Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold97
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: 856079
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:734546 original size:28 final size:28
Alignment explanation
Indices: 734506--734582 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
734496 GATATAAAGC
*
734506 TGGGGTTAGAGTATCCCCTCGA-AAATAA
1 TGGGGTTGGAGTATCCCC-CGAGAAATAA
*
734534 TGGGGTTGGAGTAT-CCCCGATGACATAA
1 TGGGGTTGGAGTATCCCCCGA-GAAATAA
* *
734562 CGGGGTTGGAGTATCCTCCGA
1 TGGGGTTGGAGTATCCCCCGA
734583 TTAAGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 31 0.74
29 5 0.12
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:734691 original size:28 final size:27
Alignment explanation
Indices: 734617--734691 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 27
734607 TATAAAGCTA
734617 GGGTTGGAGTATCCCTTCGA-AAATAACG
1 GGGTTGGAGTATCCC--CGATAAATAACG
734645 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAT-AAATAACG
734673 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
734692 TATGAAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 3 0.07
28 42 0.93
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATAAATAACG
Found at i:734739 original size:51 final size:51
Alignment explanation
Indices: 734674--734802 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
734664 GAAATAACGG
734674 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAACCGC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAACCGC
* * * *
734725 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGGAATAAAACTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGC
* *
734776 GGTTGAAGTATCCCCGA-GATGAAAAAT
1 GGTTGGAGTATCCCCGATTATGAAAAAT
734803 CAAGAAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
50 8 0.11
51 61 0.87
52 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGC
Found at i:736198 original size:20 final size:19
Alignment explanation
Indices: 736173--736329 Score: 106
Period size: 20 Copynumber: 7.8 Consensus size: 19
736163 AAAATGCCTG
*
736173 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
736193 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
736213 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
736233 AATGTATCGATACATTTGGGTAA
1 AATGTATCGATACA-AT--G-AA
* *
736256 ACCCA-GAAT-G-TATCAAT-AC
1 A---ATGTATCGATA-CAATGAA
*
736275 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
736295 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
*
736314 CAATGTATCGGTACAA
1 -AATGTATCGATACAA
736330 ATTGTGAAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 5 0.05
19 6 0.05
20 80 0.72
21 2 0.02
23 7 0.06
24 3 0.03
25 3 0.03
26 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:736310 original size:13 final size:13
Alignment explanation
Indices: 736262--736291 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
736252 GTAAACCCAG
736262 AATGTATCAATAC
1 AATGTATCAATAC
*
736275 AATGTATCGATAC
1 AATGTATCAATAC
736288 AATG
1 AATG
736292 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:736396 original size:21 final size:22
Alignment explanation
Indices: 736360--736400 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
736350 TTGACCGTTG
736360 GGGCATTGTATCGATACATTAA
1 GGGCATTGTATCGATACATTAA
*
736382 GGGCA-TGTATTGATACATT
1 GGGCATTGTATCGATACATT
736401 TTGGCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (22 bp):
GGGCATTGTATCGATACATTAA
Found at i:737006 original size:206 final size:206
Alignment explanation
Indices: 736646--737266 Score: 911
Period size: 206 Copynumber: 3.0 Consensus size: 206
736636 GGACGAACAC
*
736646 GATAGTGACATGGAAGCTGATGTTCTTCCTCCTCCTCCACCGACCACCGCCACGACTACATCCAT
1 GATAATGACATGGAAGCTGATGTTCTTCCTCCTCCTCCACCGACCACCGCCACGACTACATCCAT
* * *
736711 TCCTACCGACGTACATGGGATGTTTACATTGATTCAAGGGATGTTCAACACAGTCTCCGAATGAT
66 CCCTACCGACATACATGGGATGTTTACATTGATTCAAGGGATGTTCAACACAGTCTCCGAACGAT
* * *
736776 TAGATTTATGAGACCAACGATTCGAGATGATAGACTCTCGACTTACAAAGCTCGAACAACGCTTG
131 TAGATGTATGAGACCAACGATTCGAGATGATAGACTCTCGACTTACAAAGCTCGAGCAGCGCTTG
736841 CCTAGTGCTTT
196 CCTAGTGCTTT
* *
736852 GATAATGACATGGAAGCTAATGTTCTTCCTCCTCCTCCACCGACCACCGCCACAACTACATCCAT
1 GATAATGACATGGAAGCTGATGTTCTTCCTCCTCCTCCACCGACCACCGCCACGACTACATCCAT
* * *
736917 CCCTACCGATATACATGGGATGTTTACATTGATTCAAGGGATGTTCCACATAGTCTCCGAACGAT
66 CCCTACCGACATACATGGGATGTTTACATTGATTCAAGGGATGTTCAACACAGTCTCCGAACGAT
* * * * * * * *
736982 TAAATGTATGAGACCAATGATTCGAGACGAGAGACTCTCGACTTATAGAGCTCGAGTAGTGCTTG
131 TAGATGTATGAGACCAACGATTCGAGATGATAGACTCTCGACTTACAAAGCTCGAGCAGCGCTTG
*
737047 CCATA-TGCTCT
196 CC-TAGTGCTTT
* * * **
737058 AATGATGACATGGAAGCTGATATTCTTCCTCCTCCTCCACCGACCACCGCCGTGACTACATCCAT
1 GATAATGACATGGAAGCTGATGTTCTTCCTCCTCCTCCACCGACCACCGCCACGACTACATCCAT
* * * *
737123 CCCTACCGACATACGTGGGATGTTTACGTTGATTCAAGGGATGTTCAACACAATCTCTGAACGAT
66 CCCTACCGACATACATGGGATGTTTACATTGATTCAAGGGATGTTCAACACAGTCTCCGAACGAT
* * **
737188 TAGATGTATGAGACCAACGATTCGAGATAATAAACTCTCGACTTACAAAGCTCGAGCAGCATTTG
131 TAGATGTATGAGACCAACGATTCGAGATGATAGACTCTCGACTTACAAAGCTCGAGCAGCGCTTG
*
737253 CCTTGTGCTTT
196 CCTAGTGCTTT
737264 GAT
1 GAT
737267 TGTCCCTTCA
Statistics
Matches: 363, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
205 1 0.00
206 360 0.99
207 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (206 bp):
GATAATGACATGGAAGCTGATGTTCTTCCTCCTCCTCCACCGACCACCGCCACGACTACATCCAT
CCCTACCGACATACATGGGATGTTTACATTGATTCAAGGGATGTTCAACACAGTCTCCGAACGAT
TAGATGTATGAGACCAACGATTCGAGATGATAGACTCTCGACTTACAAAGCTCGAGCAGCGCTTG
CCTAGTGCTTT
Found at i:741853 original size:28 final size:28
Alignment explanation
Indices: 741800--742849 Score: 509
Period size: 28 Copynumber: 36.2 Consensus size: 28
741790 TTTAAAAAAA
*
741800 GGTGCCACTAACTTATGTGGGCTTTGAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
* *
741830 GGTGCCATTGACTTGTAGGCTTTGTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG---AAAG
* ** **
741861 AGTTAACACCAACTTCTGTGGGCTTTGAAAG
1 -GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
* * ***
741892 GATGCCACTGACTTATAAACTTTGCAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
741921 GATGCCATTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
741950 GATGCCACTGATTTATGGGCTTTTGAAAG
1 GGTGCCACTGACTTGTGGGC-TTTGAAAG
** * *
741979 GAAGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742007 GATGCCACTGTCTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
742035 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
742063 GGTATGCCACTGACTTATGGGCTTTGGAAG
1 GG--TGCCACTGACTTGTGGGCTTTGAAAG
* * *
742093 AGTGCCACTGACTTATGGGCTTTGGAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742121 GGTGCCACTGACTTATGGGTTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742149 GGTGCCACTAACTTATGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
742177 GGTGCCACGGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742205 GATGCCACTGACTTGTGAGCTTCGAAATAG
1 GGTGCCACTGACTTGTGGGCTTTG-AA-AG
* * *
742235 GTTACCACCGACTTGTGTAGGCTTTGAAATG
1 GGTGCCACTGACTTGTG--GGCTTTGAAA-G
** *
742266 GGTTGCCACCAACTTGCGTGGGCTTTCAAATG
1 GG-TGCCACTGACTT--GTGGGCTTTGAAA-G
* ** * *
742298 AGTTGCCACCAACTTGTGTAGGCATTGAAAT
1 -GGTGCCACTGACTTGTG--GGCTTTGAAAG
* *
742329 GATGCTACTGACTTGTGGGCTTTGAAATAG
1 GGTGCCACTGACTTGTGGGCTTTG-AA-AG
* *
742359 GTTGCCACCGACTTGTGTGAGCTTTGAAACG
1 GGTGCCACTGACTTGTG-G-GCTTTGAAA-G
* * * *
742390 GGTTGCCACTGACTTATATGAGCATTCAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAA-G
** *
742422 ATTGACCACCGACTTGTGTGGGCTTTGAAATG
1 GGTG-CCACTGAC-T-TGTGGGCTTTGAAA-G
* * *
742454 AGTTGCCACCGACTTGTGGGCTTTGAAAT
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742483 GATGCCACTGACTTGTGGGCTTTAAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742511 GATGCCACTAACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742539 GGTGCTACCATGGAGTTGTGGAC-TT-AACAG
1 GGTGCCA-C-T-GACTTGTGGGCTTTGAA-AG
** * * * *
742569 AATGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
742596 GATGCCACAGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
742623 GGTGCCACGGAGTGGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
742651 AGTACCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
742678 GGTACCACAGAGTTGTAGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
742705 GGTGCCACGGAGTTATGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742733 GGTGCCACGGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
742760 GGTGCCAC-GCAGTTGTGGAC-TTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * * *
742787 GATGCCA-TGGAGTTGTGGACTTTAAAAG
1 GGTGCCACT-GACTTGTGGGCTTTGAAAG
* * * * *
742815 GGTGCCACAGAGTTATGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
742843 GATGCCA
1 GGTGCCA
742850 GGGAGTTGTG
Statistics
Matches: 844, Mismatches: 132, Indels: 90
0.79 0.12 0.08
Matches are distributed among these distances:
26 3 0.00
27 146 0.17
28 350 0.41
29 74 0.09
30 117 0.14
31 28 0.03
32 104 0.12
33 6 0.01
34 16 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:742023 original size:86 final size:84
Alignment explanation
Indices: 741879--742538 Score: 437
Period size: 86 Copynumber: 7.5 Consensus size: 84
741869 CCAACTTCTG
* *** * *
741879 TGGGCTTTGAAAGGATGCCACTGACTTATAAACTTTGCAAAGGATGCCATTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTG-AAAAGATGCCACTGACTTGTGGGCTTT
*
741944 GAAAAGGATGCCACTGATTTA
65 G-AAAGGATGCCACTGACTTA
* * *
741965 TGGGCTTTTGAAAGGAAGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGTCTTGTGGGCTTT
1 TGGGC-TTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT
* *
742030 GAAAAGG-TGCCACTAACTTG
65 G-AAAGGATGCCACTGACTTA
* * *
742050 TGGGCTTTGAAAGGGTATGCCACTGACTTATGGGCTTTG-GAAGAGTGCCACTGACTTATGGGCT
1 TGGGCTTTGAAA-GG-ATGCCACTAACTTATGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCT
* *
742114 TTGGAAGGGTGCCACTGACTTA
63 TTGAAAGGATGCCACTGACTTA
* * * * *
742136 TGGGTTTTAAAAGGGTGCCACTAACTTATGGGCTTT-AAAAGGGTGCCACGGACTTGTGGGCTTT
1 TGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTT
*
742200 GAAAGGATGCCACTGACTTG
65 GAAAGGATGCCACTGACTTA
* * * * ** * * * **
742220 TGAGCTTCGAAATAGGTTACCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGCGT
1 TGGGCTTTG-AA-AGGATGCCACTAACTTATG--GGCTTTGAAA--AGATGCCACTGACTT--GT
* * ** *
742285 GGGCTTTCAAATGAGTTGCCACCAACTTG
58 GGGCTTTGAAA-G-GATGCCACTGACTTA
* * * * * * *
742314 TGTAGGCATTGAAATGATGCTACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGA
1 TG--GGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAA-A-GATGCCACTGACTTGTG-G-
*
742379 GCTTTGAAACGGGTTGCCACTGACTTATA
60 GCTTTGAAA--GGATGCCACTGAC-T-TA
* * * * ** * * *
742408 TGAGCATTCAAATGATTGACCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGG
1 TGGGCTTTGAAAGGA-TG-CCACTAAC-T-TATGGGCTTTGAAA--AGATGCCACTGACTTGTGG
* *
742473 GCTTTGAAATGATGCCACTGACTTG
60 GCTTTGAAAGGATGCCACTGACTTA
* * *
742498 TGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTT-AAAAG
1 TGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAG
742539 GGTGCTACCA
Statistics
Matches: 465, Mismatches: 78, Indels: 65
0.76 0.13 0.11
Matches are distributed among these distances:
83 2 0.00
84 70 0.15
85 33 0.07
86 121 0.26
87 27 0.06
88 12 0.03
89 5 0.01
90 27 0.06
91 2 0.00
92 75 0.16
93 5 0.01
94 46 0.10
95 4 0.01
96 35 0.08
97 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (84 bp):
TGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
AAAGGATGCCACTGACTTA
Found at i:742314 original size:64 final size:62
Alignment explanation
Indices: 742179--742533 Score: 285
Period size: 64 Copynumber: 5.9 Consensus size: 62
742169 TTTAAAAGGG
* * * *
742179 TGCCACGGACTTGTG--GGCTTTGAAA--GGATGCCACTGACTTGTGAGC-TTCGAAAT-AGGT
1 TGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTC-AAATGA-GT
* *
742237 TACCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGCGTGGGCTTTCAAATGAGT
1 TGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTT--GTGGGCTTTCAAATGAGT
* * * * * *
742301 TGCCACCAACTTGTGTAGGCATTGAAAT--GATGCTACTGACTTGTGGGCTTTGAAAT-AGGT
1 TGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTCAAATGA-GT
* * * * *
742361 TGCCACCGACTTGTGT-GAGCTTTGAAACGGGTTGCCACTGACTTATATGAGCATTCAAATGA-T
1 TGCCACCGACTTGTGTAG-GCTTTGAAATGGGTTGCCACCGAC-T-TGTGGGCTTTCAAATGAGT
* * *
742424 TGACCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGGGCTTTGAAATGA--
1 TG-CCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTCAAATGAGT
* * * **
742485 TGCCACTGACTTGTG--GGCTTTAAAAT--GATGCCACTAACTTGTGGGCTTT
1 TGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTT
742534 AAAAGGGTGC
Statistics
Matches: 245, Mismatches: 35, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
56 20 0.08
58 23 0.09
59 2 0.01
60 60 0.24
61 2 0.01
62 45 0.18
63 5 0.02
64 82 0.33
65 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (62 bp):
TGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTCAAATGAGT
Found at i:742418 original size:124 final size:124
Alignment explanation
Indices: 742198--742499 Score: 369
Period size: 124 Copynumber: 2.4 Consensus size: 124
742188 CTTGTGGGCT
* * * *
742198 TTGAAAGGATGCCACTGACTTGTGAGCTTCGAAATAGGTTACCACCGACTTGTGTAGGCTTTGAA
1 TTGAAATGATGCCACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAGGCTTTGAA
* * * * *
742263 ATGGGTTGCCACCAACTTGCGTGGGCTTTCAAATGAGTTG-CCACCAACTTGTGTAGGCA
66 ACGGGTTGCCACCAACTTACATGAGCATTCAAATGA-TTGACCACCAACTTGTGTAGGCA
*
742322 TTGAAATGATGCTACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGT-GAGCTTTGA
1 TTGAAATGATGCCACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAG-GCTTTGA
** * * * *
742386 AACGGGTTGCCACTGACTTATATGAGCATTCAAATGATTGACCACCGACTTGTGTGGGCT
65 AACGGGTTGCCACCAACTTACATGAGCATTCAAATGATTGACCACCAACTTGTGTAGGCA
* * *
742446 TTGAAATGAGTTGCCACCGACTTGTGGGCTTTGAAAT--GATGCCACTGACTTGTG
1 TTGAAATGA--TGCCACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTG
742500 GGCTTTAAAA
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
123 4 0.03
124 126 0.82
126 24 0.16
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (124 bp):
TTGAAATGATGCCACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAGGCTTTGAA
ACGGGTTGCCACCAACTTACATGAGCATTCAAATGATTGACCACCAACTTGTGTAGGCA
Found at i:742588 original size:27 final size:27
Alignment explanation
Indices: 742523--742896 Score: 442
Period size: 27 Copynumber: 13.5 Consensus size: 27
742513 TGCCACTAAC
* *
742523 TTGTGGGCTTTAAAAGGGTGCTACCATGGAG
1 TTGTGGAC-TTAAAAGGGTG---CCACGGAG
* **
742554 TTGTGGACTTAACAGAATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
742581 TTGTGGACTTAAAAGGATGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
742608 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
742635 TGGTGGACTTTAAAAGAGTACCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
742663 TTGTGGACTTAAAAGGGTACCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
742690 TTGTAGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
742717 TTATGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
742745 TTGTGGACTTTAAAGGGTGCCACGCAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
742772 TTGTGGACTTAAAAGGATGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
742799 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
742827 TTATGGACTTTAAAAGGATGCCAGGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
742855 TTGTGGACTTAAAAGGATGACACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
742882 TTGTGGACTTTAAAA
1 TTGTGGAC-TTAAAA
742897 ATAAATGCCA
Statistics
Matches: 300, Mismatches: 39, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
27 182 0.61
28 103 0.34
30 8 0.03
31 7 0.02
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:742673 original size:55 final size:54
Alignment explanation
Indices: 742485--742896 Score: 446
Period size: 55 Copynumber: 7.4 Consensus size: 54
742475 TTTGAAATGA
* * * * ** * *
742485 TGCCACTGACTTGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
742541 TGCTACCATGGAGTTGTGGACTTAACAGAATGCCACGGAGTTGTGGACTTAAAAGGA
1 TG---CCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
742598 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTGGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * * *
742653 TACCACGGAGTTGTGGACTTAAAAGGGTACCACAGAGTTGTAGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
* * *
742707 TGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
* *
742762 TGCCACGCAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
742817 TGCCACAGAGTTATGGACTTTAAAAGGATGCCAGGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
* *
742872 TGACACGGAATTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
742897 ATAAATGCCA
Statistics
Matches: 302, Mismatches: 47, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
54 86 0.28
55 146 0.48
56 28 0.09
57 10 0.03
58 20 0.07
59 12 0.04
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (54 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:742674 original size:82 final size:82
Alignment explanation
Indices: 742457--742896 Score: 483
Period size: 82 Copynumber: 5.3 Consensus size: 82
742447 TGAAATGAGT
* * * * * * * *
742457 TGCCACCGACTTGTGGGCTTTGAAATGA-TGCCACTGACTTGTGGGCTTTAAAATGATGCCACTA
1 TGCCACGGAGTTGTGGACTTT-AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-A
* *
742521 -ACTTGTGGGCTTTAAAAGGG
63 GAGTTGTGGAC-TTAAAAGGG
* * *
742541 TGCTACCATGGAGTTGTGGAC-TTAACAGAATGCCACGGAGTTGTGGACTTAAAAGGATGCCACA
1 TG---CCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACA
742605 GAGTTGTGGACTTAAAAGGG
63 GAGTTGTGGACTTAAAAGGG
* * * *
742625 TGCCACGGAGTGGTGGACTTTAAAAGAGTACCACGGAGTTGTGGACTTAAAAGGGTACCACAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
*
742690 TTGTAGACTTAAAAGGG
66 TTGTGGACTTAAAAGGG
* * * *
742707 TGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCAC-GCA
1 TGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAG-A
*
742771 GTTGTGGACTTAAAAGGA
65 GTTGTGGACTTAAAAGGG
* * * * **
742789 TGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGATGCCAGGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGA
*
742854 GTTGTGGACTTAAAAGGA
65 GTTGTGGACTTAAAAGGG
* *
742872 TGACACGGAATTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGACTTTAAAA
742897 ATAAATGCCA
Statistics
Matches: 309, Mismatches: 38, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
81 15 0.05
82 171 0.55
83 53 0.17
84 15 0.05
85 26 0.08
86 17 0.06
87 12 0.04
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (82 bp):
TGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
TTGTGGACTTAAAAGGG
Found at i:753866 original size:13 final size:13
Alignment explanation
Indices: 753848--753873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
753838 ACAAAGATCC
753848 ATGTATCGATACA
1 ATGTATCGATACA
753861 ATGTATCGATACA
1 ATGTATCGATACA
753874 TGGAGAAATG
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:753949 original size:19 final size:19
Alignment explanation
Indices: 753925--753985 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
753915 AGCGATACAT
753925 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
753944 TGTATCGAT---GCA-TT-
1 TGTATCGATACAACACTTA
*
753958 TAT-TCGATACAACACTTA
1 TGTATCGATACAACACTTA
753976 TGTATCGATA
1 TGTATCGATA
753986 TAGTTACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
13 5 0.16
14 2 0.06
15 2 0.06
16 4 0.12
17 2 0.06
18 2 0.06
19 15 0.47
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:760835 original size:23 final size:23
Alignment explanation
Indices: 760808--760854 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
760798 CCAAAATAGT
760808 TTTACTTATCCTTAAAATGTTTG
1 TTTACTTATCCTTAAAATGTTTG
760831 TTTACTTATCCTTAAAATGTTTG
1 TTTACTTATCCTTAAAATGTTTG
760854 T
1 T
760855 GTCTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
TTTACTTATCCTTAAAATGTTTG
Found at i:768456 original size:13 final size:13
Alignment explanation
Indices: 768438--768464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
768428 ACATGCTGCT
768438 TTGTATCGATACA
1 TTGTATCGATACA
768451 TTGTATCGATACA
1 TTGTATCGATACA
768464 T
1 T
768465 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:768461 original size:33 final size:32
Alignment explanation
Indices: 768419--768483 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
768409 CACACCCAGA
*
768419 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
768452 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
768484 GTACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:768494 original size:20 final size:19
Alignment explanation
Indices: 768447--768504 Score: 98
Period size: 19 Copynumber: 3.0 Consensus size: 19
768437 TTTGTATCGA
768447 TACATTGTATCGATACATG
1 TACATTGTATCGATACATG
*
768466 TTCATTGTATCGATACATG
1 TACATTGTATCGATACATG
768485 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
768505 AAACTGGCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:768559 original size:20 final size:20
Alignment explanation
Indices: 768534--768586 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
768524 TATCACTATT
768534 TGTATCGATACATGATGAAA
1 TGTATCGATACATGATGAAA
768554 TGTATCGATACATGATGAAA
1 TGTATCGATACATGATGAAA
768574 TGTATCGATACAT
1 TGTATCGATACAT
768587 AGCTTGTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:774732 original size:13 final size:13
Alignment explanation
Indices: 774714--774742 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
774704 ACAACATTCC
774714 TTGTATCGATACA
1 TTGTATCGATACA
774727 TTGTATCGATACA
1 TTGTATCGATACA
774740 TTG
1 TTG
774743 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:777262 original size:73 final size:73
Alignment explanation
Indices: 777083--777246 Score: 310
Period size: 73 Copynumber: 2.2 Consensus size: 73
777073 ATCCCGTGTA
* *
777083 AATGTATCAATACAATTTAGCATGTATCGATACATGCATTTGAAAATATAGCCGTTACTAGCCGT
1 AATGTATCGATACAATTTAGCATGTATCGATACATGTATTTGAAAATATAGCCGTTACTAGCCGT
777148 TACAAGCC
66 TACAAGCC
777156 AATGTATCGATACAATTTAGCATGTATCGATACATGTATTTGAAAATATAGCCGTTACTAGCCGT
1 AATGTATCGATACAATTTAGCATGTATCGATACATGTATTTGAAAATATAGCCGTTACTAGCCGT
777221 TACAAGCC
66 TACAAGCC
777229 AATGTATCGATACAATTT
1 AATGTATCGATACAATTT
777247 GTGGTGTATC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 89 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (73 bp):
AATGTATCGATACAATTTAGCATGTATCGATACATGTATTTGAAAATATAGCCGTTACTAGCCGT
TACAAGCC
Found at i:777270 original size:33 final size:32
Alignment explanation
Indices: 777228--777295 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
777218 CGTTACAAGC
777228 CAATGTATCGATACA-ATTTGTGGTGTATCAATA
1 CAATGTATCGATACATA-TTGT-GTGTATCAATA
*
777261 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCAATA
777293 CAA
1 CAA
777296 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 19 0.58
34 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCAATA
Found at i:777374 original size:20 final size:21
Alignment explanation
Indices: 777327--777380 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
777317 GCCAATGACC
**
777327 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
777348 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
777368 TGTATCGATACAT
1 TGTATCGATACAT
777381 GTATCGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:777383 original size:12 final size:12
Alignment explanation
Indices: 777366--777391 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
777356 TACATTTGGT
777366 CATGTATCGATA
1 CATGTATCGATA
777378 CATGTATCGATA
1 CATGTATCGATA
777390 CA
1 CA
777392 ATGCAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:777405 original size:20 final size:20
Alignment explanation
Indices: 777380--777430 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
777370 TATCGATACA
*
777380 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
777400 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
777420 TGTATCGATAC
1 TGTATCGATAC
777431 TTTTCAAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:777897 original size:21 final size:20
Alignment explanation
Indices: 777871--777971 Score: 118
Period size: 21 Copynumber: 5.0 Consensus size: 20
777861 ATGTGAAAAT
777871 AAATTTTTATAAAGGGGAAGA
1 AAATTTTTATAAAGGGG-AGA
777892 AAATTTTTATAAAGGAGGAGA
1 AAATTTTTATAAAGG-GGAGA
* **
777913 TAATCGTT-T-AAGGGG-GA
1 AAATTTTTATAAAGGGGAGA
777930 AAATTTTTATAAAGGGGGAGA
1 AAATTTTTATAAA-GGGGAGA
777951 AAATTTTTATAAAGGAGGAGA
1 AAATTTTTATAAAGG-GGAGA
777972 TAATCATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.10
18 3 0.04
19 6 0.09
20 7 0.10
21 43 0.63
22 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.29
Consensus pattern (20 bp):
AAATTTTTATAAAGGGGAGA
Found at i:777989 original size:19 final size:21
Alignment explanation
Indices: 777876--777990 Score: 98
Period size: 21 Copynumber: 5.8 Consensus size: 21
777866 AAAATAAATT
* * *
777876 TTTATAAAGGGGAAGAAAATT
1 TTTATAAAGGGGGAGATAATC
*
777897 TTTATAAAGGAGGAGATAATC
1 TTTATAAAGGGGGAGATAATC
* *
777918 GTT-T-AAGGGGGA-A-AATT
1 TTTATAAAGGGGGAGATAATC
* *
777935 TTTATAAAGGGGGAGAAAATT
1 TTTATAAAGGGGGAGATAATC
*
777956 TTTATAAAGGAGGAGATAATC
1 TTTATAAAGGGGGAGATAATC
*
777977 ATT-T-AAGGGGGAGA
1 TTTATAAAGGGGGAGA
777991 ATTTTTTTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.06
18 2 0.03
19 24 0.31
20 3 0.04
21 43 0.56
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.28
Consensus pattern (21 bp):
TTTATAAAGGGGGAGATAATC
Found at i:778000 original size:19 final size:19
Alignment explanation
Indices: 777919--778004 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 19
777909 GAGATAATCG
*
777919 TTTAAGGGGGAAAATTTTT
1 TTTAAGGGGGAGAATTTTT
* *
777938 ATAAAGGGGGAGAAAATTTTT
1 TTTAAGGGGGAG--AATTTTT
* * * * **
777959 ATAAAGGAGGAG-ATAATCA
1 TTTAAGGGGGAGAAT-TTTT
777978 TTTAAGGGGGAGAATTTTT
1 TTTAAGGGGGAGAATTTTT
777997 TTTAAGGG
1 TTTAAGGG
778005 AAAAATTTTC
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
18 2 0.04
19 28 0.56
20 2 0.04
21 18 0.36
ACGTcount: A:0.37, C:0.01, G:0.29, T:0.33
Consensus pattern (19 bp):
TTTAAGGGGGAGAATTTTT
Found at i:778004 original size:59 final size:59
Alignment explanation
Indices: 777871--777996 Score: 225
Period size: 59 Copynumber: 2.1 Consensus size: 59
777861 ATGTGAAAAT
*
777871 AAATTTTTATAAAGGGGAAGAAAATTTTTATAAAGGAGGAGATAATCGTTTAAGGGGGA
1 AAATTTTTATAAAGGGGAAGAAAATTTTTATAAAGGAGGAGATAATCATTTAAGGGGGA
*
777930 AAATTTTTATAAAGGGGGAGAAAATTTTTATAAAGGAGGAGATAATCATTTAAGGGGGA
1 AAATTTTTATAAAGGGGAAGAAAATTTTTATAAAGGAGGAGATAATCATTTAAGGGGGA
*
777989 GAATTTTT
1 AAATTTTT
777997 TTTAAGGGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.31
Consensus pattern (59 bp):
AAATTTTTATAAAGGGGAAGAAAATTTTTATAAAGGAGGAGATAATCATTTAAGGGGGA
Found at i:778617 original size:20 final size:19
Alignment explanation
Indices: 778570--778627 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
778560 TTTGTATTGA
778570 TACATTGTATCGATACATG
1 TACATTGTATCGATACATG
* *
778589 TTCATTGTAACGATACATG
1 TACATTGTATCGATACATG
778608 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
778628 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:778757 original size:20 final size:19
Alignment explanation
Indices: 778724--778761 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
778714 ATAATTTCAA
778724 ATGAATGTACCGATACATT
1 ATGAATGTACCGATACATT
*
778743 ATGAACTGTATCGATACAT
1 ATGAA-TGTACCGATACAT
778762 GGCTACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
ATGAATGTACCGATACATT
Found at i:784987 original size:21 final size:22
Alignment explanation
Indices: 784949--784997 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
784939 CATAAAACTT
*
784949 AAAAGAAAAAGTGGAAAGAAAA
1 AAAAGAAAAAGTGAAAAGAAAA
* * *
784971 AAAAGAAAATGT-AAAAGGAAG
1 AAAAGAAAAAGTGAAAAGAAAA
784992 AAAAGA
1 AAAAGA
784998 TGAGCAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAAGTGAAAAGAAAA
Found at i:793945 original size:22 final size:22
Alignment explanation
Indices: 793911--793953 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
793901 TACATTAAGT
793911 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
793933 ATTTGTTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
793954 TAAACTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:794515 original size:13 final size:13
Alignment explanation
Indices: 794497--794521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794487 ATTTTGCTTA
794497 GTATCGATACATT
1 GTATCGATACATT
794510 GTATCGATACAT
1 GTATCGATACAT
794522 AAAACTGGCA
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):
GTATCGATACATT
Found at i:794635 original size:24 final size:24
Alignment explanation
Indices: 794575--794644 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 24
794565 ACTATTCATT
794575 ATTGTTCATCACTGTTCATGTATC
1 ATTGTTCATCACTGTTCATGTATC
*
794599 ---GATACATCACTGTTCATGTATC
1 ATTG-TTCATCACTGTTCATGTATC
*
794621 ATTGTTCATCGCTGTTCATGTATC
1 ATTGTTCATCACTGTTCATGTATC
794645 GATTCATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.03
22 19 0.49
24 18 0.46
25 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (24 bp):
ATTGTTCATCACTGTTCATGTATC
Found at i:795918 original size:28 final size:27
Alignment explanation
Indices: 795851--795938 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 27
795841 ATTAGTTGAG
*
795851 AAAAAGTGACTA-GGCTGAAACTTTAGT-
1 AAAAGGTGACTAGGGC-GAAAC-TTAGTC
795878 AAAAGGTGACTAGGGCGAAAGCTTAGTC
1 AAAAGGTGACTAGGGCGAAA-CTTAGTC
795906 AAAAGGTGACTAGGGCGAAAACTTAAGTC
1 AAAAGGTGACTAGGGCG-AAACTT-AGTC
795935 AAAA
1 AAAA
795939 ATATGAATAG
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
27 20 0.36
28 24 0.44
29 11 0.20
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.19
Consensus pattern (27 bp):
AAAAGGTGACTAGGGCGAAACTTAGTC
Found at i:796100 original size:59 final size:59
Alignment explanation
Indices: 796037--796186 Score: 139
Period size: 59 Copynumber: 2.5 Consensus size: 59
796027 AATAATAGAA
* * *
796037 ATGAAGCTAAGGTTCAAA-AAGATGGCCTAGATGA-AGCCAAAAACCTAAAAATT-GCTTGG
1 ATGAAACTAAGGTTCAAACAA-ATGGCCTAGACGATA-CCAAAAACCT-AAAATTACCTTGG
* * * *
796096 ATGAAATTGAA-GTTCAAAGAAATGGTCTAGACGATACCAGAAACCTAAAATTACCTTGG
1 ATGAAACT-AAGGTTCAAACAAATGGCCTAGACGATACCAAAAACCTAAAATTACCTTGG
* *
796155 A-AAAATCCAAGGTTCAAACAAATGGCCTAGAC
1 ATGAAA-CTAAGGTTCAAACAAATGGCCTAGAC
796187 ATAACTTAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
58 11 0.15
59 58 0.78
60 5 0.07
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (59 bp):
ATGAAACTAAGGTTCAAACAAATGGCCTAGACGATACCAAAAACCTAAAATTACCTTGG
Found at i:796846 original size:88 final size:88
Alignment explanation
Indices: 796733--796950 Score: 240
Period size: 88 Copynumber: 2.4 Consensus size: 88
796723 TATGGATATT
* * * * * * * *
796733 AATAACGAGCCAAATTCAAGTGAAATGATGTAAATGCTAAGGTAATCAAATGGTATAGATACACA
1 AATAAAGAG-CAAATGCATGTGAAATGATGAAAATGCCAAAGTAATCAAATGGCATAAATACA-A
* *
796798 -TGAAACAATGCAAATGCAAGTATC
64 GTGAAACAATACAAATACAAGTATC
*
796822 AATAAAGAGCAAATGCATGTGAAATGATGAAAATGCCAAAGTAATCAAATGGCATAAATGCAAGT
1 AATAAAGAGCAAATGCATGTGAAATGATGAAAATGCCAAAGTAATCAAATGGCATAAATACAAGT
**
796887 GAAATGATACAAATACAAGTATC
66 GAAACAATACAAATACAAGTATC
* * * *
796910 AACAAAAGAGGCAAATGCATGTGAAATTATGCAAATACCAA
1 AA-TAAAGA-GCAAATGCATGTGAAATGATGAAAATGCCAA
796951 TGTTTCCTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
87 1 0.01
88 67 0.61
89 13 0.12
90 28 0.26
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (88 bp):
AATAAAGAGCAAATGCATGTGAAATGATGAAAATGCCAAAGTAATCAAATGGCATAAATACAAGT
GAAACAATACAAATACAAGTATC
Found at i:809329 original size:20 final size:20
Alignment explanation
Indices: 809304--809358 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
809294 ATTTACCTGC
809304 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
*
809324 ATGTATCGATACAATGATCA
1 ATGTATCGATACATTGATCA
809344 ATGTATCGATACATT
1 ATGTATCGATACATT
809359 TGGTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:809470 original size:13 final size:13
Alignment explanation
Indices: 809454--809481 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
809444 TAGGGTAGCT
809454 TTGTATCGATACA
1 TTGTATCGATACA
809467 TTGTATCGATACA
1 TTGTATCGATACA
809480 TT
1 TT
809482 TACTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:810200 original size:26 final size:25
Alignment explanation
Indices: 810155--810212 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
810145 TTTATTTTTA
*
810155 TTTTTTTTATTTTGTGC-TTTTCCT
1 TTTTTTTTATTTTGTCCTTTTTCCT
810179 GTTTTTTTTACTTTT-TACCTTTTTCCT
1 -TTTTTTTTA-TTTTGT-CCTTTTTCCT
810206 TTTTTTT
1 TTTTTTT
810213 CATCTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 10 0.34
26 12 0.41
27 7 0.24
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (25 bp):
TTTTTTTTATTTTGTCCTTTTTCCT
Found at i:815310 original size:20 final size:20
Alignment explanation
Indices: 815285--815325 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
815275 AATTGTAAGC
*
815285 ATGTATCAATACATTTACTT
1 ATGTATCAAAACATTTACTT
*
815305 ATGTATCAAAACATTTCCTT
1 ATGTATCAAAACATTTACTT
815325 A
1 A
815326 GTAGTATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (20 bp):
ATGTATCAAAACATTTACTT
Found at i:815502 original size:21 final size:21
Alignment explanation
Indices: 815449--815503 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
815439 GTTAGGACCT
*
815449 TGTATCGATACATCAAAGGCA
1 TGTATCGATACTTCAAAGGCA
*
815470 TGTATCAATACTTCAAAGGCA
1 TGTATCGATACTTCAAAGGCA
815491 TGTATCGATACTT
1 TGTATCGATACTT
815504 TTTGCCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (21 bp):
TGTATCGATACTTCAAAGGCA
Found at i:815963 original size:52 final size:52
Alignment explanation
Indices: 815896--816018 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
815886 TTTTGGGGCA
*
815896 TGACGCCTTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTTCTAAGGCT
1 TGACCCCTTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTTCTAAGGCT
* *
815948 TGACCCCTTTTGATAGGTGTTATCTAAAATGGGTTTTGGTTTTTTTAAGGCT
1 TGACCCCTTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTTCTAAGGCT
* *
816000 TTACCTCC-TTAGACAGGTG
1 TGACC-CCTTTAGATAGGTG
816019 CCAACTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 62 0.97
53 2 0.03
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (52 bp):
TGACCCCTTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTTCTAAGGCT
Found at i:816138 original size:86 final size:87
Alignment explanation
Indices: 815993--816160 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 87
815983 TTGGTTTTTT
** * * *
815993 TAAGGCTTTACCTCCTTAGACAGGTGCCAACTAAAATGGACTTGACTCAGACTTTGGTGCTC-CC
1 TAAGGCTGAACCTCCTTAGACAAGTGCCAACTAAAATGGACTGGACTCAGACTTAGGTGC-CACC
816057 AACTCGTGT-GGCTTTGACATTC
65 AACTCGTGTGGGCTTTGACATTC
* * *
816079 TAAGGCTGAACCTCCTTAGATAAGTGCCAACTAACATGGACTGGACT-TGAACTTAGGTGCCACC
1 TAAGGCTGAACCTCCTTAGACAAGTGCCAACTAAAATGGACTGGACTCAG-ACTTAGGTGCCACC
*
816143 AACTTGTGTGGGCTTTGA
65 AACTCGTGTGGGCTTTGA
816161 GTCGGGTGCC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 2 0.03
86 60 0.86
87 8 0.11
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TAAGGCTGAACCTCCTTAGACAAGTGCCAACTAAAATGGACTGGACTCAGACTTAGGTGCCACCA
ACTCGTGTGGGCTTTGACATTC
Found at i:816170 original size:31 final size:31
Alignment explanation
Indices: 816134--816208 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
816124 CTTGAACTTA
* * * * *
816134 GGTGCCACCAACTTGTGTGGGCTTTGAGTCG
1 GGTGCCACCAACTTGTGCGAGCTTTAACTAG
816165 GGTGCCACCAACTTGTGCGAGCTTTAACTAG
1 GGTGCCACCAACTTGTGCGAGCTTTAACTAG
816196 GGTGCCACCAACT
1 GGTGCCACCAACT
816209 CCTGTGGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGCGAGCTTTAACTAG
Found at i:816221 original size:30 final size:30
Alignment explanation
Indices: 816134--816221 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 30
816124 CTTGAACTTA
* * *
816134 GGTGCCACCAACTTGTGTGGGCTTTGAGTCG
1 GGTGCCACCAACTTGTGT-GGCTTTAACTAG
*
816165 GGTGCCACCAACTTGTGCGAGCTTTAACTAG
1 GGTGCCACCAACTTGTGTG-GCTTTAACTAG
**
816196 GGTGCCACCAACTCCTGTGGCTTTAA
1 GGTGCCACCAACTTGTGTGGCTTTAA
816222 TAGTCTAAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 8 0.16
31 41 0.84
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.27
Consensus pattern (30 bp):
GGTGCCACCAACTTGTGTGGCTTTAACTAG
Found at i:816318 original size:31 final size:31
Alignment explanation
Indices: 816282--816356 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
816272 CTTGAACTTA
* *
816282 GGTGCCACCAACTTATGTAAGCTTTGACTCG
1 GGTGCCACCAACTTATGCAAGCTTTGACTAG
* *
816313 GGTGCCACCAACTTGTGCGAGCTTTGACTAG
1 GGTGCCACCAACTTATGCAAGCTTTGACTAG
*
816344 GGTGACACCAACT
1 GGTGCCACCAACT
816357 CTTGTGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (31 bp):
GGTGCCACCAACTTATGCAAGCTTTGACTAG
Found at i:816456 original size:149 final size:148
Alignment explanation
Indices: 816055--816605 Score: 789
Period size: 149 Copynumber: 3.7 Consensus size: 148
816045 TTTGGTGCTC
* * * *
816055 CCAACTCGTGTGGCTTTGACATTCTAAGGCTGAACCTCCTTAGATAAGTGCCAACTAACATGGAC
1 CCAACTCGTGTGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATATGGAC
* ** * *
816120 TGGACTTGAACTTAGGTGCCACCAACTTGTGTGGGCTTTGAGTCGGGTGCCACCAACTTGTGCGA
66 TTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGTGCCACCAACTTGTGCGA
*
816185 GCTTTAACTAGGGTGCCA
131 GCTTTGACTAGGGTGCCA
* * * *
816203 CCAACTCCTGTGGCTTTAATAGTCTAAGGCTTAACCTCCTTAGATCA-GTGCCAACTAATATGGA
1 CCAACTCGTGTGGCTTTGACATTCTAAGGCTTAACCTCCTTAGA-CAGGTGCCAACTAATATGGA
* *
816267 CTTGACTTGAACTTAGGTGCCACCAACTTATGTAAGCTTTGACTCGGGTGCCACCAACTTGTGCG
65 CTTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGTGCCACCAACTTGTGCG
*
816332 AGCTTTGACTAGGGTGACA
130 AGCTTTGACTAGGGTGCCA
* * * ** * *
816351 CCAACTCTTGTGGGTTTTGACATTCTAAGGTTTAACCTCCTTAGACAGGAACCAATTAATGTGGA
1 CCAACTCGTGT-GGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATATGGA
* * * * * *
816416 CTTGACTTGAACTTAGGTACCACCAACTCGTGTGGGCTTTGACTCGGGTGCCACTAACTTATGCA
65 CTTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGTGCCACCAACTTGTGCG
816481 AGCTTTGACTAGGGTGCCA
130 AGCTTTGACTAGGGTGCCA
*
816500 CCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGGCAGGTGCCAACTAATATGGA
1 CCAACTCGTGT-GGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATATGGA
816565 CTTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTG
65 CTTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTG
816606 GAAGGGGAAG
Statistics
Matches: 356, Mismatches: 44, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
148 144 0.40
149 212 0.60
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (148 bp):
CCAACTCGTGTGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATATGGAC
TTGACTTGAACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGTGCCACCAACTTGTGCGA
GCTTTGACTAGGGTGCCA
Found at i:816517 original size:31 final size:31
Alignment explanation
Indices: 816435--816520 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 31
816425 AACTTAGGTA
*
816435 CCACCAACTCGTGTGGGCTTTGACTCGGGTG
1 CCACCAACTCGTGTGGGCTTTGACTAGGGTG
* ** ***
816466 CCACTAACTTATGCAAGCTTTGACTAGGGTG
1 CCACCAACTCGTGTGGGCTTTGACTAGGGTG
816497 CCACCAACTCGTGTGGGCTTTGAC
1 CCACCAACTCGTGTGGGCTTTGAC
816521 ATTCTAAGGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (31 bp):
CCACCAACTCGTGTGGGCTTTGACTAGGGTG
Found at i:816723 original size:43 final size:43
Alignment explanation
Indices: 816634--816742 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
816624 GGGGGCATCT
* * * *
816634 TGCTCTTTGAGGACAAA-AGAAAAAAGAGAATGAAATAGGTCT
1 TGCTCTTTGAGGACAAAGGGAAAAAAGAAAAAGAAATAGGTCC
* *
816676 TGCTCTTTGAGGACAAAGGGAAAAAGGAAAAAGGAA-AGTGTCC
1 TGCTCTTTGAGGACAAAGGGAAAAAAGAAAAAGAAATAG-GTCC
* *
816719 TGCTCCTTAAGGACAAAGGGAAAA
1 TGCTCTTTGAGGACAAAGGGAAAA
816743 GGAGTATGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 19 0.33
43 38 0.67
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (43 bp):
TGCTCTTTGAGGACAAAGGGAAAAAAGAAAAAGAAATAGGTCC
Found at i:816850 original size:42 final size:42
Alignment explanation
Indices: 816801--816917 Score: 153
Period size: 44 Copynumber: 2.7 Consensus size: 42
816791 TTCTTTGAGG
*
816801 ATAAAGGAAAAAAGGAAACAAAGTGCATCCTGCTCTATAAGA
1 ATAAAGGAAAAAAGGAAATAAAGTGCATCCTGCTCTATAAGA
* * * *
816843 ATAAAGGAAAAAGAAGGAAATAAAGTGCGTCTTGCTCTTTAAGG
1 ATAAAGG-AAAA-AAGGAAATAAAGTGCATCCTGCTCTATAAGA
* *
816887 ATAAAGGAAAAAAAGAAATGAAGTGCATCCT
1 ATAAAGGAAAAAAGGAAATAAAGTGCATCCT
816918 ACCCTTTGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 23 0.36
43 8 0.12
44 33 0.52
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (42 bp):
ATAAAGGAAAAAAGGAAATAAAGTGCATCCTGCTCTATAAGA
Found at i:816868 original size:44 final size:43
Alignment explanation
Indices: 816792--816939 Score: 183
Period size: 42 Copynumber: 3.5 Consensus size: 43
816782 TACGTCCCGT
* *
816792 TCTTTGAGGATAAAGG-AAAAAAGGAAACAAAGTGCATCCTGC
1 TCTTTAAGGATAAAGGAAAAAAAGGAAATAAAGTGCATCCTGC
* * * *
816834 TCTATAAGAATAAAGGAAAAAGAAGGAAATAAAGTGCGTCTTGC
1 TCTTTAAGGATAAAGGAAAAA-AAGGAAATAAAGTGCATCCTGC
* *
816878 TCTTTAAGGATAAAGGAAAAAAA-GAAATGAAGTGCATCCTAC
1 TCTTTAAGGATAAAGGAAAAAAAGGAAATAAAGTGCATCCTGC
* *
816920 CCTTTGAGGATAAAGGAAAA
1 TCTTTAAGGATAAAGGAAAA
816940 TGAAAGAAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 46 0.51
43 6 0.07
44 38 0.42
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.20
Consensus pattern (43 bp):
TCTTTAAGGATAAAGGAAAAAAAGGAAATAAAGTGCATCCTGC
Found at i:816892 original size:86 final size:86
Alignment explanation
Indices: 816792--816949 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 86
816782 TACGTCCCGT
* * * *
816792 TCTTTGAGGATAAAGGAAAAAAGGAAACAAAGTGCATCCTGCTCTATAAGAATAAAGGAAAAAGA
1 TCTTTAAGGATAAAGGAAAAAAAGAAACAAAGTGCATCCTACCCTATAAGAATAAAGGAAAAAGA
*
816857 AGGAAATAAAGTGCGTCTTGC
66 AAGAAATAAAGTGCGTCTTGC
** * * * *
816878 TCTTTAAGGATAAAGGAAAAAAAGAAATGAAGTGCATCCTACCCTTTGAGGATAAAGGAAAATGA
1 TCTTTAAGGATAAAGGAAAAAAAGAAACAAAGTGCATCCTACCCTATAAGAATAAAGGAAAAAGA
816943 AAGAAAT
66 AAGAAAT
816950 GCATCTTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (86 bp):
TCTTTAAGGATAAAGGAAAAAAAGAAACAAAGTGCATCCTACCCTATAAGAATAAAGGAAAAAGA
AAGAAATAAAGTGCGTCTTGC
Found at i:816964 original size:39 final size:41
Alignment explanation
Indices: 816792--816973 Score: 138
Period size: 42 Copynumber: 4.3 Consensus size: 41
816782 TACGTCCCGT
* * *
816792 TCTTTGAGGATAAAGGAAAAAAGGAAA-CAAAGTGCATCCTGC
1 TCTTTGAGGATAAAGGAAAAAA-GAAATGAAA-TGCATCTTAC
* * * * *
816834 TCTATAAGAATAAAGGAAAAAGAAGGAAAT-AAAGTGCGTCTTGC
1 TCTTTGAGGATAAAGG-AAAA-AA-GAAATGAAA-TGCATCTTAC
* * *
816878 TCTTTAAGGATAAAGGAAAAAAAGAAATGAAGTGCATCCTAC
1 TCTTTGAGGATAAAGG-AAAAAAGAAATGAAATGCATCTTAC
* * *
816920 CCTTTGAGGATAAAGG-AAAATGAAA-GAAATGCATCTTTC
1 TCTTTGAGGATAAAGGAAAAAAGAAATGAAATGCATCTTAC
816959 TCTTTGAGGAATAAA
1 TCTTTGAGG-ATAAA
816974 AGGTGCCACC
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 19 0.16
40 13 0.11
42 39 0.33
43 8 0.07
44 38 0.32
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (41 bp):
TCTTTGAGGATAAAGGAAAAAAGAAATGAAATGCATCTTAC
Found at i:817037 original size:33 final size:33
Alignment explanation
Indices: 816999--817100 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
816989 ATGTGTGCTT
816999 TAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
1 TAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
* * * * * *
817032 TAAAAGG----TGCCA-CCAACT-TGTGTGGGC
1 TAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
817059 TTTAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
1 --TAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
817094 TAAAAGG
1 TAAAAGG
817101 TGCCATGGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
27 6 0.12
28 5 0.10
29 10 0.20
33 17 0.35
34 5 0.10
35 6 0.12
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (33 bp):
TAAAAGGAAAAAGGCATCCTACTCTTTGAGGAC
Found at i:817115 original size:62 final size:62
Alignment explanation
Indices: 816958--817105 Score: 269
Period size: 62 Copynumber: 2.4 Consensus size: 62
816948 ATGCATCTTT
* * *
816958 CTCTTTGAGGAATAAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAAGGCATCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCATCCTA
817020 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCATCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCATCCTA
817082 CTCTTTGAGGACTAAAAGGTGCCA
1 CTCTTTGAGGACTAAAAGGTGCCA
817106 TGGAGTTGTG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 83 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (62 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCATCCTA
Found at i:817187 original size:32 final size:31
Alignment explanation
Indices: 817146--817224 Score: 110
Period size: 29 Copynumber: 2.6 Consensus size: 31
817136 GCCATGGAGT
817146 TGTGGACTTTGAAGAAAAAGGTGTCAC-GAAGC
1 TGTGGACTTTGAA-AAAAAGGTGTCACTG-AGC
*
817178 TGTGGACTTT-AAAAAGA-GTGTCACTGAGC
1 TGTGGACTTTGAAAAAAAGGTGTCACTGAGC
817207 TGTGGACTTTGAAAAAAA
1 TGTGGACTTTGAAAAAAA
817225 AGGAAAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 20 0.47
30 11 0.26
31 2 0.05
32 10 0.23
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.25
Consensus pattern (31 bp):
TGTGGACTTTGAAAAAAAGGTGTCACTGAGC
Found at i:822696 original size:34 final size:35
Alignment explanation
Indices: 822658--822724 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
822648 CCTTACAACA
822658 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
822692 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
822725 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:823200 original size:13 final size:13
Alignment explanation
Indices: 823182--823207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
823172 CAATTTTTTG
823182 TGTATCGATACAT
1 TGTATCGATACAT
823195 TGTATCGATACAT
1 TGTATCGATACAT
823208 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:823272 original size:21 final size:21
Alignment explanation
Indices: 823246--823321 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
823236 CTGCCAAGAA
823246 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
823267 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
823287 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
823308 ATGTATCGATACAT
1 ATGTATCGATACAT
823322 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:823291 original size:20 final size:20
Alignment explanation
Indices: 823266--823339 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
823256 ACATCTTTTT
823266 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
823286 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
823307 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
823327 CATGTATCGATAC
1 CATGTATCGATAC
823340 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:823303 original size:41 final size:41
Alignment explanation
Indices: 823246--823339 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
823236 CTGCCAAGAA
823246 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
823287 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
823328 ATGTATCGATAC
1 ATGTATCGATAC
823340 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:823989 original size:23 final size:23
Alignment explanation
Indices: 823959--824005 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
823949 ATCTCCCCCT
823959 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
823982 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
824005 T
1 T
824006 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:825174 original size:13 final size:13
Alignment explanation
Indices: 825156--825180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
825146 ACTGAAGCAA
825156 TGTATCGATACAT
1 TGTATCGATACAT
825169 TGTATCGATACA
1 TGTATCGATACA
825181 ATCTGGAAAA
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:825780 original size:23 final size:24
Alignment explanation
Indices: 825735--825781 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
825725 CAAAGAATTG
*
825735 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
825759 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
825782 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:828373 original size:34 final size:35
Alignment explanation
Indices: 828335--828401 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
828325 CCTTACAACA
828335 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
828369 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
828402 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:828877 original size:13 final size:13
Alignment explanation
Indices: 828859--828884 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
828849 CAATTTTTTG
828859 TGTATCGATACAT
1 TGTATCGATACAT
828872 TGTATCGATACAT
1 TGTATCGATACAT
828885 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:828949 original size:21 final size:21
Alignment explanation
Indices: 828923--828998 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
828913 CTGCCAAGAA
828923 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
828944 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
828964 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
828985 ATGTATCGATACAT
1 ATGTATCGATACAT
828999 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:828968 original size:20 final size:20
Alignment explanation
Indices: 828943--829016 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
828933 ACATCTTTTT
828943 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
828963 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
828984 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
829004 CATGTATCGATAC
1 CATGTATCGATAC
829017 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:828980 original size:41 final size:41
Alignment explanation
Indices: 828923--829016 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
828913 CTGCCAAGAA
828923 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
828964 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
829005 ATGTATCGATAC
1 ATGTATCGATAC
829017 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:829436 original size:13 final size:13
Alignment explanation
Indices: 829418--829442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
829408 CATGGCACAT
829418 TGTATCGATACAA
1 TGTATCGATACAA
829431 TGTATCGATACA
1 TGTATCGATACA
829443 TGAAGAATTG
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:829444 original size:33 final size:32
Alignment explanation
Indices: 829398--829460 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
829388 TCCCACTGTT
829398 TGTATCGACACATG-GCACATTGTATCGATACAA
1 TGTATCGACACATGAG-A-ATTGTATCGATACAA
*
829431 TGTATCGATACATGAAGAATTGTATCGATA
1 TGTATCGACACATG-AGAATTGTATCGATA
829461 ACTTGTCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (32 bp):
TGTATCGACACATGAGAATTGTATCGATACAA
Found at i:834021 original size:13 final size:13
Alignment explanation
Indices: 834003--834041 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
833993 ACAGAATTCT
834003 TTGTATCGATACA
1 TTGTATCGATACA
834016 TTGTATCGATACA
1 TTGTATCGATACA
*
834029 CTGTATCGATACA
1 TTGTATCGATACA
834042 GGGGGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:835931 original size:25 final size:25
Alignment explanation
Indices: 835902--835971 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
835892 AGAATGTTGT
835902 ATTAAGGAGGAGAAATTTTTCTTTG
1 ATTAAGGAGGAGAAATTTTTCTTTG
835927 ATTAAGGAGGA-AAACTTTTTCTTTG
1 ATTAAGGAGGAGAAA-TTTTTCTTTG
*
835952 ATTAAGGGGGAGAAATTTTT
1 ATTAAGGAGGAGAAATTTTT
835972 GATTAAGGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 3 0.07
25 36 0.86
26 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (25 bp):
ATTAAGGAGGAGAAATTTTTCTTTG
Found at i:836544 original size:20 final size:20
Alignment explanation
Indices: 836496--836552 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
836486 GTCAAAACCC
*
836496 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
836516 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* * *
836536 TGCATTGTATTGATACA
1 TGAAATGTATCGATACA
836553 TGAAAAGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:842211 original size:13 final size:13
Alignment explanation
Indices: 842193--842219 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
842183 ACATTATGCT
842193 TTGTATCGATACA
1 TTGTATCGATACA
842206 TTGTATCGATACA
1 TTGTATCGATACA
842219 T
1 T
842220 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:842216 original size:33 final size:32
Alignment explanation
Indices: 842174--842235 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
842164 CCCATCCAGA
* *
842174 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
842207 TGTATCGATACATGATCATTGTATCGATA
1 TGTATCGATACATGATCATTGTATCGATA
842236 TATACACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:842228 original size:19 final size:20
Alignment explanation
Indices: 842203--842321 Score: 77
Period size: 20 Copynumber: 5.8 Consensus size: 20
842193 TTGTATCGAT
842203 ACATTGTATCGATACATGA-
1 ACATTGTATCGATACATGAC
* *
842222 TCATTGTATCGATATAT-AC
1 ACATTGTATCGATACATGAC
842241 ACAATTGTATCGATACATGA-
1 AC-ATTGTATCGATACATGAC
* * * *
842261 A-ACTGATAGTAGCTACCCT-ACC
1 ACATTG-TA-TCGATA-CATGA-C
*
842283 ACTATTTGTATCGATACATGGC
1 AC-A-TTGTATCGATACATGAC
842305 ACATTGTATCGATACAT
1 ACATTGTATCGATACAT
842322 TATCCCAAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
18 4 0.05
19 18 0.24
20 34 0.45
21 4 0.05
22 6 0.08
23 4 0.05
24 3 0.04
25 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
ACATTGTATCGATACATGAC
Found at i:845817 original size:34 final size:33
Alignment explanation
Indices: 845739--846218 Score: 232
Period size: 34 Copynumber: 14.8 Consensus size: 33
845729 ATCTTTTCTC
* *
845739 TAAGTCCACGACTCAGTGGCATCCTTTTTCTTTT
1 TAAGTCCACAACTCTGTGGCA-CCTTTTTCTTTT
* *
845773 CAAAGCCCACAACGTC-GTGGCACCTTTTTTCTTTT
1 -TAAGTCCACAAC-TCTGTGGCACC-TTTTTCTTTT
* * *
845808 TAAGTCCACAAATCTATCGCACC-----C--TT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* ** * * *
845834 TAAGTTCATTACTCCGTGGTACCTTTATC-TTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* *
845866 TAAGTCCACAACTCAATG-GTGCA-TTTTTTCCTTT
1 TAAGTCCACAACTC--TGTG-GCACCTTTTTCTTTT
*
845900 TAAGTCCACAACTCCGTGGCA-C-----CTTTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * *
845927 TAAGTCCACAACTCTATGACACTTTTTTCTTTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * ** * *
845960 CAAAGCCCACAACTCCATGCCACCTTTTCTCCTTT
1 -TAAGTCCACAACTCTGTGGCACCTTTT-TCTTTT
*
845995 TAAGTCCATAACTCTGTGGCACCTTTTTCTTTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * * * * *
846028 CAAAGCCCATAACTCCGTGGTACCCTTTTTCCTTT
1 -TAAGTCCACAACTCTGTGGCA-CCTTTTTCTTTT
*
846063 TAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * * *
846096 CAAAGCCCACAACTCTGTGACACCTTTTTTCCTTT
1 -TAAGTCCACAACTCTGTGGCACC-TTTTTCTTTT
* * * *
846131 TAAGTCCATAATTCCGTGGCA-C----T-ATTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* ** *
846158 TAAGTCCATAACTCAATGGCACCTTTTCCTTTT
1 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * * *
846191 CAGAGCCCACAACTCCGTGGCATCTTTT
1 TA-AGTCCACAACTCTGTGGCACCTTTT
846219 GAAGTCCATA
Statistics
Matches: 336, Mismatches: 76, Indels: 67
0.70 0.16 0.14
Matches are distributed among these distances:
26 17 0.05
27 43 0.13
28 3 0.01
31 1 0.00
32 17 0.05
33 35 0.10
34 168 0.50
35 50 0.15
36 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (33 bp):
TAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
Found at i:845953 original size:27 final size:27
Alignment explanation
Indices: 845897--845954 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
845887 CATTTTTTCC
* *
845897 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCATGACACCT
* *
845924 TTTTAAGTCCACAACTCTATGACACTT
1 TTTTAAGTCCACAACTCCATGACACCT
845951 TTTT
1 TTTT
845955 CTTTTCAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGACACCT
Found at i:845954 original size:61 final size:60
Alignment explanation
Indices: 845863--845987 Score: 155
Period size: 61 Copynumber: 2.0 Consensus size: 60
845853 TACCTTTATC
* * * *
845863 TTTTAAGTCCACAACTCAATGGTGCA-TTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCAAT-G-ACACTTTTTT-CTTTTAAAGCCCACAACTCCATGCCACCT
*
845924 TTTTAAGTCCACAACTCTATGACACTTTTTTCTTTTCAAAGCCCACAACTCCATGCCACCT
1 TTTTAAGTCCACAACTCAATGACACTTTTTTCTTTT-AAAGCCCACAACTCCATGCCACCT
845985 TTT
1 TTT
845988 CTCCTTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
59 7 0.12
60 7 0.12
61 42 0.75
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.37
Consensus pattern (60 bp):
TTTTAAGTCCACAACTCAATGACACTTTTTTCTTTTAAAGCCCACAACTCCATGCCACCT
Found at i:846033 original size:68 final size:67
Alignment explanation
Indices: 845924--846152 Score: 307
Period size: 68 Copynumber: 3.4 Consensus size: 67
845914 CGTGGCACCT
** * * * *
845924 TTTTAAGTCCACAACTCTATGACACTTTTTTCTTTTCAAAGCCCACAACTCCATGCCACCTTTTC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGACACCTTTT-
845989 TCC
65 TCC
* * *
845992 TTTTAAGTCCATAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCCGTGGTAC-CCTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGT-G-ACACCTTT
846056 TTCC
64 TTCC
*
846060 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCTGTGACACCTTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGACACC-TTTT
846125 TCC
65 TCC
* *
846128 TTTTAAGTCCATAATTCCGTGGCAC
1 TTTTAAGTCCACAACTCCGTGGCAC
846153 TATTTTAAGT
Statistics
Matches: 144, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
66 2 0.01
67 3 0.02
68 131 0.91
69 7 0.05
70 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (67 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGACACCTTTTT
CC
Found at i:846110 original size:102 final size:98
Alignment explanation
Indices: 845844--846218 Score: 260
Period size: 95 Copynumber: 3.8 Consensus size: 98
845834 TAAGTTCATT
* * * * *
845844 ACTCCGTGGTACCTTTATCTTTTAAGTCCACAACTCAATGGTGCA-TTTTTTCCTTTT--AAGTC
1 ACTCCGTGGCA-CTTTTTCTTTTAAGTCCACAACTCCAT-G-GCACCTTTTT-CTTTTCAAAGCC
* * *
845906 CACAACTCCGTGGCACC----T--TTTTAAGTCCACA
62 CACAACTCTGTGGCACCTTTTTCCTTTTAAGCCCATA
** * * * *
845937 ACTCTATGACACTTTTTTCTTTTCAAAGCCCACAACTCCATGCCACCTTTTCTCCTTTT--AAGT
1 ACTCCGTGGCAC-TTTTTCTTTT--AAGTCCACAACTCCATGGCACCTTTT-T-CTTTTCAAAGC
*
846000 CCATAACTCTGTGGCACCTTTTT-CTTTTCAAAGCCCATA
61 CCACAACTCTGTGGCACCTTTTTCCTTTT--AAGCCCATA
* *
846039 ACTCCGTGGTACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCC
1 ACTCCGTGG--CACTTTTT-CTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCC
* *
846104 ACAACTCTGTGACACCTTTTTTCCTTTTAAGTCCATA
63 ACAACTCTGTGGCACC-TTTTTCCTTTTAAGCCCATA
* * * * * *
846141 ATTCCGTGGCAC----TATTTTAAGTCCATAACTCAATGGCACCTTTTCCTTTTCAGAGCCCACA
1 ACTCCGTGGCACTTTTTCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACA
* *
846202 ACTCCGTGGCATCTTTT
66 ACTCTGTGGCACCTTTT
846219 GAAGTCCATA
Statistics
Matches: 228, Mismatches: 35, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
92 1 0.00
93 18 0.08
94 9 0.04
95 93 0.41
96 1 0.00
99 1 0.00
100 11 0.05
101 1 0.00
102 71 0.31
103 10 0.04
104 12 0.05
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (98 bp):
ACTCCGTGGCACTTTTTCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACA
ACTCTGTGGCACCTTTTTCCTTTTAAGCCCATA
Found at i:846177 original size:27 final size:27
Alignment explanation
Indices: 846128--846179 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
846118 CCTTTTTTCC
* **
846128 TTTTAAGTCCATAATTCCGTGGCACTA
1 TTTTAAGTCCATAACTCAATGGCACTA
846155 TTTTAAGTCCATAACTCAATGGCAC
1 TTTTAAGTCCATAACTCAATGGCAC
846180 CTTTTCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (27 bp):
TTTTAAGTCCATAACTCAATGGCACTA
Found at i:846208 original size:61 final size:60
Alignment explanation
Indices: 846122--846246 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 60
846112 GTGACACCTT
* * * *
846122 TTTTCCTTTTAAGTCCATAATTCCGTGGCA-CTATTTTAAGTCCATAACTCAATGGCA-CC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCATCT-TTTGAAGTCCATAACTCAATGGCACCC
**
846181 TTTTCCTTTTCAGAGCCCACAACTCCGTGGCATCTTTTGAAGTCCATAACTCTGTGGCACCC
1 TTTTCCTTTT-A-AGCCCACAACTCCGTGGCATCTTTTGAAGTCCATAACTCAATGGCACCC
846243 TTTT
1 TTTT
846247 AAGTTCACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 10 0.18
60 1 0.02
61 37 0.66
62 8 0.14
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.37
Consensus pattern (60 bp):
TTTTCCTTTTAAGCCCACAACTCCGTGGCATCTTTTGAAGTCCATAACTCAATGGCACCC
Found at i:846232 original size:27 final size:26
Alignment explanation
Indices: 846197--846325 Score: 168
Period size: 27 Copynumber: 4.8 Consensus size: 26
846187 TTTTCAGAGC
*
846197 CCACAACTCCGTGGCATCTTTTGAAGT
1 CCACAACTCCGTGGCACCTTTT-AAGT
* *
846224 CCATAACTCTGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCA-CCTTTTAAGT
*
846251 TCACAACTCCGTGGCACCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTAAGT
* *
846277 CCACAACTCTGTAGCACCCTTTTAAGT
1 CCACAACTCCGTGGCA-CCTTTTAAGT
*
846304 CCACAACTCCATGGCACCTTTT
1 CCACAACTCCGTGGCACCTTTT
846326 CCTTCTAAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.33
27 54 0.61
28 5 0.06
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (26 bp):
CCACAACTCCGTGGCACCTTTTAAGT
Found at i:846294 original size:53 final size:54
Alignment explanation
Indices: 846197--846325 Score: 206
Period size: 53 Copynumber: 2.4 Consensus size: 54
846187 TTTTCAGAGC
* * *
846197 CCACAACTCCGTGGCATCTTTTGAAGTCCATAACTCTGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTGAAGTCCACAACTCTGTAGCACCCTTTTAAGT
*
846251 TCACAACTCCGTGGCACCTTTT-AAGTCCACAACTCTGTAGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTGAAGTCCACAACTCTGTAGCACCCTTTTAAGT
*
846304 CCACAACTCCATGGCACCTTTT
1 CCACAACTCCGTGGCACCTTTT
846326 CCTTCTAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 49 0.71
54 20 0.29
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (54 bp):
CCACAACTCCGTGGCACCTTTTGAAGTCCACAACTCTGTAGCACCCTTTTAAGT
Found at i:846372 original size:32 final size:32
Alignment explanation
Indices: 846326--846426 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
846316 GGCACCTTTT
846326 CCTTCT-AAAGCCCACATAAGTCCATGGCAAC
1 CCTTCTCAAAGCCCACATAAGTCCATGGCAAC
*
846357 CCTTCTCAAAGCCCACATAA-TCCGATGGCAAA
1 CCTTCTCAAAGCCCACATAAGTCC-ATGGCAAC
* * ** *
846389 CCTTCTCAAAGGCCACACAAGTCGGTGGCACC
1 CCTTCTCAAAGCCCACATAAGTCCATGGCAAC
846421 CCTTCT
1 CCTTCT
846427 TTGGGACCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.15
32 49 0.82
33 2 0.03
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.20
Consensus pattern (32 bp):
CCTTCTCAAAGCCCACATAAGTCCATGGCAAC
Found at i:855862 original size:167 final size:163
Alignment explanation
Indices: 855607--856062 Score: 574
Period size: 167 Copynumber: 2.8 Consensus size: 163
855597 AAATTTTTTT
* *
855607 ATTTTCATTAGTTTTTGAATTTTTTCCTTGAAATTCCTCTTTTTTTTGAAATATAGAGTTTTTCT
1 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCC-CTTTTTTCT-AAATAT-GAG-TTTTCT
* * * *
855672 ACT-CGTGGATTTTTTTTGAGGAGATTTTTCTTGGTTTTAATCGTTAAAATTCTTCAAACAACAT
62 ACTCCGTAGA-TTTTTTTGAGGAGATTTTTCTTGGTTTTAAT-TTTAAAATTCATCAAACATCAT
*
855736 TATTTATTTCATATT-ATTCAGTTTTAAAAAAATAAATTC
125 TATTTATTTCATATTAATTCAGTTTT-AAAAAACAAATTC
*
855775 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCCTTTTTTCTAAAATATGGAGTTTTCTTC
1 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCCTTTTTTCT-AAATAT-GAGTTTTCTAC
** *
855840 TCCGTAGATTTTTTTCGAGGAGATTTTTCTAAGTTTTAATTTTTAAAATTCATCAAATATCATTA
64 TCCGTAGATTTTTTT-GAGGAGATTTTTCTTGGTTTTAA-TTTTAAAATTCATCAAACATCATTA
*
855905 TTTATTTCATATTAATTCAGTTTTAAAAACCAAATTC
127 TTTATTTCATATTAATTCAGTTTTAAAAAACAAATTC
*
855942 ATTTTCATGAG-TTTTGAATTTTTT--TT----TTCCCTTTTTCCTAAATATG-GTATTTCTACT
1 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCCTTTTTTCTAAATATGAGT-TTTCTACT
* * *
855999 CCGTAAATTTCTTTGAGGGGATTTTTCTTGGTTTTTAATTTTAAAATTCATCAAAC-TCATTATT
65 CCGTAGATTTTTTTGAGGAGATTTTTCTTGG-TTTTAATTTTAAAATTCATCAAACATCATTATT
856063 AGTTTTTAAT
Statistics
Matches: 260, Mismatches: 22, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
156 8 0.03
157 33 0.13
158 26 0.10
159 6 0.02
160 12 0.05
164 2 0.01
166 28 0.11
167 98 0.38
168 47 0.18
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (163 bp):
ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCCTTTTTTCTAAATATGAGTTTTCTACTC
CGTAGATTTTTTTGAGGAGATTTTTCTTGGTTTTAATTTTAAAATTCATCAAACATCATTATTTA
TTTCATATTAATTCAGTTTTAAAAAACAAATTC
Done.