTAAGAAAT
AATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCCATCCGAAAAATTTACGGAGTAG
AAAACTTCTATATCTTAGTAATAG
Found at i:476325 original size:40 final size:40
Alignment explanation
Indices: 476248--476362 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
476238 TGTCGTGGTA
* * * *
476248 TTATGTTAAATAACAATT-A-AAAATTATTAAAAATATAT
1 TTATATTAAATAATAATTAATAAAATTAATAAAATTATAT
476286 TTATATTAAATAATAATTAATAAAATTAATAAAATTATAT
1 TTATATTAAATAATAATTAATAAAATTAATAAAATTATAT
* *
476326 TTATTTTAAA-AATTAAATTAATAAAATAAATAAAATT
1 TTATATTAAATAA-T-AATTAATAAAATTAATAAAATT
476363 TTAAAATTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
38 16 0.24
39 3 0.04
40 27 0.40
41 21 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (40 bp):
TTATATTAAATAATAATTAATAAAATTAATAAAATTATAT
Found at i:476378 original size:41 final size:41
Alignment explanation
Indices: 476293--476392 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 41
476283 TATTTATATT
* **
476293 AAATAATAATTAATAAAATTAATAAAATTATATTTATTTTAA
1 AAATAA-AATTAATAAAATAAATAAAATTATATAAATTTTAA
* *
476335 AAATTAAATTAATAAAATAAATAAAATTTTA-AAATTTTAAA
1 AAATAAAATTAATAAAATAAATAAAATTATATAAATTTT-AA
*
476376 AAATAAAATTAAAAAAA
1 AAATAAAATTAATAAAA
476393 GTGAAAGAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 5 0.10
41 40 0.80
42 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (41 bp):
AAATAAAATTAATAAAATAAATAAAATTATATAAATTTTAA
Done.