Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:734468 original size:13 final size:13
Alignment explanation
Indices: 734450--734488 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
734440 ACATTTTTCT
734450 TTGTATCGATACA
1 TTGTATCGATACA
734463 TTGTATCGATACA
1 TTGTATCGATACA
*
734476 CTGTATCGATACA
1 TTGTATCGATACA
734489 GGGTGATTAT
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:736774 original size:13 final size:13
Alignment explanation
Indices: 736756--736781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
736746 TACAGCAAGT
736756 ATGTATCGATACA
1 ATGTATCGATACA
736769 ATGTATCGATACA
1 ATGTATCGATACA
736782 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:745480 original size:33 final size:33
Alignment explanation
Indices: 745426--745488 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
745416 TTTGGGACAA
*
745426 TGTATCGATACAATTCTTCATGCATCGATATAT
1 TGTATCGATACAATTCGTCATGCATCGATATAT
*
745459 TGTATCGATACAATGT-GTCATGTATCGATA
1 TGTATCGATACAAT-TCGTCATGCATCGATA
745489 CAAATAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATTCGTCATGCATCGATATAT
Found at i:748249 original size:30 final size:30
Alignment explanation
Indices: 748213--748270 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
748203 ACAATGGAGC
748213 ATTTTCTCTTTTTCCACTAAAAAAGCATTT
1 ATTTTCTCTTTTTCCACTAAAAAAGCATTT
748243 ATTTTCTCTTTTTCCACTAAAAAAGCAT
1 ATTTTCTCTTTTTCCACTAAAAAAGCAT
748271 CTAAATTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (30 bp):
ATTTTCTCTTTTTCCACTAAAAAAGCATTT
Found at i:750305 original size:78 final size:79
Alignment explanation
Indices: 750195--750450 Score: 286
Period size: 79 Copynumber: 3.3 Consensus size: 79
750185 CATAAAGTAC
* ** * *
750195 AAACTAAACTTAGAAAGGCTTGGTCTCAACAAAATATACAAAACTAAAACTAACAGAC-TGGTTT
1 AAACTAAACTTAAAAAGGCTTGGTCTTGACAAAATATACAAAACTAAACCTAACAGACTTAGTTT
*
750259 CGATAGAAGGTATG
66 CGATGGAAGGTATG
* * ** *
750273 AACCTAAACTTAAAAAGGCTTCGTCTTGACAAAAGGTACAAAACTAAACCAAACAGACTTAGTTT
1 AAACTAAACTTAAAAAGGCTTGGTCTTGACAAAATATACAAAACTAAACCTAACAGACTTAGTTT
* **
750338 TGATGGAAAATATG
66 CGATGGAAGGTATG
* ** *
750352 AAACTAAACTTAAAAAGGCTTGGT-TTCGACAGAAGATAT-C-AAACTAATCCTAACATTCTTTG
1 AAACTAAACTTAAAAAGGCTTGGTCTT-GACA-AA-ATATACAAAACTAAACCTAACAGACTTAG
*
750414 TTTCAATGGAAGGTATG
63 TTTCGATGGAAGGTATG
750431 AAACTAAACTTAAAAAGGCT
1 AAACTAAACTTAAAAAGGCT
750451 CAATCTTAAC
Statistics
Matches: 147, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 51 0.35
79 91 0.62
80 3 0.02
81 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (79 bp):
AAACTAAACTTAAAAAGGCTTGGTCTTGACAAAATATACAAAACTAAACCTAACAGACTTAGTTT
CGATGGAAGGTATG
Found at i:750475 original size:79 final size:77
Alignment explanation
Indices: 750255--750522 Score: 252
Period size: 79 Copynumber: 3.4 Consensus size: 77
750245 TAACAGACTG
* * * *
750255 GTTTCGATAGAAGGTATGAACCTAAACTTAAAAAGGCTTCGTCTTGACAAAAGGTACAAAACTAA
1 GTTTCGATGGAAGGTATGAAACTAAACTTAAAAAGGC-TCGTCTTGACAGAAGGTATAAAACTAA
* *
750320 ACCAAACAGACTTA
65 TCCTAACA-ACTTA
* ** * * *
750334 GTTTTGATGGAAAATATGAAACTAAACTTAAAAAGGCTTGGT-TTCGACAGAAGATATCAAACTA
1 GTTTCGATGGAAGGTATGAAACTAAACTTAAAAAGGC-TCGTCTT-GACAGAAGGTATAAAACTA
* *
750398 ATCCTAACATTCTTT
64 ATCCTAACA-ACTTA
* * * *
750413 GTTTCAATGGAAGGTATGAAACTAAACTTAAAAAGGCTCAATCTTAACCGAAGGTATAAAACTAA
1 GTTTCGATGGAAGGTATGAAACTAAACTTAAAAAGGCTC-GTCTTGACAGAAGGTATAAAACTAA
* *
750478 TCTTAATCAACTCA
65 TCCTAA-CAACTTA
* *
750492 GTTTTC-ATGAAAGTTATGAAACTAAACTTAA
1 G-TTTCGATGGAAGGTATGAAACTAAACTTAA
750523 TTAAGCTGAG
Statistics
Matches: 153, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
78 3 0.02
79 142 0.93
80 8 0.05
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (77 bp):
GTTTCGATGGAAGGTATGAAACTAAACTTAAAAAGGCTCGTCTTGACAGAAGGTATAAAACTAAT
CCTAACAACTTA
Found at i:750495 original size:158 final size:157
Alignment explanation
Indices: 750195--750522 Score: 369
Period size: 158 Copynumber: 2.1 Consensus size: 157
750185 CATAAAGTAC
*
750195 AAACTAAACTTAGAAAGGCTTGGTCTCAACAAAATATACAAAACTAAAACTAACAGACTGGTTTC
1 AAACTAAACTTAAAAAGGCTTGGTCTCAACAAAATATACAAAACTAAAACTAACAGACTGGTTTC
* * * *
750260 GATAGAAGGTATGAACCTAAACTTAAAAAGGCTTCGTCTTGACAAAAGGTACAAAACTAAACCAA
66 AATAGAAGGTATGAAACTAAACTTAAAAAGGCTTCATCTTAACAAAAGGTACAAAACTAAACCAA
* *
750325 ACAGACTTAGTTTTGATGGAAA-ATATG
131 ACAGACTCAGTTTTCAT-GAAAGATATG
* * ** ** *
750352 AAACTAAACTTAAAAAGGCTTGGTTTCGACAGAAGATAT-C-AAACTAATCCTAACATTCTTTGT
1 AAACTAAACTTAAAAAGGCTTGGTCTCAACA-AA-ATATACAAAACTAAAACTAACAGAC-TGGT
* ** * *
750415 TTCAATGGAAGGTATGAAACTAAACTTAAAAAGGC-TCAATCTTAACCGAAGGTATAAAACTAAT
63 TTCAATAGAAGGTATGAAACTAAACTTAAAAAGGCTTC-ATCTTAACAAAAGGTACAAAACTAAA
* * *
750479 CTTAATCA-ACTCAGTTTTCATGAAAGTTATG
127 C-CAAACAGACTCAGTTTTCATGAAAGATATG
750510 AAACTAAACTTAA
1 AAACTAAACTTAA
750523 TTAAGCTGAG
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
157 48 0.34
158 87 0.61
159 8 0.06
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (157 bp):
AAACTAAACTTAAAAAGGCTTGGTCTCAACAAAATATACAAAACTAAAACTAACAGACTGGTTTC
AATAGAAGGTATGAAACTAAACTTAAAAAGGCTTCATCTTAACAAAAGGTACAAAACTAAACCAA
ACAGACTCAGTTTTCATGAAAGATATG
Found at i:751076 original size:22 final size:22
Alignment explanation
Indices: 751033--751077 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
751023 CCAATACCAA
* *
751033 TTATAATAATATTTTTATATTT
1 TTATAATAATATTTTAAAATTT
*
751055 TTATATTAATATTTTAAAATTT
1 TTATAATAATATTTTAAAATTT
751077 T
1 T
751078 AAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATAATAATATTTTAAAATTT
Found at i:753899 original size:14 final size:14
Alignment explanation
Indices: 753880--753914 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
753870 TATCATGTCT
753880 CATGTCTCTTTCCA
1 CATGTCTCTTTCCA
753894 CATGTCTCTTTCCA
1 CATGTCTCTTTCCA
753908 CATGTCT
1 CATGTCT
753915 GTTGTAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.34, G:0.09, T:0.43
Consensus pattern (14 bp):
CATGTCTCTTTCCA
Found at i:754786 original size:14 final size:14
Alignment explanation
Indices: 754763--754793 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
754753 AGGCATCTTT
754763 ATTAAAAAAAATAAA
1 ATTAAAAAAAA-AAA
754778 ATTAAAAAAAAAAA
1 ATTAAAAAAAAAAA
754792 AT
1 AT
754794 GAGCTCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
ATTAAAAAAAAAAA
Found at i:755816 original size:32 final size:34
Alignment explanation
Indices: 755778--755863 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 34
755768 ATTTTAACTA
755778 TTAAATTTAATTTTAAATAAAAATTAAA-TT-AT-
1 TTAAATTTAATTTTAAATAAAAA-TAAATTTAATC
* *
755810 TTAAATTTATTTATTTAATAAAAATAAATTTAAATC
1 TTAAATTTAATT-TTAAATAAAAATAAATTT-AATC
*
755846 TTATATTTAATTTTAAAT
1 TTAAATTTAATTTTAAAT
755864 TTAATTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 15 0.34
33 12 0.27
35 7 0.16
36 10 0.23
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (34 bp):
TTAAATTTAATTTTAAATAAAAATAAATTTAATC
Found at i:755902 original size:20 final size:21
Alignment explanation
Indices: 755855--755904 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
755845 CTTATATTTA
*
755855 ATTTTAAATTTAATTATTTTT
1 ATTTTAAATTTAAATATTTTT
*
755876 A-TATAAATTTAAAT-TTTTT
1 ATTTTAAATTTAAATATTTTT
755895 ATTTTAAATT
1 ATTTTAAATT
755905 AAAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 18 0.72
21 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTAAATTTAAATATTTTT
Found at i:755947 original size:21 final size:21
Alignment explanation
Indices: 755898--755949 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
755888 ATTTTTTATT
755898 TTAAATTAAAAATAATAAAAA
1 TTAAATTAAAAATAATAAAAA
* * ** *
755919 ATATATTAAAAATTTTATAAA
1 TTAAATTAAAAATAATAAAAA
755940 TTAAATTAAA
1 TTAAATTAAA
755950 TTCATAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAATTAAAAATAATAAAAA
Found at i:759376 original size:6 final size:6
Alignment explanation
Indices: 759361--759405 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
759351 TTCAAGATAT
759361 AAAA-G AAAAGG AAAAGG AAAAGG AAGAA-G -AAAGG AAAAGG AAAAG
1 AAAAGG AAAAGG AAAAGG AAAAGG AA-AAGG AAAAGG AAAAGG AAAAG
759406 TTGTTACTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 2 0.06
5 6 0.17
6 26 0.72
7 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:759381 original size:17 final size:16
Alignment explanation
Indices: 759373--759405 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
759363 AAGAAAAGGA
759373 AAAGGAAAAGGAAGAAG
1 AAAGGAAAAGGAA-AAG
759390 AAAGGAAAAGGAAAAG
1 AAAGGAAAAGGAAAAG
759406 TTGTTACTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAAGGAAAAGGAAAAG
Found at i:760203 original size:22 final size:22
Alignment explanation
Indices: 760178--760219 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
760168 GATGTGATAT
* *
760178 TAATTTGATTAAAATTATATCA
1 TAATTTAATTAAAATAATATCA
760200 TAATTTAATTAAAATAATAT
1 TAATTTAATTAAAATAATAT
760220 ATTCAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATTTAATTAAAATAATATCA
Found at i:760498 original size:11 final size:12
Alignment explanation
Indices: 760484--760512 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
760474 ATTTATTTAA
760484 TATTTAA-TTTT
1 TATTTAATTTTT
760495 TATTTAATTTTT
1 TATTTAATTTTT
760507 TATTTA
1 TATTTA
760513 TTGTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTAATTTTT
Found at i:760502 original size:18 final size:18
Alignment explanation
Indices: 760460--760514 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
760450 CAAATTTAAA
*
760460 ATTTAAAATTTAATATTT
1 ATTTAATATTTAATATTT
*
760478 ATTTAATATTTAATTTTT
1 ATTTAATATTTAATATTT
*
760496 ATTTAAT-TTT-TTATTT
1 ATTTAATATTTAATATTT
760512 ATT
1 ATT
760515 GTTAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 23 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTAATATTTAATATTT
Found at i:760630 original size:17 final size:17
Alignment explanation
Indices: 760599--760650 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
760589 TACTTACTGA
760599 AATAACAAT-AATTAAAT
1 AATAA-AATAAATTAAAT
760616 AATAAAA-AAATTTAAA-
1 AATAAAATAAA-TTAAAT
*
760632 ATTAAAATAAATTAAAT
1 AATAAAATAAATTAAAT
760649 AA
1 AA
760651 CTTCTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAATAAATTAAAT
Found at i:761073 original size:29 final size:31
Alignment explanation
Indices: 761040--761122 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
761030 TGTAATTGAT
*
761040 TTTAATATTAATTATA-TATATTA-TAAATA
1 TTTAATATTAATTAAATTATATTATTAAATA
* *
761069 TTTAAT-TTTATTAAATTATATTATTAAATT
1 TTTAATATTAATTAAATTATATTATTAAATA
* *
761099 TTTATTATTAA-TAAATTAAATTAT
1 TTTAATATTAATTAAATTATATTAT
761123 ATATGTTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.16
29 13 0.29
30 22 0.49
31 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTAATATTAATTAAATTATATTATTAAATA
Found at i:761088 original size:24 final size:23
Alignment explanation
Indices: 761042--761105 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
761032 TAATTGATTT
* *
761042 TAATA-TTAATTATA-TATATTA
1 TAATATTTAATTTTATTAAATTA
761063 TAAATATTTAATTTTATTAAATTA
1 T-AATATTTAATTTTATTAAATTA
* *
761087 TATTATTAAATTTTTATTA
1 TAATATTTAA-TTTTATTA
761106 TTAATAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 15 0.43
24 15 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATATTTAATTTTATTAAATTA
Found at i:761106 original size:14 final size:13
Alignment explanation
Indices: 761076--761109 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
761066 ATATTTAATT
761076 TTATTAAATTATA
1 TTATTAAATTATA
*
761089 TTATTAAATTTTTA
1 TTATTAAA-TTATA
761103 TTATTAA
1 TTATTAA
761110 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTAAATTATA
Found at i:761288 original size:16 final size:16
Alignment explanation
Indices: 761248--761309 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 16
761238 TATTAAAATT
*
761248 ATTTAA-AAAAATT-A
1 ATTTAATAATAATTAA
761262 ATTT-A-AATAATTAA
1 ATTTAATAATAATTAA
* *
761276 ATTTATTAATAATAAAA
1 ATTTAATAATAAT-TAA
761293 ATTTAATAA-AATTAA
1 ATTTAATAATAATTAA
761308 AT
1 AT
761310 ATTTATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.18
14 9 0.23
15 4 0.10
16 9 0.23
17 10 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTAATAATAATTAA
Found at i:761294 original size:17 final size:17
Alignment explanation
Indices: 761274--761315 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
761264 TTAAATAATT
761274 AAATTTATTAATAA-TAA
1 AAATTTATTAA-AATTAA
*
761291 AAATTTAATAAAATTAA
1 AAATTTATTAAAATTAA
*
761308 ATATTTAT
1 AAATTTAT
761316 AATTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTATTAAAATTAA
Found at i:761318 original size:30 final size:30
Alignment explanation
Indices: 761261--761318 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
761251 TAAAAAAATT
*
761261 AATTTAAATAATTAAATTTATTAATAATAAA
1 AATTTAAAAAATTAAA-TTATTAATAATAAA
*
761292 AATTTAATAAAATTAAA-TATTTATAAT
1 AATTTAA-AAAATTAAATTATTAATAAT
761319 TTATATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.38
31 7 0.29
32 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTTAAAAAATTAAATTATTAATAATAAA
Found at i:762038 original size:13 final size:14
Alignment explanation
Indices: 762010--762039 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
762000 ATTATCAACA
762010 AAAAATAAATTATT
1 AAAAATAAATTATT
762024 AAAAATAAATT-TT
1 AAAAATAAATTATT
762037 AAA
1 AAA
762040 TAAAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATAAATTATT
Found at i:764603 original size:7 final size:7
Alignment explanation
Indices: 764591--764619 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
764581 TCTTTAAGAT
764591 TATAGAA
1 TATAGAA
764598 TATAGAA
1 TATAGAA
764605 TATAGAA
1 TATAGAA
764612 TATAGAA
1 TATAGAA
764619 T
1 T
764620 GGGAGCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (7 bp):
TATAGAA
Found at i:765115 original size:10 final size:11
Alignment explanation
Indices: 765093--765135 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
765083 GATATGAGTA
765093 TAATATAAAAAT
1 TAATAT-AAAAT
765105 TAAT-TAAAAT
1 TAATATAAAAT
*
765115 TATATATAAAAA
1 TA-ATATAAAAT
765127 TAATATAAA
1 TAATATAAA
765136 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.25
11 10 0.36
12 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATATAAAAT
Found at i:765124 original size:23 final size:22
Alignment explanation
Indices: 765095--765150 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
765085 TATGAGTATA
765095 ATATAAAAATTAAT-TAAAATTAT
1 ATATAAAAATTAATAT-AAATT-T
765118 ATATAAAAA-TAATATAAATTT
1 ATATAAAAATTAATATAAATTT
*
765139 TTA-AAAAATTAA
1 ATATAAAAATTAA
765151 ATTTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.17
21 6 0.20
22 9 0.30
23 10 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAAAATTAATATAAATTT
Found at i:765132 original size:11 final size:11
Alignment explanation
Indices: 765092--765135 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
765082 TGATATGAGT
765092 ATAATATAAAA
1 ATAATATAAAA
765103 ATTAAT-TAAAA
1 A-TAATATAAAA
*
765114 TTATATATAAAA
1 ATA-ATATAAAA
765126 ATAATATAAA
1 ATAATATAAA
765136 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 2 0.07
11 15 0.54
12 11 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:767036 original size:2 final size:2
Alignment explanation
Indices: 767029--767068 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
767019 ACCATGGAAG
767029 AT AT AT AT AT 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 AT AT AT AT AT
767069 CAGCAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:770824 original size:16 final size:16
Alignment explanation
Indices: 770803--770833 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
770793 TTTTTGACCA
770803 GATGTATCGATACATT
1 GATGTATCGATACATT
770819 GATGTATCGATACAT
1 GATGTATCGATACAT
770834 GCAAGCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
GATGTATCGATACATT
Found at i:884530 original size:31 final size:32
Alignment explanation
Indices: 884470--884531 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
884460 CTTCTAGATG
*
884470 TATCGATACATACTGCTTTGTATCAATACATT
1 TATCGATACATACTGCATTGTATCAATACATT
* *
884502 TATCGATACATGCT-CATTGTATCGATACAT
1 TATCGATACATACTGCATTGTATCAATACAT
884532 GGACAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (32 bp):
TATCGATACATACTGCATTGTATCAATACATT
Found at i:884546 original size:20 final size:19
Alignment explanation
Indices: 884497--884552 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
884487 TTGTATCAAT
884497 ACATT-TATCGATACATGC
1 ACATTATATCGATACATGC
* * *
884515 TCATTGTATCGATACATGG
1 ACATTATATCGATACATGC
884534 ACAATTATATCGATACATG
1 AC-ATTATATCGATACATG
884553 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 15 0.47
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (19 bp):
ACATTATATCGATACATGC
Found at i:884623 original size:33 final size:34
Alignment explanation
Indices: 884581--884650 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
884571 CTATCACTAT
*
884581 TTGTATCGATACATG-GGACAA-TGTATTGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
884614 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
884648 TTG
1 TTG
884651 CTTTGTACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:884624 original size:13 final size:13
Alignment explanation
Indices: 884602--884650 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
884592 CATGGGACAA
*
884602 TGTATTGATACAT
1 TGTATCGATACAT
884615 TGTATCGATACA-
1 TGTATCGATACAT
884627 TG-AT-GA-A-AT
1 TGTATCGATACAT
884636 TGTATCGATACAT
1 TGTATCGATACAT
884649 TG
1 TG
884651 CTTTGTACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:890799 original size:13 final size:13
Alignment explanation
Indices: 890781--890809 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
890771 ACAATATTCC
890781 TTGTATCGATACA
1 TTGTATCGATACA
890794 TTGTATCGATACA
1 TTGTATCGATACA
890807 TTG
1 TTG
890810 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:892649 original size:22 final size:21
Alignment explanation
Indices: 892624--892669 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
892614 TTTTTTAGTA
892624 TTTGACAAAGGGGGAGAAATTC
1 TTTGACAAAGGGGGAG-AATTC
**
892646 TTTGATTAAGGGGGAGAATTC
1 TTTGACAAAGGGGGAGAATTC
892667 TTT
1 TTT
892670 TTAAGAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (21 bp):
TTTGACAAAGGGGGAGAATTC
Found at i:892665 original size:21 final size:21
Alignment explanation
Indices: 892631--892696 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 21
892621 GTATTTGACA
892631 AAGGGGGAGAAATTCTTTGATT
1 AAGGGGGAGAAATTCTTT-ATT
892653 AAGGGGGAG-AATTCTTT-TT
1 AAGGGGGAGAAATTCTTTATT
*
892672 AA-GAGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATTCTTT-ATT
892693 AAGG
1 AAGG
892697 AGAGTAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 5 0.13
19 12 0.31
21 12 0.31
22 10 0.26
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (21 bp):
AAGGGGGAGAAATTCTTTATT
Found at i:893263 original size:13 final size:13
Alignment explanation
Indices: 893245--893271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
893235 ACATACTGCT
893245 TTGTATCGATACA
1 TTGTATCGATACA
893258 TTGTATCGATACA
1 TTGTATCGATACA
893271 T
1 T
893272 GCTCATTGTA
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:893268 original size:33 final size:32
Alignment explanation
Indices: 893226--893290 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
893216 CACTTCCAGA
*
893226 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACT-CATTGTATCGATACAT
*
893259 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCGATACAT
893291 GGACAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:893280 original size:19 final size:19
Alignment explanation
Indices: 893255--893311 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
893245 TTGTATCGAT
893255 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
893274 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
893293 ACAATTATATCGATACATG
1 AC-ATTGTATCGATACATG
893312 AAACTGGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:893382 original size:33 final size:34
Alignment explanation
Indices: 893340--893409 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
893330 CTATCACTAT
*
893340 TTGTATCGATACATG-GGACAA-TGTATTGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
893373 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
893407 TTG
1 TTG
893410 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:893383 original size:13 final size:13
Alignment explanation
Indices: 893361--893409 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
893351 CATGGGACAA
*
893361 TGTATTGATACAT
1 TGTATCGATACAT
893374 TGTATCGATACA-
1 TGTATCGATACAT
893386 TG-AT-GA-A-AT
1 TGTATCGATACAT
893395 TGTATCGATACAT
1 TGTATCGATACAT
893408 TG
1 TG
893410 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:894684 original size:7 final size:7
Alignment explanation
Indices: 894674--894710 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
894664 AAAAAAACCA
894674 AAAAAAC
1 AAAAAAC
894681 AAAAAAC
1 AAAAAAC
894688 AAAAAA-
1 AAAAAAC
*
894694 AAAACA-
1 AAAAAAC
894700 AAAAAAC
1 AAAAAAC
894707 AAAA
1 AAAA
894711 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:894694 original size:18 final size:19
Alignment explanation
Indices: 894673--894710 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
894663 CAAAAAAACC
894673 AAAAAAAC-AAAAAACAAA
1 AAAAAAACAAAAAAACAAA
894691 AAAAAAACAAAAAAACAAA
1 AAAAAAACAAAAAAACAAA
894710 A
1 A
894711 CAAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAACAAA
Found at i:894701 original size:26 final size:24
Alignment explanation
Indices: 894664--894722 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 24
894654 CTTTTTTTTC
*
894664 AAAAAAACCAAAAAAACAAAAAACAA
1 AAAAAAAACAAAAAAAC--AAAACAA
894690 AAAAAAAACAAAAAAACAAAACAA
1 AAAAAAAACAAAAAAACAAAACAA
894714 AGAAAAAAA
1 A-AAAAAAA
894723 GAGAGGAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 8 0.26
25 7 0.23
26 16 0.52
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAAAAACAAAAAAACAAAACAA
Found at i:894720 original size:18 final size:16
Alignment explanation
Indices: 894663--894722 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
894653 TCTTTTTTTT
*
894663 CAAAAAAACCAAAAAAA
1 CAAAAAAA-AAAAAAAA
*
894680 CAAAAAACAAAAAAAA
1 CAAAAAAAAAAAAAAA
* *
894696 -AACAAAAAAACAAAA
1 CAAAAAAAAAAAAAAA
894711 CAAAGAAAAAAA
1 CAAA-AAAAAAA
894723 GAGAGGAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 12 0.34
16 9 0.26
17 14 0.40
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:894724 original size:8 final size:8
Alignment explanation
Indices: 894663--894722 Score: 66
Period size: 9 Copynumber: 7.0 Consensus size: 8
894653 TCTTTTTTTT
894663 CAAAAAAA
1 CAAAAAAA
894671 CCAAAAAAA
1 -CAAAAAAA
894680 CAAAAAACAA
1 C-AAAAA-AA
*
894690 AAAAAAAA
1 CAAAAAAA
894698 CAAAAAAA
1 CAAAAAAA
894706 CAAAACAAA
1 CAAAA-AAA
*
894715 GAAAAAAA
1 CAAAAAAA
894723 GAGAGGAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
8 18 0.40
9 25 0.56
10 2 0.04
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:895829 original size:62 final size:62
Alignment explanation
Indices: 895612--896062 Score: 601
Period size: 61 Copynumber: 7.4 Consensus size: 62
895602 TTTCTCCTTT
895612 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
895674 CACTTTTCTAGTCCTTAAAGAACA-GATGCC-TTTCCTTTTAAAGCCCACTCAAGTTGATGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
895734 CA-TTTTCTACTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
895795 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT-TTTTTAAAGCCCACACAAGCTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
895856 CAC-CTACTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACATAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
895917 CACTTTTCCAGTCTTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCTCAGACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * ** *
895979 CAC-CTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTACAAAGCCCATACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
896040 CAC-CTTCTAGTCCTGAAGGAGCA
1 CACTTTTCTAGTCCTCAAAGAGCA
896063 AGACCCATTT
Statistics
Matches: 342, Mismatches: 42, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
59 18 0.05
60 64 0.19
61 156 0.46
62 104 0.30
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (62 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:896670 original size:20 final size:20
Alignment explanation
Indices: 896645--896716 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
896635 TTTTCACAAT
*
896645 TTGTATTGATACTTTGATCA
1 TTGTATCGATACTTTGATCA
896665 TTGTATCGATACTTTGATCA
1 TTGTATCGATACTTTGATCA
*
896685 TTGTATCGATACATTT-TTCA
1 TTGTATCGATAC-TTTGATCA
*
896705 ATGTATCGATAC
1 TTGTATCGATAC
896717 ATTCAAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 45 0.94
21 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACTTTGATCA
Found at i:899192 original size:106 final size:108
Alignment explanation
Indices: 899004--899232 Score: 320
Period size: 106 Copynumber: 2.1 Consensus size: 108
898994 TTCATCTCAG
* *
899004 GGATACTCTAACCCCGTTATTTCATAATCGAAGATACTCCAACCCCGTTATTTTCGAAGGGATAC
1 GGATACTCTAACCCCGTTATTTC--AATCGAAGATACTCCAACCCCATTATTTTCCAAGGGATAC
* * *
899069 TCCAACCTCGGTTTTATTTTTAAAACACCAATTTTTCACAATCGA
64 TCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
* **
899114 GGATACTCTAGCCCCGTTATTTC-ATCGGGGATACTCC-ACCCCTATTA-TTTCCAAGGGATACT
1 GGATACTCTAACCCCGTTATTTCAATCGAAGATACTCCAACCCC-ATTATTTTCCAAGGGATACT
* *
899176 CCAACCCCAGTTTTATTTCTAAAACACCGATTTTTCACAATCGG
65 CCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
899220 GGATACTCTAACC
1 GGATACTCTAACC
899233 TTGCTATTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
106 70 0.65
107 15 0.14
110 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (108 bp):
GGATACTCTAACCCCGTTATTTCAATCGAAGATACTCCAACCCCATTATTTTCCAAGGGATACTC
CAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGA
Found at i:899225 original size:78 final size:79
Alignment explanation
Indices: 899137--899308 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
899127 CCGTTATTTC
* * *
899137 ATCGGGGATACTCCACCCCTATTATTTCCAA-GGGATACTCCAACCCC-AGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCTACTATTTCCAAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAA
*
899200 CACCGATTTTTCACA-
65 CACCGATTCTTC-CAT
* * * * * *
899215 ATCGGGGATACTCTAACCTTGCTATTTTCAAGGGGATACTCCAACCTCGATTTTATTTCCAGAAC
1 ATCGGGGATACTCCAACCCTACTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAAC
899280 ACCGATTCTTCCAT
66 ACCGATTCTTCCAT
899294 AGTCAGGGGATACTC
1 A-TC-GGGGATACTC
899309 TAGCCCAGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
78 27 0.34
79 39 0.49
80 3 0.04
81 10 0.13
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTACTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAAC
ACCGATTCTTCCAT
Found at i:899241 original size:106 final size:106
Alignment explanation
Indices: 899036--899257 Score: 295
Period size: 106 Copynumber: 2.1 Consensus size: 106
899026 CATAATCGAA
* * * * *
899036 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCGGTTTTATTTTTAAAACACCAAT
1 GATACTCC-ACCCCATTATTTTCCAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAT
* * *
899101 TTTTCACAATCGAGGATACTCTAGCCCCGTTA-TTTCATCGGG
65 TTTTCACAATCGAGGATACTCTAACCCCGCTATTTTCA-AGGG
*
899143 GATACTCCACCCCTATTA-TTTCCAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGAT
1 GATACTCCACCCC-ATTATTTTCCAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAAT
* **
899207 TTTTCACAATCGGGGATACTCTAACCTTGCTATTTTCAAGGG
65 TTTTCACAATCGAGGATACTCTAACCCCGCTATTTTCAAGGG
899249 GATACTCCA
1 GATACTCCA
899258 ACCTCGATTT
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
106 85 0.84
107 16 0.16
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (106 bp):
GATACTCCACCCCATTATTTTCCAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATT
TTTCACAATCGAGGATACTCTAACCCCGCTATTTTCAAGGG
Found at i:899281 original size:79 final size:80
Alignment explanation
Indices: 899159--899310 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 80
899149 CCACCCCTAT
* *
899159 TATTTCCAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTTCACA-A-TC-GGG
1 TATTTCCAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCGATTCTTC-CATAGTCAGGG
899221 GATACTCTAACCTTGC
65 GATACTCTAACCTTGC
* * *
899237 TATTTTCAAGGGGATACTCCAACCTC-GATTTTATTTCCAGAACACCGATTCTTCCATAGTCAGG
1 TATTTCCAA-GGGATACTCCAACCCCAG-TTTTATTTCCAAAACACCGATTCTTCCATAGTCAGG
899301 GGATACTCTA
64 GGATACTCTA
899311 GCCCAGTTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
78 11 0.17
79 39 0.61
80 2 0.03
81 12 0.19
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (80 bp):
TATTTCCAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCGATTCTTCCATAGTCAGGGG
ATACTCTAACCTTGC
Found at i:904076 original size:20 final size:21
Alignment explanation
Indices: 904046--904085 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
904036 TTTGGTTTTT
904046 TTCAGATGTATCAATACATTA
1 TTCAGATGTATCAATACATTA
904067 TTCA-ATGTATCAATACATT
1 TTCAGATGTATCAATACATT
904086 TTGGAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCAATACATTA
Found at i:908694 original size:20 final size:20
Alignment explanation
Indices: 908671--908735 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
908661 CAAAGATCAC
908671 TGTATCGATACATTGAGTAA
1 TGTATCGATACATTGAGTAA
908691 TGTATCGATAC-------AA
1 TGTATCGATACATTGAGTAA
908704 TGTATCGATACATTGAGTAA
1 TGTATCGATACATTGAGTAA
*
908724 TGTATTGATACA
1 TGTATCGATACA
908736 ATGTATCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 13 0.35
20 24 0.65
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTGAGTAA
Found at i:908707 original size:13 final size:13
Alignment explanation
Indices: 908689--908715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
908679 TACATTGAGT
908689 AATGTATCGATAC
1 AATGTATCGATAC
908702 AATGTATCGATAC
1 AATGTATCGATAC
908715 A
1 A
908716 TTGAGTAATG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:908713 original size:33 final size:33
Alignment explanation
Indices: 908671--908750 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
908661 CAAAGATCAC
908671 TGTATCGATACATTGAGTAATGTATCGATACAA
1 TGTATCGATACATTGAGTAATGTATCGATACAA
*
908704 TGTATCGATACATTGAGTAATGTATTGATACAA
1 TGTATCGATACATTGAGTAATGTATCGATACAA
*
908737 TGTATCCATACATT
1 TGTATCGATACATT
908751 TCCTTGGTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATTGAGTAATGTATCGATACAA
Found at i:913330 original size:128 final size:128
Alignment explanation
Indices: 913176--913431 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
913166 CAATTGAGTA
913176 TGTATTGATACAATGAACATGCATCGATATAATGTATTGATACAAAGCATAATGTATCGATACAT
1 TGTATTGATACAATGAACATGCATCGATATAATGTATTGATACAAAGCATAATGTATCGATACAT
*
913241 CTGGATGTGTATCGATACTTTTTAGGGTTTTGACCATTATAGCCTAAGTCAACCTAAATGTAT
66 CTGGATATGTATCGATACTTTTTAGGGTTTTGACCATTATAGCCTAAGTCAACCTAAATGTAT
913304 TGTATTGATACAATGAACATGCATCGATATAATGTATTGATACAAAGCATAATGTATCGATACAT
1 TGTATTGATACAATGAACATGCATCGATATAATGTATTGATACAAAGCATAATGTATCGATACAT
* *
913369 CTGGATATGTATCGATACTTTTTAGGGTTTTGGCCGTTATAGCCTAAGTCAACCTAAATGTAT
66 CTGGATATGTATCGATACTTTTTAGGGTTTTGACCATTATAGCCTAAGTCAACCTAAATGTAT
913432 CGATACAAAT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (128 bp):
TGTATTGATACAATGAACATGCATCGATATAATGTATTGATACAAAGCATAATGTATCGATACAT
CTGGATATGTATCGATACTTTTTAGGGTTTTGACCATTATAGCCTAAGTCAACCTAAATGTAT
Found at i:913907 original size:28 final size:31
Alignment explanation
Indices: 913859--913923 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
913849 AGTTGAATTG
* *
913859 TTTCTTTCTTCATTGCAACAGC-TGTTTC-A
1 TTTCTTTCTTCATCGCAACAGCTTGTTACTA
*
913888 TTTCTTT-TTCATCGCTACAGCTTGTTACTA
1 TTTCTTTCTTCATCGCAACAGCTTGTTACTA
913918 TTTCTT
1 TTTCTT
913924 CTTATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.39
29 12 0.39
30 7 0.23
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.52
Consensus pattern (31 bp):
TTTCTTTCTTCATCGCAACAGCTTGTTACTA
Found at i:914289 original size:5 final size:5
Alignment explanation
Indices: 914279--914307 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
914269 ATTGCGCAGC
914279 ATGCA ATGCA ATGCA ATGCA ATGCA ATGC
1 ATGCA ATGCA ATGCA ATGCA ATGCA ATGC
914308 CACCTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (5 bp):
ATGCA
Found at i:914395 original size:22 final size:22
Alignment explanation
Indices: 914370--914426 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
914360 TTTAAAATTA
914370 TTATTATTTTATTATTATA-TTT
1 TTATT-TTTTATTATTATATTTT
* *
914392 TTATTTAATTATGATTATATTTT
1 TTATTT-TTTATTATTATATTTT
914415 TTATTTTTTATT
1 TTATTTTTTATT
914427 TTTTTAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.66
23 9 0.31
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TTATTTTTTATTATTATATTTT
Found at i:914403 original size:30 final size:30
Alignment explanation
Indices: 914369--914427 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
914359 TTTTAAAATT
* *
914369 ATTATTATTTTATTATTATA-TTTTTATTTA
1 ATTATGATTATATT-TTATATTTTTTATTTA
*
914399 ATTATGATTATATTTTTTATTTTTTATTT
1 ATTATGATTATATTTTATATTTTTTATTT
914428 TTTTAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (30 bp):
ATTATGATTATATTTTATATTTTTTATTTA
Found at i:914986 original size:42 final size:43
Alignment explanation
Indices: 914937--915424 Score: 304
Period size: 42 Copynumber: 11.6 Consensus size: 43
914927 AGTCTCATGA
*
914937 GTCAAAGCCGACAGGCAGAC-AAAGGGAAAAGAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * *
914979 GTCAAAGCCTACAAGCAGACTAAAGGTAAAA-AAGTCTCTC-GG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTC-CAGG
* ** * * *
915021 GTTAAAGCTAATAGGCATACTAAA-GG-AAAGAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAG-AAGTCTCCAGG
** * * * *
915063 GTCAAAGCAAATAGGCAAACTAAA-GGTAAGGAAGTC-CCTAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCC-AGG
* * ** * * *
915105 GTTAAAGCCGGCAGATAGACT-AAGGGTAAGGAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * * * * * *
915147 GTCAAAGTCGATAGGCAGACT-AAGGGTAAGGGACTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * * * *
915189 ATCCAAGCTGACAAGCAGACT-AAGGGTAAAA-AAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTAAAGGG-AAAAGAAGTCTCCAGG
* * * * *
915231 GTCAAAACTGACAGGCAGACTAAA-GGTAAGGAAGTCTCAAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * * ** *
915273 GTCAAAGTCGACAGGCAAACTAAA-AGTTAGGAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * * *
915315 GTCAAAGCCGATAGGTAGACTAAAGGTAAGA-AAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * * * * *
915357 GTCAAATCTGACAAGCAGACTAAAGGTAAAA-ATGTTTCCAGG
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
* * *
915399 GTCAAAACTGACAGGAAGACTAAAGG
1 GTCAAAGCCGACAGGCAGACTAAAGG
915425 TAAGAAAGTT
Statistics
Matches: 351, Mismatches: 82, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.01
41 8 0.02
42 322 0.92
43 18 0.05
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (43 bp):
GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAGG
Found at i:915028 original size:84 final size:84
Alignment explanation
Indices: 914937--915433 Score: 341
Period size: 84 Copynumber: 5.9 Consensus size: 84
914927 AGTCTCATGA
*
914937 GTCAAAGCCGACAGGCAGAC-AAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCTACAAGCAGACTA
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCTACAGGCAGACTA
*
915001 AAGGTAAAAAAGTCTCTCGG
66 AAGGTAAGAAAGTCTC-CGG
* ** * * ** * *
915021 GTTAAAGCTAATAGGCATACTAAA-GG-AAAGAAAGTCTCCAAGGTCAAAGCAAATAGGCAAACT
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAG-AAGTCTCCAAGGTCAAAGCCTACAGGCAGACT
*
915084 AAAGGTAAGGAAGTC-CCTAGG
65 AAAGGTAAGAAAGTCTCC--GG
* * ** * * * * * * *
915105 GTTAAAGCCGGCAGATAGACT-AAGGGTAAGGAAGTCTCTAGGGTCAAAGTCGATAGGCAGACTA
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCTACAGGCAGACTA
* ** * *
915169 AGGGTAAGGGACTCTCCAAG
66 AAGGTAAGAAAGTCTCC-GG
* * * * *
915189 ATCCAAGCTGACAAGCAGACT-AAGGGTAAAA-AAGTCTCCAAGGTCAAA-ACTGACAGGCAGAC
1 GTCAAAGCCGACAGGCAGACTAAAGGG-AAAAGAAGTCTCCAAGGTCAAAGCCT-ACAGGCAGAC
* *
915251 TAAAGGTAAGGAAGTCTCAAGG
64 TAAAGGTAAGAAAGTCTC-CGG
* * * ** * * * * *
915273 GTCAAAGTCGACAGGCAAACTAAA-AGTTAGGAAGTCTCCAGGGTCAAAGCCGATAGGTAGACTA
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCTACAGGCAGACTA
915337 AAGGTAAGAAAGTCTCCAGG
66 AAGGTAAGAAAGTCTCC-GG
* * * * * * * * *
915357 GTCAAATCTGACAAGCAGACTAAAGGTAAAA-ATGTTTCCAGGGTCAAA-ACTGACAGGAAGACT
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCT-ACAGGCAGACT
915420 AAAGGTAAGAAAGT
65 AAAGGTAAGAAAGT
915434 TAGAAGGGTT
Statistics
Matches: 314, Mismatches: 83, Indels: 32
0.73 0.19 0.07
Matches are distributed among these distances:
82 1 0.00
83 10 0.03
84 289 0.92
85 14 0.04
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (84 bp):
GTCAAAGCCGACAGGCAGACTAAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCTACAGGCAGACTA
AAGGTAAGAAAGTCTCCGG
Found at i:915067 original size:126 final size:126
Alignment explanation
Indices: 914937--915404 Score: 410
Period size: 126 Copynumber: 3.7 Consensus size: 126
914927 AGTCTCATGA
914937 GTCAAAGCCGACAGGCAGAC-AAAGGGAAAAGAAGTCTCCAAGGTCAAAGCCT-ACAAGCAGACT
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAA-AAGTCTCCAAGGTCAAA-CCTGACAAGCAGACT
* * * * * *
915000 AAAGGTAAAAAAGTCTCTCGGGTTAAAG-CTAATAGGCATACTAAAGGAAAGAAAGTCTCCAAG
64 AAAGGTAAAAAAGTCTCTAGGGTCAAAGTC-GATAGGCAAACTAAAGGTAAGGAAGTCTCCAAG
** * * * ** * * * *
915063 GTCAAAGCAAATAGGCAAACTAAAGGTAAGGAAGTC-CCTAGGGTTAAAGCC-GGC-AGATAGAC
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAAAGTCTCC-AAGGTCAAA-CCTGACAAG-CAGAC
* ** * * * *
915125 TAAGGGTAAGGAAGTCTCTAGGGTCAAAGTCGATAGGCAGACTAAGGGTAAGGGACTCTCCAAG
63 TAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGATAGGCAAACTAAAGGTAAGGAAGTCTCCAAG
* * * * * *
915189 ATCCAAGCTGACAAGCAGACT-AAGGGTAAAAAAGTCTCCAAGGTCAAAACTGACAGGCAGACTA
1 GTCAAAGCCGACAGGCAGACTAAAGGG-AAAAAAGTCTCCAAGGTCAAACCTGACAAGCAGACTA
** * * * * *
915253 AAGGTAAGGAAGTCTCAAGGGTCAAAGTCGACAGGCAAACTAAAAGTTAGGAAGTCTCCAGG
65 AAGGTAAAAAAGTCTCTAGGGTCAAAGTCGATAGGCAAACTAAAGGTAAGGAAGTCTCCAAG
* * * * * *
915315 GTCAAAGCCGATAGGTAGACTAAAGGTAAGAAAGTCTCCAGGGTCAAATCTGACAAGCAGACTAA
1 GTCAAAGCCGACAGGCAGACTAAAGGGAAAAAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAA
* * *
915380 AGGTAAAAATGTTTCCAGGGTCAAA
66 AGGTAAAAAAGTCTCTAGGGTCAAA
915405 ACTGACAGGA
Statistics
Matches: 267, Mismatches: 65, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
125 9 0.03
126 243 0.91
127 15 0.06
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (126 bp):
GTCAAAGCCGACAGGCAGACTAAAGGGAAAAAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAA
AGGTAAAAAAGTCTCTAGGGTCAAAGTCGATAGGCAAACTAAAGGTAAGGAAGTCTCCAAG
Found at i:915620 original size:101 final size:101
Alignment explanation
Indices: 915492--915674 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 101
915482 GTTGATGAAG
915492 GCAAAACCAATGAAGTCAATCAATTAAAAGGTTAGTCAAAGGGTTAGAAGGGTATGA-TCAAGGT
1 GCAAAACCAATGAAGTCAATCAATTAAAAGGTTAGTCAAAGGGTTAGAAGGGTATGACT-AAGGT
915556 GGTAACCACACGTCAAATCAGAATGAAAAGAGTCTGA
65 GGTAACCACACGTCAAATCAGAATGAAAAGAGTCTGA
* * * * * * * *
915593 GCAAAATCGATGAAGTCAATTAGTTAAAAGGTTAGTCAGAGTGTTAGAAGGGTTTGACTAGGGTG
1 GCAAAACCAATGAAGTCAATCAATTAAAAGGTTAGTCAAAGGGTTAGAAGGGTATGACTAAGGTG
* *
915658 GTAACCATATGTCAAAT
66 GTAACCACACGTCAAAT
915675 AGGAAAGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 70 0.99
102 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (101 bp):
GCAAAACCAATGAAGTCAATCAATTAAAAGGTTAGTCAAAGGGTTAGAAGGGTATGACTAAGGTG
GTAACCACACGTCAAATCAGAATGAAAAGAGTCTGA
Found at i:916014 original size:44 final size:44
Alignment explanation
Indices: 915783--916018 Score: 132
Period size: 44 Copynumber: 5.4 Consensus size: 44
915773 AATTGACTAA
* * * * * *
915783 GGTGATAACCAT--GTCAAACAGAAAGGAAGGGGATTTGACTAG
1 GGTGGTAACCATACGTCAAACAGAAAGAAAAGAGATCTGACCAG
* * * *
915825 GGTGGTAACCATATGTCAAATCA-AAATG--AGGCAAATCTGACTAG
1 GGTGGTAACCATACGTCAAA-CAGAAA-GAAAAG-AGATCTGACCAG
* * ** *
915869 GGTGGTAACCATATCCT-AGATTGAAATGAGAAA-AG-TTTGACCAG
1 GGTGGTAACCATA-CGTCAAACAGAAA-GA-AAAGAGATCTGACCAG
* * * * * *
915913 GGTGATAACCATATGTCAAACATAAAGGAAAGAGATTTGACCAA
1 GGTGGTAACCATACGTCAAACAGAAAGAAAAGAGATCTGACCAG
*
915957 GGTGGTAGCCATACGTCAAATCAGAATA-AAAAGA-ATCTGACCAG
1 GGTGGTAACCATACGTCAAA-CAGAA-AGAAAAGAGATCTGACCAG
916001 GGTGGTAACCATACGTCA
1 GGTGGTAACCATACGTCA
916019 GACTGAAATG
Statistics
Matches: 149, Mismatches: 30, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
42 14 0.09
43 7 0.05
44 112 0.75
45 14 0.09
46 1 0.01
47 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (44 bp):
GGTGGTAACCATACGTCAAACAGAAAGAAAAGAGATCTGACCAG
Found at i:916042 original size:44 final size:43
Alignment explanation
Indices: 915816--916043 Score: 164
Period size: 44 Copynumber: 5.2 Consensus size: 43
915806 AGGAAGGGGA
* * * *
915816 TTTGACTAGGGTGGTAACCATATGTCAAATCAAAATGAGGCAAA-
1 TTTGACCAGGGTGGTAACCATACGTCAAAT-GAAATGA-GAAAAG
* * * *
915860 TCTGACTAGGGTGGTAACCATATCCT-AGATTGAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATA-CGTCA-AATGAAATGAGAAAAG
* *
915904 TTTGACCAGGGTGATAACCATATGTCAAACAT-AAA-G-GAAAGAG
1 TTTGACCAGGGTGGTAACCATACGTC-AA-ATGAAATGAGAAA-AG
* * *
915947 ATTTGACCAAGGTGGTAGCCATACGTCAAATCAGAAT-A-AAAAG
1 -TTTGACCAGGGTGGTAACCATACGTCAAATGA-AATGAGAAAAG
* *
915990 AATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAGAAAAG
1 --TTTGACCAGGGTGGTAACCATACGTCA-AATGAAATGAGAAAAG
916036 TTTGACCA
1 TTTGACCA
916044 AGGTCTAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
42 6 0.04
43 13 0.09
44 113 0.77
45 9 0.06
46 5 0.03
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATGAAATGAGAAAAG
Found at i:916066 original size:132 final size:131
Alignment explanation
Indices: 915711--916047 Score: 405
Period size: 132 Copynumber: 2.6 Consensus size: 131
915701 AAAATCGTAT
* * * * * *
915711 GTCAAATCAGAATAAGAAGAATTTGACTAAGGTAGTAACCATATGTCAGACTGAAA-CA-AAAAA
1 GTCAAATCAGAATAAGAAGAATCTGACTAGGGTGGTAACCATACGTCAGACTGAAATGAGAAAAG
* * * * * *
915774 ATTGACTAAGGTGATAACCA-TGTCAAACAGAAAGGAAGGGGATTTGACTAGGGTGGTAACCATA
66 TTTGACCAAGGTGATAACCATTGTCAAACAGAAAGGAAAGAGATTTGACCAAGGTGGTAACCATA
*
915838 T
131 C
* * * * *
915839 GTCAAATCAAAATGAGGCA-AATCTGACTAGGGTGGTAACCATATCCT-AGATTGAAATGAGAAA
1 GTCAAATCAGAAT-AAGAAGAATCTGACTAGGGTGGTAACCATA-CGTCAGACTGAAATGAGAAA
* * *
915902 AGTTTGACCAGGGTGATAACCATATGTCAAACATAAAGGAAAGAGATTTGACCAAGGTGGTAGCC
64 AGTTTGACCAAGGTGATAACCAT-TGTCAAACAGAAAGGAAAGAGATTTGACCAAGGTGGTAACC
915967 ATAC
128 ATAC
* *
915971 GTCAAATCAGAATAAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAGAAAAG
1 GTCAAATCAGAATAAGAAGAATCTGACTAGGGTGGTAACCATACGTCAGACTGAAATGAGAAAAG
916036 TTTGACCAAGGT
66 TTTGACCAAGGT
916048 CTAATCCGAT
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
128 41 0.24
129 5 0.03
130 21 0.12
131 4 0.02
132 101 0.59
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (131 bp):
GTCAAATCAGAATAAGAAGAATCTGACTAGGGTGGTAACCATACGTCAGACTGAAATGAGAAAAG
TTTGACCAAGGTGATAACCATTGTCAAACAGAAAGGAAAGAGATTTGACCAAGGTGGTAACCATA
C
Found at i:917454 original size:16 final size:15
Alignment explanation
Indices: 917418--917470 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
917408 TTCATTCGAT
917418 TTTTTTCTTTCTTTTGC
1 TTTTTT-TTT-TTTTGC
* *
917435 -TTTTTTTGTTTTGT
1 TTTTTTTTTTTTTGC
917449 TTTTTTTTTTTTTGC
1 TTTTTTTTTTTTTGC
917464 TTTTTTT
1 TTTTTTT
917471 GGACTTTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 5 0.16
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTGC
Found at i:928961 original size:49 final size:46
Alignment explanation
Indices: 928848--929019 Score: 206
Period size: 43 Copynumber: 3.7 Consensus size: 46
928838 AAGCCCATTA
* *
928848 TAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTT--CTTTAAGTCCAATG
* * *
928896 TCGCTGGCCTTAAATCAGCATATTGGCACCTTCATATTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTC---TTTAAGTCCAATG
*
928945 TAGCTGACCTTGAATCAGCACATTGGCA-C--CTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCTTTAAGTCCAATG
* *
928988 TTGCTGGCCTTGAATCAGCACATTAGCACCTT
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTT
929020 TATCTTCGAG
Statistics
Matches: 108, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
43 38 0.35
44 1 0.01
46 2 0.02
48 31 0.29
49 36 0.33
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (46 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCTTCTTTAAGTCCAATG
Found at i:929737 original size:20 final size:20
Alignment explanation
Indices: 929693--929746 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
929683 ATTTCAACGA
929693 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* ***
929713 ATTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAGT
929733 TTTGTATCGATACA
1 TTTGTATCGATACA
929747 ATTCAAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:929878 original size:52 final size:52
Alignment explanation
Indices: 929822--929950 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
929812 CACTGATCTT
* * * *
929822 TGTATCGATACATGCAGGTAAATTTGCCTAGATGTATTGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
929874 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
929926 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
929951 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:943815 original size:11 final size:11
Alignment explanation
Indices: 943801--943837 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
943791 CGTCATCCAC
943801 AAAAAA-AAAA
1 AAAAAACAAAA
*
943811 CAAAAACAAAA
1 AAAAAACAAAA
943822 AAAAAACAAAA
1 AAAAAACAAAA
943833 AAAAA
1 AAAAA
943838 GGGTCCGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:943819 original size:17 final size:17
Alignment explanation
Indices: 943799--943837 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
943789 AGCGTCATCC
943799 ACAAAAAAAAAACAAAA
1 ACAAAAAAAAAACAAAA
943816 ACAAAAAAAAAACAAAA
1 ACAAAAAAAAAACAAAA
943833 A-AAAA
1 ACAAAA
943838 GGGTCCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAACAAAA
Found at i:945256 original size:29 final size:29
Alignment explanation
Indices: 945214--945509 Score: 195
Period size: 30 Copynumber: 9.7 Consensus size: 29
945204 ATTCCTCACC
*
945214 TTTCAAAAGTCCACAAGTCAGTGGCATCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
*
945244 TTTCAAAGCCCACAAGTCAGTGGCATTTTTT
1 TTTCAAAGCCCACAAGTCAGTGGCA--TCTT
*
945275 TTTCAAAAGCCCACAAGTCAGTGGCAAC--
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
* * *
945303 CTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTT
* *
945333 TTCCGAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT
* * * *
945362 TTCCAAAGTCCACAACTCCGTGGCACTCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTT
* * *
945392 TTTCTTTTGTAAGCTCACAACTCTA-TGGCACTCCTTTT
1 TTTC-----AAAGCCCACAAGTC-AGTGGCA-T-C--TT
** * * *
945430 CTTTTTAAGCCCACAAGTTAGTGGCACCCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCTT
* *
945460 TTTCAAAAGCCCACAAGTCAGTGGCAAC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
*
945489 TTTAAAAGCCCACAAGTCAGT
1 TTTCAAAGCCCACAAGTCAGT
945510 AGCAACCTTC
Statistics
Matches: 214, Mismatches: 33, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
27 20 0.09
28 21 0.10
29 50 0.23
30 53 0.25
31 7 0.03
32 22 0.10
33 1 0.00
34 16 0.07
35 18 0.08
36 1 0.00
38 2 0.01
39 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTT
Found at i:945289 original size:32 final size:30
Alignment explanation
Indices: 945214--945509 Score: 203
Period size: 29 Copynumber: 9.7 Consensus size: 30
945204 ATTCCTCACC
*
945214 TTTCAAAAGTCCACAAGTCAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
*
945244 TTTC-AAAGCCCACAAGTCAGTGGCATTTTTT
1 TTTCAAAAGCCCACAAGTCAGTGGCA--TCTT
*
945275 TTTCAAAAGCCCACAAGTCAGTGGCAAC--
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
* * * *
945303 CTTC-AAAGCCCACAAATCAGTGGCACCCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
**
945332 TTTCCGAAGCCCACAAGTCAGTGGCATC-T
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
* * * *
945361 TTTCCAAAGTCCACAACTCCGTGGCACTCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-TCTT
** * *
945392 TTTCTTTTGTAAGCTCACAACTCTA-TGGCACTCCTTT
1 TTTC----AAAAGCCCACAAGTC-AGTGGCA-T-C-TT
*** * * *
945429 TCTTTTTAAGCCCACAAGTTAGTGGCACCCT
1 T-TTCAAAAGCCCACAAGTCAGTGGCATCTT
* *
945460 TTTCAAAAGCCCACAAGTCAGTGGCAAC-C
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
945489 TTT-AAAAGCCCACAAGTCAGT
1 TTTCAAAAGCCCACAAGTCAGT
945510 AGCAACCTTC
Statistics
Matches: 216, Mismatches: 33, Indels: 36
0.76 0.12 0.13
Matches are distributed among these distances:
27 21 0.10
28 21 0.10
29 49 0.23
30 48 0.22
31 14 0.06
32 22 0.10
33 1 0.00
34 16 0.07
35 18 0.08
36 1 0.00
37 3 0.01
38 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (30 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCTT
Found at i:945445 original size:34 final size:35
Alignment explanation
Indices: 945371--945463 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
945361 TTTCCAAAGT
** *
945371 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTATGGCACTCCTTTTCTTTTGTAAGC
*
945406 TCACAACTCTATGGCACTCCTTTTCTTTT-TAAGC
1 CCACAACTCTATGGCACTCCTTTTCTTTTGTAAGC
*
945440 CCACAAGT-TAGTGGCAC-CCTTTTC
1 CCACAACTCTA-TGGCACTCCTTTTC
945464 AAAAGCCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
33 9 0.18
34 17 0.33
35 25 0.49
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (35 bp):
CCACAACTCTATGGCACTCCTTTTCTTTTGTAAGC
Found at i:945472 original size:30 final size:30
Alignment explanation
Indices: 945436--945559 Score: 134
Period size: 28 Copynumber: 4.3 Consensus size: 30
945426 TTTTCTTTTT
* *
945436 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAA
945466 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAA
*
945494 AAGCCCACAAGTCAGTAGCAACC--TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAA
* * * *
945522 AAGCACACAAGT-TGAT-GCAAACTTGTCAA
1 AAGCCCACAAGTCAG-TGGCAACCTTTTCAA
945551 AAGCCCACA
1 AAGCCCACA
945560 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
27 8 0.10
28 38 0.46
29 15 0.18
30 21 0.26
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTCAA
Found at i:945705 original size:49 final size:46
Alignment explanation
Indices: 945579--945763 Score: 189
Period size: 48 Copynumber: 4.0 Consensus size: 46
945569 GGCGTCTCCT
* * *
945579 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTT--C
* * *
945627 TTTAAGTCCAATATTGCT-AGCCTTAAATCAGCATATTGGCACCTTC
1 TTTAAGTCCAATATAGCTGA-CCTTGAATCAGCACATTGGCACCTTC
*
945673 ATATTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-C--C
1 ---TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTTC
* * * *
945719 TTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTT
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTT
945764 TATCTTCGAG
Statistics
Matches: 118, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
43 38 0.32
44 1 0.01
46 2 0.02
48 41 0.35
49 35 0.30
50 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (46 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTTC
Found at i:945743 original size:43 final size:43
Alignment explanation
Indices: 945676--945765 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
945666 CACCTTCATA
945676 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
* * *
945719 TTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
945762 TTTA
1 TTTA
945766 TCTTCGAGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:946457 original size:13 final size:13
Alignment explanation
Indices: 946439--946463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
946429 TTCAATGATT
946439 TGTATCGATACAA
1 TGTATCGATACAA
946452 TGTATCGATACA
1 TGTATCGATACA
946464 TATTTTTTTG
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:946678 original size:52 final size:51
Alignment explanation
Indices: 946593--946720 Score: 193
Period size: 52 Copynumber: 2.5 Consensus size: 51
946583 TCGATACTAT
* * *
946593 TGTATCGATACATGTAGGCAAATTTACCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAA-TTACCCAGATGTATCGATACACTATAAAA
**
946645 TGTATCGATACATGCAGGCAAATTAGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTA-CCCAGATGTATCGATACACTATAAAA
946697 TGTATCGATACATGCAGGCAAATT
1 TGTATCGATACATGCAGGCAAATT
946721 TTCATATTTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 3 0.04
52 67 0.96
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTACCCAGATGTATCGATACACTATAAAA
Found at i:947269 original size:140 final size:140
Alignment explanation
Indices: 947017--947297 Score: 544
Period size: 140 Copynumber: 2.0 Consensus size: 140
947007 GGTGAGAGTG
947017 AAATGCCAAAACCACCCTCACTTGGCCACCACAAATCTTGCCTATAAAAGGTGGGATTTGTTCTC
1 AAATGCCAAAACCACCCTCACTTGGCCACCACAAATCTTGCCTATAAAAGGTGGGATTTGTTCTC
*
947082 AGCAAAGGAATTTTGGCTGAACATCTTCCAGCTCCCTAAAAACACTTCTCCATTTCAGAAAACCT
66 AGCAAAGGAATTTTGGCTGAACATCTTCCAGCTCCCTAAAAACACTTCTCCATTTCAGAAAACCC
947147 AAAATCCCGT
131 AAAATCCCGT
947157 AAATGCCAAAACCACCCTCACTTGGCCACCACAAATCTTGCCTATAAAAGGTGGGATTTGTTCTC
1 AAATGCCAAAACCACCCTCACTTGGCCACCACAAATCTTGCCTATAAAAGGTGGGATTTGTTCTC
*
947222 AGCAAAGGAATTTTGGCTGAACATTTTCCAGCTCCCTAAAAACACTTCTCCATTTCAGAAAACCC
66 AGCAAAGGAATTTTGGCTGAACATCTTCCAGCTCCCTAAAAACACTTCTCCATTTCAGAAAACCC
947287 AAAATCCCGT
131 AAAATCCCGT
947297 A
1 A
947298 GCTCCTCCTT
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (140 bp):
AAATGCCAAAACCACCCTCACTTGGCCACCACAAATCTTGCCTATAAAAGGTGGGATTTGTTCTC
AGCAAAGGAATTTTGGCTGAACATCTTCCAGCTCCCTAAAAACACTTCTCCATTTCAGAAAACCC
AAAATCCCGT
Found at i:951468 original size:15 final size:15
Alignment explanation
Indices: 951450--951499 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
951440 CTACTGGTGA
951450 TGCTGCTGATGGCGT
1 TGCTGCTGATGGCGT
** *
951465 TGCTAAT-ACTGGTGT
1 TGCTGCTGA-TGGCGT
951480 TGCTGCTGATGGCGT
1 TGCTGCTGATGGCGT
951495 TGCTG
1 TGCTG
951500 TTTGGTTGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.10, C:0.18, G:0.36, T:0.36
Consensus pattern (15 bp):
TGCTGCTGATGGCGT
Found at i:951477 original size:30 final size:30
Alignment explanation
Indices: 951441--951498 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
951431 TTGTTGTTGC
951441 TACTGGTGATGCTGCTGATGGCGTTGCTAA
1 TACTGGTGATGCTGCTGATGGCGTTGCTAA
*
951471 TACTGGTGTTGCTGCTGATGGCGTTGCT
1 TACTGGTGATGCTGCTGATGGCGTTGCT
951499 GTTTGGTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.17, G:0.34, T:0.36
Consensus pattern (30 bp):
TACTGGTGATGCTGCTGATGGCGTTGCTAA
Found at i:952003 original size:29 final size:30
Alignment explanation
Indices: 951971--952035 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 30
951961 CAGCTGAATT
951971 ATTTCTTTCTTCATTGC-AGCAGC-TGTT-TC
1 ATTTCTTT-TTCATTGCTA-CAGCTTGTTGTC
952000 ATTT-TTTTTCATTGCTACAGCTTGTTGTC
1 ATTTCTTTTTCATTGCTACAGCTTGTTGTC
952029 ATTTCTT
1 ATTTCTT
952036 CTTGTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 12 0.38
28 8 0.25
29 10 0.31
30 2 0.06
ACGTcount: A:0.14, C:0.20, G:0.12, T:0.54
Consensus pattern (30 bp):
ATTTCTTTTTCATTGCTACAGCTTGTTGTC
Found at i:952020 original size:27 final size:26
Alignment explanation
Indices: 951927--952032 Score: 74
Period size: 29 Copynumber: 3.9 Consensus size: 26
951917 GTTTCTTCTC
* *
951927 TTCATTG--CAGCTATTTCATTATTT
1 TTCATTGCACAGCTGTTTCATTTTTT
* * *
951951 TTAATTACAACAGCTGAATT-ATTTCTTT
1 TTCATTGC-ACAGCTG-TTTCATTT-TTT
951979 CTTCATTGCAGCAGCTGTTTCATTTTTT
1 -TTCATTGCA-CAGCTGTTTCATTTTTT
952007 TTCATTGCTACAGCTTGTTGTCATTT
1 TTCATTGC-ACAGC-TGTT-TCATTT
952033 CTTCTTGTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
24 5 0.08
27 20 0.32
28 16 0.25
29 22 0.35
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.50
Consensus pattern (26 bp):
TTCATTGCACAGCTGTTTCATTTTTT
Found at i:952532 original size:19 final size:20
Alignment explanation
Indices: 952494--952539 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
952484 AATTAATTTA
952494 TTATTATTAGTATTAGTATT
1 TTATTATTAGTATTAGTATT
952514 TTATTATTA-TATTTA-TATT
1 TTATTATTAGTA-TTAGTATT
*
952533 TAATTAT
1 TTATTAT
952540 GATTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATTATTAGTATTAGTATT
Found at i:952561 original size:22 final size:21
Alignment explanation
Indices: 952512--952561 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
952502 AGTATTAGTA
*
952512 TTTTATTATTATATTTATATT
1 TTTTATGATTATATTTATATT
* *
952533 TAATTATGATTATATTTTTTATT
1 T-TTTATGATTATA-TTTATATT
952556 TTTTAT
1 TTTTAT
952562 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATGATTATATTTATATT
Found at i:954140 original size:17 final size:18
Alignment explanation
Indices: 954118--954151 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
954108 AGATATTGCC
954118 TTAATTTT-TTAAAAATT
1 TTAATTTTATTAAAAATT
954135 TTAATTTTATTAAAAAT
1 TTAATTTTATTAAAAAT
954152 ATTGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTTTATTAAAAATT
Found at i:955109 original size:166 final size:166
Alignment explanation
Indices: 954833--955581 Score: 918
Period size: 166 Copynumber: 4.5 Consensus size: 166
954823 TGGCCCCTAT
* * * *
954833 ATAATTAAAACGCAAAATTAAGCATCAAATATATCAAAACTAACACAAAAATCATATCCGAAAGT
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
* * *
954898 CACAAGAAAGATT-TGTCCAATCACCTTTGGCCTT-AGAACAAAAATTTTCAATATTTATATATA
66 CACAAGAAAGATTCAG-CCAATCACCTTTGGCCTTGA-AACAAAAATTTTCAATATTTACAAATA
* * *
954961 AACCCCTAAACTTTCTAGATTTACCAATTGGTTCTTAC
129 AACCCCTAAACTTTCTAGAATTACAAATTAGTTCTTAC
* * * *
954999 ATAATTAAATCACAAAATTAAGCATCAAACATATCAAAACCAACATAAAAATCAAATCCAAAGGT
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
* * * *
955064 CACAAGAAAGATTCAACCAATCACCTTTGGTCTTGAAATAAAAATTTTTAATATTTACAAATAAA
66 CACAAGAAAGATTCAGCCAATCACCTTTGGCCTTGAAACAAAAATTTTCAATATTTACAAATAAA
* * * * *
955129 TCTCTAAACTTTTTAAAATTATAAATTAG-TCTTTAC
131 CCCCTAAACTTTCTAGAATTACAAATTAGTTC-TTAC
* * * *
955165 TTAATTAAAACACAAAATTAAGCATCAAATATATCAAAACTAACACAAAACTCACATCCAAAAGT
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
* * * * * *
955230 AACAAGAAAGATTCAGCTAATCACTTTTGGCCTTGGAACAAAATTTTTCAATATTTATAAATAAA
66 CACAAGAAAGATTCAGCCAATCACCTTTGGCCTTGAAACAAAAATTTTCAATATTTACAAATAAA
* * * *
955295 CCCCTAAACTTTCTAGATTTCCCAATTGGTTCTTAC
131 CCCCTAAACTTTCTAGAATTACAAATTAGTTCTTAC
** * *
955331 ATAATTAAATTATAAAATTAAGCATCAAATATATCAAAACCAACATAAAAATCAAATCCAAAAGT
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
* * * **
955396 CACAAAAAAGATTCAGCCAATCACCTTTGGCTTTGGAAC--AAATTTTTTATATTTACAAATAAA
66 CACAAGAAAGATTCAGCCAATCACCTTTGGCCTTGAAACAAAAATTTTCAATATTTACAAATAAA
* * *
955459 CCCTTAAAC-TTCTA-AATTAGCAAATTAATCCTTAC
131 CCCCTAAACTTTCTAGAATTA-CAAATTAGTTCTTAC
* * *
955494 ATAATTAAAACACAAAATTAAGCATTAAATATATCAAAACCAATACAAAAATCACATCCAAAAGT
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
* * *
955559 TACGAGAAAGATTCATCCAATCA
66 CACAAGAAAGATTCAGCCAATCA
955582 TAATAAACCT
Statistics
Matches: 493, Mismatches: 85, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
162 3 0.01
163 93 0.19
164 28 0.06
165 2 0.00
166 364 0.74
167 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (166 bp):
ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAACCAACACAAAAATCAAATCCAAAAGT
CACAAGAAAGATTCAGCCAATCACCTTTGGCCTTGAAACAAAAATTTTCAATATTTACAAATAAA
CCCCTAAACTTTCTAGAATTACAAATTAGTTCTTAC
Found at i:957541 original size:48 final size:47
Alignment explanation
Indices: 957480--957586 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 47
957470 TGTCACATTA
* * *
957480 TATTTT-TTCTTTTCTTTTCTTTTTTATCA-TTATTTTATCCCTTTTCTT
1 TATTTTATT-TTTTCTTTTCTTCTTCAT-ATTTATTTTATCCATTTT-TT
*
957528 TATTTTATTTTTTCTTTTCTTCTTCATATTTATTTTATCTATTTTTT
1 TATTTTATTTTTTCTTTTCTTCTTCATATTTATTTTATCCATTTTTT
957575 TATTTTATTTTT
1 TATTTTATTTTT
957587 CCAACTCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 15 0.28
48 36 0.68
49 2 0.04
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (47 bp):
TATTTTATTTTTTCTTTTCTTCTTCATATTTATTTTATCCATTTTTT
Found at i:962828 original size:14 final size:15
Alignment explanation
Indices: 962809--962841 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
962799 ACATTATTAT
962809 CGAAAGTGCTTGTG-
1 CGAAAGTGCTTGTGA
*
962823 CGAAAGTTCTTGTGA
1 CGAAAGTGCTTGTGA
962838 CGAA
1 CGAA
962842 GTTCCTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (15 bp):
CGAAAGTGCTTGTGA
Found at i:966898 original size:130 final size:130
Alignment explanation
Indices: 966664--966908 Score: 348
Period size: 130 Copynumber: 1.9 Consensus size: 130
966654 AATTATTTCT
* * *
966664 AAAAAAAATCATTTCATACCTTAATGGATATCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTA
1 AAAAAAAATCATTTCATACCTTAATGGATACCCAAAAAGATACAAAAAGCTTTTGAAATCTTTTA
* *** *
966729 TACCTCTATGGATACCCATAGGAATATAAAAAATAAAAAAATGATTAATACTTATTTATTTTTGG
66 TACCCCTACAAATACCCATAGGAATATAAAAAATAAAAAAACGATTAATACTTATTTATTTTTGG
* * *
966794 AAAAAGAATCATTTCGTACCTTAATGGA-AGCCCAAAAAGATACGAAAAGCTTTTGAAATCTTTT
1 AAAAAAAATCATTTCATACCTTAATGGATA-CCCAAAAAGATACAAAAAGCTTTTGAAATCTTTT
* * *
966858 ATACCCCTACAAATACCCATGGGAATATAAAAGATCAAAAAACGATTAATA
65 ATACCCCTACAAATACCCATAGGAATATAAAAAATAAAAAAACGATTAATA
966909 TTTGTTTGCA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 1 0.01
130 99 0.99
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.29
Consensus pattern (130 bp):
AAAAAAAATCATTTCATACCTTAATGGATACCCAAAAAGATACAAAAAGCTTTTGAAATCTTTTA
TACCCCTACAAATACCCATAGGAATATAAAAAATAAAAAAACGATTAATACTTATTTATTTTTGG
Found at i:967866 original size:12 final size:12
Alignment explanation
Indices: 967851--967889 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
967841 TTTCTACCTA
967851 TTTTCTCTATTT
1 TTTTCTCTATTT
967863 TTTTCTCTATTT
1 TTTTCTCTATTT
*
967875 TTTTCCTCTCTTT
1 TTTT-CTCTATTT
967888 TT
1 TT
967890 CAGCTGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTCTATTT
Found at i:967876 original size:13 final size:13
Alignment explanation
Indices: 967851--967889 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
967841 TTTCTACCTA
967851 TTTTCTCTA-TTT
1 TTTTCTCTATTTT
967863 TTTTCTCTATTTT
1 TTTTCTCTATTTT
* *
967876 TTTCCTCTCTTTT
1 TTTTCTCTATTTT
967889 T
1 T
967890 CAGCTGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTCTATTTT
Found at i:968423 original size:20 final size:19
Alignment explanation
Indices: 968380--968423 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
968370 AACATATATA
968380 CAAAAAAATTTGAAATTTT
1 CAAAAAAATTTGAAATTTT
*
968399 AAAAAATAATTT-AAATTTCT
1 CAAAAA-AATTTGAAATTT-T
968419 CAAAA
1 CAAAA
968424 CTGAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (19 bp):
CAAAAAAATTTGAAATTTT
Found at i:968666 original size:167 final size:167
Alignment explanation
Indices: 968482--968975 Score: 504
Period size: 167 Copynumber: 3.0 Consensus size: 167
968472 TAGACCAAAG
*
968482 AAAATCCCCTCGAAAAAAATTAAAAAATAGAAAATGA-CGTGTTTTAGA-AAAAAGGAAATTTCA
1 AAAATCCCCTCGAAAAAAATTAAAAAATAGAAAAT-ACCGT-ATTTAGATAAAAAGGAAATTTCA
* *
968545 AGGAAAAAAGTCAAAAACTCAT-AGAAATGAATTAATTTTTGAAAACTGAATTAATATGAAATAA
64 AGGAAAAAAATCAAAAACTCATGA-AAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAA
**
968609 ATAATGATTTTTGATGAATTTTAAAAATTGAAAACTGAGA
128 ATAATGAGGTTTGATGAATTTTAAAAATTGAAAACTGAGA
* * ** * * * *
968649 AAAATCCCTTCGAAAAAATTTACGAAATAGAAAATACCGTATTTCGATGAAATGGAAATTTTAAG
1 AAAATCCCCTCGAAAAAAATTAAAAAATAGAAAATACCGTATTTAGATAAAAAGGAAATTTCAAG
* *
968714 GAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAATTGAATTAATATGAAATAAATA
66 GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
968779 ATGAGGTTTGATGAA--TT-----TT---AAC----A
131 ATGAGGTTTGATGAATTTTAAAAATTGAAAACTGAGA
* * ** ** * * * * * *
968802 AAAGTCCCCTTC-AAAAAATTTACGATGTAGGAAACATCATATTTCGAAAAAAAGGCAAATTTCA
1 AAAATCCCC-TCGAAAAAAATTAAAAAATAGAAAATACCGTATTTAGATAAAAAGG-AAATTTCA
* * *
968866 A-GAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTAAAAAGTGAATTAATATGAAATAAA
64 AGGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
* * * *
968930 TAATGATGTTTGATGAATTTTAAAAATTAAAAATTAAGA
129 TAATGAGGTTTGATGAATTTTAAAAATTGAAAACTGAGA
968969 AAAATCC
1 AAAATCC
968976 TTCCGAAACA
Statistics
Matches: 276, Mismatches: 32, Indels: 38
0.80 0.09 0.11
Matches are distributed among these distances:
153 119 0.43
154 10 0.04
155 2 0.01
157 3 0.01
160 4 0.01
163 2 0.01
165 2 0.01
166 6 0.02
167 127 0.46
168 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (167 bp):
AAAATCCCCTCGAAAAAAATTAAAAAATAGAAAATACCGTATTTAGATAAAAAGGAAATTTCAAG
GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
ATGAGGTTTGATGAATTTTAAAAATTGAAAACTGAGA
Found at i:968972 original size:153 final size:153
Alignment explanation
Indices: 968529--968973 Score: 466
Period size: 153 Copynumber: 2.8 Consensus size: 153
968519 CGTGTTTTAG
* * *
968529 AAAAAAGGAAATTTCAAGGAAAAAAGTCAAAAACTCAT-AGAAATGAATTAATTTTTGAAAACTG
1 AAAAAAGGAAATTTCAAGGAAAAAAATCAAAAGCTCATGA-AAATGAATGAATTTTTGAAAACTG
*
968593 AATTAATATGAAATAAATAATGATTTTTGATGAATTTTAAAAATTGAAAACTGAGAAAAATCCCT
65 AATTAATATGAAATAAATAATGATGTTTGATGAATTTTAAAAA-T------T---AAAAAT---T
** * *
968658 TCGAAAAAATTTACGAAATAGAAAATACCGTATTTCGA
117 AAG-AAAAATTTACGAAATAGAAAACACCATATTTCGA
** * * *
968696 TGAAATGGAAATTTTAAGGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAATTGA
1 AAAAAAGGAAATTTCAAGGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTGA
* * **** *
968761 ATTAATATGAAATAAATAATGAGGTTTGATGAATTTTAACAAAAGT-CCCCTTCA-AAAAATTTA
66 ATTAATATGAAATAAATAATGATGTTTGATGAATTTT-A-AAAATTAAAAATTAAGAAAAATTTA
** * *
968824 CGATGTAGGAAACATCATATTTCGA
129 CGAAATAGAAAACACCATATTTCGA
* *
968849 AAAAAAGGCAAATTTCAA-GAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTAAAAAGTG
1 AAAAAAGG-AAATTTCAAGGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTG
968913 AATTAATATGAAATAAATAATGATGTTTGATGAATTTTAAAAATTAAAAATTAAGAAAAAT
65 AATTAATATGAAATAAATAATGATGTTTGATGAATTTTAAAAATTAAAAATTAAGAAAAAT
968974 CCTTCCGAAA
Statistics
Matches: 236, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
151 5 0.02
152 4 0.02
153 120 0.51
154 8 0.03
155 1 0.00
158 1 0.00
162 1 0.00
167 90 0.38
168 2 0.01
169 4 0.02
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (153 bp):
AAAAAAGGAAATTTCAAGGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTGA
ATTAATATGAAATAAATAATGATGTTTGATGAATTTTAAAAATTAAAAATTAAGAAAAATTTACG
AAATAGAAAACACCATATTTCGA
Found at i:970767 original size:48 final size:48
Alignment explanation
Indices: 970696--970791 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
970686 CTCCTAGAAT
* * **
970696 AACCTTTGGTACAACACCTAGAACATTATTTGGCATGACTCTTGGAAC
1 AACCTTTAGCACAACACCTAGAACAACATTTGGCATGACTCTTGGAAC
* * *
970744 AACCTTTAGCACAACTCTTAGAACAACCTTTGGCATGACTCTTGGAAC
1 AACCTTTAGCACAACACCTAGAACAACATTTGGCATGACTCTTGGAAC
970792 CATCTTTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (48 bp):
AACCTTTAGCACAACACCTAGAACAACATTTGGCATGACTCTTGGAAC
Found at i:970799 original size:24 final size:24
Alignment explanation
Indices: 970724--970791 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
970714 TAGAACATTA
970724 TTTGGCATGACTCTTGGAACAACC
1 TTTGGCATGACTCTTGGAACAACC
* ** *
970748 TTTAGCACAACTCTTAGAACAACC
1 TTTGGCATGACTCTTGGAACAACC
970772 TTTGGCATGACTCTTGGAAC
1 TTTGGCATGACTCTTGGAAC
970792 CATCTTTGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (24 bp):
TTTGGCATGACTCTTGGAACAACC
Found at i:971078 original size:21 final size:21
Alignment explanation
Indices: 971038--971078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
971028 TTAAGTATAA
*
971038 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
971059 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
971079 AATCCAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:971302 original size:13 final size:13
Alignment explanation
Indices: 971284--971320 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
971274 AGCTAAAACG
*
971284 TACATTGTATTAA
1 TACATTGTATCAA
971297 TACATTGTATCAA
1 TACATTGTATCAA
*
971310 TACATTATATC
1 TACATTGTATC
971321 GGTACATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:973303 original size:13 final size:13
Alignment explanation
Indices: 973285--973311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
973275 ACATATTGGT
973285 TTGTATTGATACA
1 TTGTATTGATACA
973298 TTGTATTGATACA
1 TTGTATTGATACA
973311 T
1 T
973312 GTTCTTGGTA
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:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:973303 original size:33 final size:32
Alignment explanation
Indices: 973266--973329 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
973256 CACACCCAGA
* *
973266 TGTATCGATACATATTGGTTTGTATTGATACAT
1 TGTATCGATACATATT-CTTGGTATTGATACAT
* *
973299 TGTATTGATACATGTTCTTGGTATTGATACA
1 TGTATCGATACATATTCTTGGTATTGATACA
973330 CAGTAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (32 bp):
TGTATCGATACATATTCTTGGTATTGATACAT
Found at i:974399 original size:13 final size:13
Alignment explanation
Indices: 974381--974407 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
974371 ATATTATGCT
974381 TTGTATCGATACA
1 TTGTATCGATACA
974394 TTGTATCGATACA
1 TTGTATCGATACA
974407 T
1 T
974408 GTTCACTGTA
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:974439 original size:20 final size:19
Alignment explanation
Indices: 974391--974445 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
974381 TTGTATCGAT
*
974391 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
974410 TCACTGTATCGATACATGC
1 ACATTGTATCGATACATGC
974429 ACAATTGTATCGATACA
1 AC-ATTGTATCGATACA
974446 CGAAACTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:976180 original size:3 final size:3
Alignment explanation
Indices: 976172--976212 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
976162 AACCATCAAA
* * *
976172 GAT GAT GAT GAA GAT GAT GAT GAT GAT AAC GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
976213 AGTTGAGTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:976192 original size:15 final size:15
Alignment explanation
Indices: 976172--976214 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
976162 AACCATCAAA
*
976172 GATGATGATGAAGAT
1 GATGATGATGAAGAC
976187 GATGATGATGATA-AC
1 GATGATGATGA-AGAC
976202 GATGATGATGAAG
1 GATGATGATGAAG
976215 TTGAGTCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.26
Consensus pattern (15 bp):
GATGATGATGAAGAC
Found at i:979831 original size:467 final size:467
Alignment explanation
Indices: 978958--979881 Score: 1794
Period size: 467 Copynumber: 2.0 Consensus size: 467
978948 TGGGTGTTTA
*
978958 GAAATAAATTGGATGAAGATGGAACTATTGTTAGGAACAAAGCTAGGCAAGTAGCGAAAGGTTAT
1 GAAATAAATTGGATGAAAATGGAACTATTGTTAGGAACAAAGCTAGGCAAGTAGCGAAAGGTTAT
979023 AGTCAAGAGGAAGGAATTGACTATGACGAAACCTATGCACTCGTAGCTAGGTTAGAAGCTATTAG
66 AGTCAAGAGGAAGGAATTGACTATGACGAAACCTATGCACTCGTAGCTAGGTTAGAAGCTATTAG
979088 AATATTGCTAGCCTTTGCATGTTTTTATGATTTCAAGTTATATCAAATGGATGTCGAAAGTGTGT
131 AATATTGCTAGCCTTTGCATGTTTTTATGATTTCAAGTTATATCAAATGGATGTCGAAAGTGTGT
979153 TTTTAAATAGTTTTATAAACGAAGAGGTTTATGTAAAACAACCTCCCAGTTTTGAAAATCTTCTA
196 TTTTAAATAGTTTTATAAACGAAGAGGTTTATGTAAAACAACCTCCCAGTTTTGAAAATCTTCTA
979218 TTTCTAAATCATGTTTTAAAATTTCAAAAGCCTTGTAGGGTTTAAAACAAGCTCCTCGAGCTTGG
261 TTTCTAAATCATGTTTTAAAATTTCAAAAGCCTTGTAGGGTTTAAAACAAGCTCCTCGAGCTTGG
979283 TATGAAAGGCTCTCAAAATTTTTGATTGAAAAAGATTTAATAGAGGAAATGTTGATAAAACTATT
326 TATGAAAGGCTCTCAAAATTTTTGATTGAAAAAGATTTAATAGAGGAAATGTTGATAAAACTATT
979348 TTTATTAAATCAAAAGGGAAAGATATTATGATGGTACAAGTATATGTCGATGATATTATTTTTGG
391 TTTATTAAATCAAAAGGGAAAGATATTATGATGGTACAAGTATATGTCGATGATATTATTTTTGG
979413 TGAAATAAATTG
456 TGAAATAAATTG
979425 GAAATAAATTGGATGAAAATGGAACTATTGTTAGGAACAAAGCTAGGCAAGTAGCGAAAGGTTAT
1 GAAATAAATTGGATGAAAATGGAACTATTGTTAGGAACAAAGCTAGGCAAGTAGCGAAAGGTTAT
*
979490 AGTCAAGAGGAAGGAATTGACTATGACGAAACCTATGCACTCGTAGCTAGGTTAGATGCTATTAG
66 AGTCAAGAGGAAGGAATTGACTATGACGAAACCTATGCACTCGTAGCTAGGTTAGAAGCTATTAG
979555 AATATTGCTAGCCTTTGCATGTTTTTATGATTTCAAGTTATATCAAATGGATGTCGAAAGTGTGT
131 AATATTGCTAGCCTTTGCATGTTTTTATGATTTCAAGTTATATCAAATGGATGTCGAAAGTGTGT
* *
979620 TTTTAAATAGTTTTATAAGCGAAGAGGTTTATGTAGAACAACCTCCCAGTTTTGAAAATCTTCTA
196 TTTTAAATAGTTTTATAAACGAAGAGGTTTATGTAAAACAACCTCCCAGTTTTGAAAATCTTCTA
*
979685 TTTCTAAATCATGTTTTAAACTTTCAAAAGCCTTGTAGGGTTTAAAACAAGCTCCTCGAGCTTGG
261 TTTCTAAATCATGTTTTAAAATTTCAAAAGCCTTGTAGGGTTTAAAACAAGCTCCTCGAGCTTGG
979750 TATGAAAGGCTCTCAAAATTTTTGATTGAAAAAGATTTAATAGAGGAAATGTTGATAAAACTATT
326 TATGAAAGGCTCTCAAAATTTTTGATTGAAAAAGATTTAATAGAGGAAATGTTGATAAAACTATT
*
979815 TTTATTAAATCAAAAGGGAAAGATATTGTGATGGTACAAGTATATGTCGATGATATTATTTTTGG
391 TTTATTAAATCAAAAGGGAAAGATATTATGATGGTACAAGTATATGTCGATGATATTATTTTTGG
979880 TG
456 TG
979882 CTACTAACGA
Statistics
Matches: 451, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
467 451 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (467 bp):
GAAATAAATTGGATGAAAATGGAACTATTGTTAGGAACAAAGCTAGGCAAGTAGCGAAAGGTTAT
AGTCAAGAGGAAGGAATTGACTATGACGAAACCTATGCACTCGTAGCTAGGTTAGAAGCTATTAG
AATATTGCTAGCCTTTGCATGTTTTTATGATTTCAAGTTATATCAAATGGATGTCGAAAGTGTGT
TTTTAAATAGTTTTATAAACGAAGAGGTTTATGTAAAACAACCTCCCAGTTTTGAAAATCTTCTA
TTTCTAAATCATGTTTTAAAATTTCAAAAGCCTTGTAGGGTTTAAAACAAGCTCCTCGAGCTTGG
TATGAAAGGCTCTCAAAATTTTTGATTGAAAAAGATTTAATAGAGGAAATGTTGATAAAACTATT
TTTATTAAATCAAAAGGGAAAGATATTATGATGGTACAAGTATATGTCGATGATATTATTTTTGG
TGAAATAAATTG
Found at i:980740 original size:13 final size:13
Alignment explanation
Indices: 980722--980746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
980712 CATTTTATGG
980722 TGTATCGATACAA
1 TGTATCGATACAA
980735 TGTATCGATACA
1 TGTATCGATACA
980747 TACTTTGTGT
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:980762 original size:32 final size:33
Alignment explanation
Indices: 980699--980766 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
980689 CGTTGCAAGC
*
980699 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
980732 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
980764 CAA
1 CAA
980767 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:980878 original size:13 final size:13
Alignment explanation
Indices: 980860--980884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
980850 CTTTTAAATG
980860 TGTATCGATACAA
1 TGTATCGATACAA
980873 TGTATCGATACA
1 TGTATCGATACA
980885 TACTTTGTGC
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:980954 original size:138 final size:137
Alignment explanation
Indices: 980701--981007 Score: 546
Period size: 138 Copynumber: 2.2 Consensus size: 137
980691 TTGCAAGCCA
*
980701 ATGTATCGATACATTTT--ATGGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATA
1 ATGTATCGATAC-TTTTAAAT-GTGTATCGATACAATGTATCGATACATACTTTGTGCATCGATA
* *
980764 CAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATTTTTTTTCATGTATCGAT
64 CAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGCATCGATACA-TCTTTTTCATGTATCGAT
980829 ACAATGCAAC
128 ACAATGCAAC
980839 ATGTATCGATACTTTTAAATGTGTATCGATACAATGTATCGATACATACTTTGTGCATCGATACA
1 ATGTATCGATACTTTTAAATGTGTATCGATACAATGTATCGATACATACTTTGTGCATCGATACA
980904 AGTTTGGCTACTGCCAAGAAATCCCAATGACATGCATCGATACATCTTTTTCATGTATCGATACA
66 AGTTTGGCTACTGCCAAGAAATCCCAATGACATGCATCGATACATCTTTTTCATGTATCGATACA
980969 ATGCAAC
131 ATGCAAC
980976 ATGTATCGATACTTTTAAATGTGTATCGATAC
1 ATGTATCGATACTTTTAAATGTGTATCGATAC
981008 TTTTCAGGGT
Statistics
Matches: 164, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
137 63 0.38
138 99 0.60
139 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (137 bp):
ATGTATCGATACTTTTAAATGTGTATCGATACAATGTATCGATACATACTTTGTGCATCGATACA
AGTTTGGCTACTGCCAAGAAATCCCAATGACATGCATCGATACATCTTTTTCATGTATCGATACA
ATGCAAC
Found at i:982961 original size:21 final size:20
Alignment explanation
Indices: 982932--982974 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
982922 GGCTAGTGTG
* *
982932 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
982953 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
982973 GG
1 GG
982975 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:983455 original size:13 final size:13
Alignment explanation
Indices: 983417--983456 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
983407 TAATCCCCCT
**
983417 GTATCGATACAGT
1 GTATCGATACAAA
983430 GTATCGATACAAA
1 GTATCGATACAAA
983443 GTATCGATACAAA
1 GTATCGATACAAA
983456 G
1 G
983457 AATGATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (13 bp):
GTATCGATACAAA
Found at i:989766 original size:13 final size:13
Alignment explanation
Indices: 989748--989772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
989738 CTTTTAAATG
989748 TGTATCGATACAA
1 TGTATCGATACAA
989761 TGTATCGATACA
1 TGTATCGATACA
989773 TACTTTGTGT
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
Done.