Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 7 of 24
Found at i:935105 original size:30 final size:28
Alignment explanation
Indices: 935062--935153 Score: 71
Period size: 30 Copynumber: 3.2 Consensus size: 28
935052 ATTTGTCATG
* *
935062 TTTAGGGAGTTTTATACAATTTCATGTAT
1 TTTAGAGATTTTTATACAATTTCATG-AT
* *
935091 TTTA-AGATCATTTTATTCATTTTCTATG-T
1 TTTAGAGAT--TTTTATACAATTTC-ATGAT
* *
935120 TTTAGAGATTATTATACAATTCCATGCAT
1 TTTAGAGATTTTTATACAATTTCATG-AT
935149 TTTAG
1 TTTAG
935154 CACCATTCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
27 3 0.06
28 12 0.24
29 15 0.31
30 16 0.33
31 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTAGAGATTTTTATACAATTTCATGAT
Found at i:937029 original size:137 final size:136
Alignment explanation
Indices: 936781--937055 Score: 505
Period size: 137 Copynumber: 2.0 Consensus size: 136
936771 CGAAAAAAAA
936781 GAAAAACACCAAAATTAAGCAAAATTACTTAGTTTTCTTAGCTTTACCAAGGTATTTTCTTGCAA
1 GAAAAACACCAAAATTAAGCAAAATTACTTAGTTTTCTTAGCTTTACCAAGGTATTTTCTTGCAA
*
936846 AATCTTTTATTTGTGTAAATTGCATCTTTGATTCTTGATTTTGATGAGATTTATTATCGCTTGAG
66 AATCTTTTATTTGTGTAAATTGCATCTTTGATTCTTGATTTTGATGAGATTTATGATCGCTTGAG
936911 CTCATG
131 CTCATG
*
936917 GAAAAACACCAAAATTAAGCAAAATTACTTAGTTTTCTTAGCTTTTCCAAGGTATTTTTCTTGCA
1 GAAAAACACCAAAATTAAGCAAAATTACTTAGTTTTCTTAGCTTTACCAAGGTA-TTTTCTTGCA
* *
936982 AAATCTTTTATTTGTGTAAATTTCATCTTTGATTCTTGATTTTGATGAGATTTATGATTGCTTGA
65 AAATCTTTTATTTGTGTAAATTGCATCTTTGATTCTTGATTTTGATGAGATTTATGATCGCTTGA
937047 GCTCATG
130 GCTCATG
937054 GA
1 GA
937056 TTTCACTCAT
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 53 0.40
137 81 0.60
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (136 bp):
GAAAAACACCAAAATTAAGCAAAATTACTTAGTTTTCTTAGCTTTACCAAGGTATTTTCTTGCAA
AATCTTTTATTTGTGTAAATTGCATCTTTGATTCTTGATTTTGATGAGATTTATGATCGCTTGAG
CTCATG
Found at i:937959 original size:13 final size:13
Alignment explanation
Indices: 937943--937972 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
937933 ATACATTGTT
937943 CATTGTATCGATA
1 CATTGTATCGATA
937956 CATTGTATCGATA
1 CATTGTATCGATA
937969 CATT
1 CATT
937973 CTAGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:940403 original size:51 final size:51
Alignment explanation
Indices: 940326--940491 Score: 163
Period size: 51 Copynumber: 3.3 Consensus size: 51
940316 TTTCATCTCA
* ** * **
940326 GGGATACTCCAA-TCCCGGTTCCATTTCCAAAACGTCAATTTTTCTTAATCG
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCACAATCG
* * * * ** *
940377 GAGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCG
* * * *
940428 GGGATACTCTAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAATTG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCG
940479 GGGATACTCCAAC
1 GGGATACTCCAAC
940492 CCCGTTATTT
Statistics
Matches: 90, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
51 89 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCG
Found at i:940510 original size:28 final size:28
Alignment explanation
Indices: 940478--940549 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
940468 TTTCACAATT
* **
940478 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCATTATTTCAGA
*
940506 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCAGA
940534 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
940550 TAGCTTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:940625 original size:28 final size:27
Alignment explanation
Indices: 940584--940659 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
940574 TTTTTTCATA
940584 ATCGGGG-TACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
*
940610 CATCGGGGATACTCCAATCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
940638 -TCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
940660 ATTTTATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 7 0.16
28 35 0.80
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:940666 original size:108 final size:109
Alignment explanation
Indices: 940466--940706 Score: 337
Period size: 108 Copynumber: 2.2 Consensus size: 109
940456 AAAACACCAA
*
940466 TTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTC
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTC
*
940531 CGAGGGGATACTCCAACCCTAGCTTTATATCTAAAAATATTGTT
66 CGAGGGGATACTCCAACCCGAGCTTTATATCTAAAAATATTGTT
* * * *
940575 TTTTTCATAATCGGGG-TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTATTTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTC
* * ****
940639 CGAGGGGATACTCCAACCCCGA-TTTTATTTCT-AAAATA-CCAA
66 CGAGGGGATACTCCAA-CCCGAGCTTTATATCTAAAAATATTGTT
940681 TTTTTCACAATCGGGGATACTCCAAC
1 TTTTTCACAATCGGGGATACTCCAAC
940707 TCCGATTTTA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
106 15 0.13
107 15 0.13
108 69 0.59
109 18 0.15
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (109 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTC
CGAGGGGATACTCCAACCCGAGCTTTATATCTAAAAATATTGTT
Found at i:940734 original size:51 final size:51
Alignment explanation
Indices: 940642--940759 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
940632 TTATTTTCGA
*
940642 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTT-TCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTCT-ACAATC
* *
940693 GGGGATACTCCAACTCCGATTTTATTT-TCAAAA-CCCTAATTTTCTATAATC
1 GGGGATACTCCAACTCCGATTTTATTTCT-AAAATACC-AATTTTCTACAATC
* *
940744 AGGGATACTCTAACTC
1 GGGGATACTCCAACTC
940760 TGTTATTTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
50 3 0.05
51 55 0.93
52 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAATACCAATTTTCTACAATC
Found at i:940776 original size:79 final size:79
Alignment explanation
Indices: 940693--940877 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 79
940683 TTTCACAATC
* * * * *
940693 GGGGATACTCCAACTCCGATTTTATTTTCAAAA-CCCTAATTTTCTATAATCAGGGATACTCTAA
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACC-AATTTTCTACAATCAAGGATACTCCAA
*
940757 CTCTGTTATTTCCGA
65 CCCTGTTATTTCCGA
* * * *
940772 GGGGATACTCCAACCCCAACTTTAGTTTCAAAATACCGATTTTCTACAATCAAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAATCAAGGATACTCCAAC
*
940837 CCTGTTATTTCTGA
66 CCTGTTATTTCCGA
* * *
940851 GAGGATACTTCAACCCCGGTTTTATTT
1 GGGGATACTCCAACCCCGATTTTATTT
940878 CTAGAACATC
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 86 0.98
80 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAATCAAGGATACTCCAAC
CCTGTTATTTCCGA
Found at i:942563 original size:21 final size:20
Alignment explanation
Indices: 942521--942559 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
942511 TATTAATGAA
942521 TCTCCCCCTTAATCAAGTAT
1 TCTCCCCCTTAATCAAGTAT
942541 TCTCCCCCTTAATCAAGTA
1 TCTCCCCCTTAATCAAGTA
942560 ATTCATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (20 bp):
TCTCCCCCTTAATCAAGTAT
Found at i:944226 original size:21 final size:21
Alignment explanation
Indices: 944202--944248 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
944192 TTTGATGCTG
944202 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
944222 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
944243 ATTTTG
1 ATTTTG
944249 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:944387 original size:13 final size:13
Alignment explanation
Indices: 944369--944394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
944359 ATAATCACCC
944369 TGTATCGATACAA
1 TGTATCGATACAA
944382 TGTATCGATACAA
1 TGTATCGATACAA
944395 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:946478 original size:15 final size:15
Alignment explanation
Indices: 946458--946488 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
946448 ATTTCGTTTG
*
946458 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
946473 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
946488 G
1 G
946489 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:948322 original size:21 final size:21
Alignment explanation
Indices: 948293--948337 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
948283 AAGTTTTCAT
*
948293 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
948313 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
948335 TTT
1 TTT
948338 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:952038 original size:28 final size:28
Alignment explanation
Indices: 952002--952060 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
951992 GTTAGGTATG
* *
952002 AAATGAAATTTTTAAAAGTTTAAGGATT
1 AAATAAAATTTTCAAAAGTTTAAGGATT
*
952030 AAATAAAATTTTCAAGAGTTTAAGGATT
1 AAATAAAATTTTCAAAAGTTTAAGGATT
952058 AAA
1 AAA
952061 CAGCAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.36
Consensus pattern (28 bp):
AAATAAAATTTTCAAAAGTTTAAGGATT
Found at i:952835 original size:155 final size:156
Alignment explanation
Indices: 952485--953456 Score: 814
Period size: 156 Copynumber: 6.3 Consensus size: 156
952475 AGTTACTAAG
* * *
952485 ATATTTTCATGTCGAAGGTATA-CTTAAAGGTATTTTTGTAA-TTTCTTAAAACCAAGTCATA-G
1 ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAGG
* * * * * * * *
952547 TTAATCACTAG-G-T-CATTTTTAAGCTAAAGGTCTACATATATGATAGGTTCAT-CCTTTTATG
66 TT-GTCAC-AGAGATGC--TTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATG
** * *
952608 ATC-TTTTTGTGTTTTTTAGGGTTACTA-A
127 ATCATTTTTAAGTCTTTTAGGGTTACCAGA
* * * * *
952636 GATATTTTCATATCGATGGTGTACCCTAAAAGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAT
1 -ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAG
*
952701 GTTGTCACTAGA-ATGCTTTTATGCTAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGAT
65 GTTGTCAC-AGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGAT
* *
952765 CCTTTTTAAGT-TTTTAGGGTCACCAGA
129 CATTTTTAAGTCTTTTAGGGTTACCAGA
* * * * * *** *
952792 ATATTTTCATGTCAAAGGTATACCCTAAGGGTATTTTTCTAATTTTATTAGAATTGAGTCCTAGG
1 ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAGG
* * * * * *
952857 TCGTCACAGAGATGCTTTTATACCAAAGGTGTGCATTTAGGATAAGTTCGTCTCATTTATGATTA
66 TTGTCACAGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCA
952922 TTTTTAAGTCTTTTAGGGTTACC-GA
131 TTTTTAAGTCTTTTAGGGTTACCAGA
* * * * * ** * * *
952947 GATATTTTTATGTTGAAAGTATACCCTAAAAGCATTTTCATAATTTTTCTAAAATCGAGT-TCTA
1 -ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCT-TA
* * * * * * **
953011 GGTTGCCACCGAGATACTTTTATGCCAAAGTTGTGCCTTTAGGATAAGTTCATCTTATTTATGAT
64 GGTTGTCACAGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGAT
* * * *
953076 CATTATTAAATCCTTTAGGGTTACC-GG
129 CATTTTTAAGTCTTTTAGGGTTACCAGA
* * * * * * * ** * *
953103 GTACTTTCATGTCGAAGATATACCTTAAGGGCATTTTTGTAA-TTTTTTAGAACTGAGTCTTTGA
1 ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAGG
* * *
953167 TTGTCATC-GAGATGCTTTTATGCCAAA-ATGTGCATTCAGGATAGGTTCATCCCAATTATGATC
66 TTGTCA-CAGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATC
* * * * *
953230 ATTTTAAAGTCCTTTCGAGTTA-CTGAA
130 ATTTTTAAGTCTTTTAGGGTTACCAG-A
* * ** * * ** *
953257 ATACTTTCATGTTGAAGGCCTACCC-CAAGTGCATTTTTGTAATTTTCCTAAAA-CATAGTTTTA
1 ATATTTTCATGTCGAAGGTATACCCTAAAG-GTATTTTTGTAATTTTTTTAAAACCA-AGTCTTA
* * * *
953320 GGTTGTCACCGAGATGCTTTTATGCCAAATGTGTGCATTTAGGATAGGTTTATCCTATTTATGAT
64 GGTTGTCACAGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGAT
* * *
953385 CATTTTTAAATCTTTTAAGGTTACTAGA
129 CATTTTTAAGTCTTTTAGGGTTACCAGA
* * *
953413 ATATTTTCATGTCGAAGGCATACTCTAAAGGTATTTTGGTAATT
1 ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATT
953457 ATGCATTAGA
Statistics
Matches: 659, Mismatches: 137, Indels: 44
0.78 0.16 0.05
Matches are distributed among these distances:
152 20 0.03
153 66 0.10
154 128 0.19
155 213 0.32
156 228 0.35
157 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (156 bp):
ATATTTTCATGTCGAAGGTATACCCTAAAGGTATTTTTGTAATTTTTTTAAAACCAAGTCTTAGG
TTGTCACAGAGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCA
TTTTTAAGTCTTTTAGGGTTACCAGA
Found at i:953031 original size:156 final size:155
Alignment explanation
Indices: 952588--953408 Score: 689
Period size: 155 Copynumber: 5.3 Consensus size: 155
952578 CTACATATAT
* ** * ** * * *
952588 GATAGGTTCAT-CCTTTTATGATC-TTTTTGTGTTTTTTAGGGTTACTAAGATATTTTCATATCG
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTTG
** * ** * * * *
952651 ATGGTGTACCCTAAAAGTATTTTTGTAATTTTTTTAAAACCA-AG-TCTTATGTTGTCA-CTAGA
66 AAAGTATACCCTAAGGGCATTTTCGTAA-TTTTTTAAAA-CAGAGTTC-TAGGTTGTCACCGAG-
*
952713 ATGCTTTTATGCTAAAGGTGTGCATTTAG
127 ATGCTTTTATGCCAAAGGTGTGCATTTAG
* * *
952742 GATAGGTTCATCCCATTTATGATCCTTTTTAAGT-TTTTAGGGTCACC-AGAATATTTTCATG-T
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAG-ATACTTTCATGTT
* * * ** * * *
952804 CAAAGGTATACCCTAAGGGTATTTTTC-TAATTTTATTAGAATTGAGTCCTAGGTCGTCACAGAG
65 GAAA-GTATACCCTAAGGGCA-TTTTCGTAATTTT-TTAAAACAGAGTTCTAGGTTGTCACCGAG
*
952868 ATGCTTTTATACCAAAGGTGTGCATTTAG
127 ATGCTTTTATGCCAAAGGTGTGCATTTAG
* * * * * *
952897 GATAAGTTCGTCTCATTTATGATTATTTTTAAGTCTTTTAGGGTTACCGAGATATTTTTATGTTG
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTTG
** * *
952962 AAAGTATACCCTAAAAGCATTTTCATAATTTTTCTAAAATC-GAGTTCTAGGTTGCCACCGAGAT
66 AAAGTATACCCTAAGGGCATTTTCGTAATTTTT-TAAAA-CAGAGTTCTAGGTTGTCACCGAGAT
* * *
953026 ACTTTTATGCCAAAGTTGTGCCTTTAG
129 GCTTTTATGCCAAAGGTGTGCATTTAG
* ** * * * * *
953053 GATAAGTTCATCTTATTTATGATCATTATTAAATCCTTTAGGGTTACCG-GGTACTTTCATGTCG
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTTG
* * * * * * *
953117 -AAGATATACCTTAAGGGCATTTTTGTAATTTTTTAGAACTGAG-TCTTTGATTGTCATCGAGAT
66 AAAG-TATACCCTAAGGGCATTTTCGTAATTTTTTAAAACAGAGTTC-TAGGTTGTCACCGAGAT
* *
953180 GCTTTTATGCCAAA-ATGTGCATTCAG
129 GCTTTTATGCCAAAGGTGTGCATTTAG
* * * * * * *
953206 GATAGGTTCATCCCAATTATGATCATTTTAAAGTCCTTTCGAGTTACTGAAATACTTTCATGTTG
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTTG
* ** * * * * * *
953271 AAGGCCTACCCCAAGTGCATTTTTGTAATTTTCCTAAAACATAGTTTTAGGTTGTCACCGAGATG
66 AAAGTATACCCTAAGGGCATTTTCGTAATTTT-TTAAAACAGAGTTCTAGGTTGTCACCGAGATG
*
953336 CTTTTATGCCAAATGTGTGCATTTAG
130 CTTTTATGCCAAAGGTGTGCATTTAG
* * * *
953362 GATAGGTTTATCCTATTTATGATCATTTTTAAATCTTTTAAGGTTAC
1 GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTAC
953409 TAGAATATTT
Statistics
Matches: 537, Mismatches: 107, Indels: 44
0.78 0.16 0.06
Matches are distributed among these distances:
153 51 0.09
154 89 0.17
155 197 0.37
156 194 0.36
157 6 0.01
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (155 bp):
GATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTTG
AAAGTATACCCTAAGGGCATTTTCGTAATTTTTTAAAACAGAGTTCTAGGTTGTCACCGAGATGC
TTTTATGCCAAAGGTGTGCATTTAG
Found at i:953332 original size:309 final size:312
Alignment explanation
Indices: 952657--953425 Score: 870
Period size: 309 Copynumber: 2.5 Consensus size: 312
952647 ATCGATGGTG
* * * * * *
952657 TACCCTAAAAGTATTTTTGTAATTTTTTTAAAACCAAGTCTTATGTTGTCA-CTAGAATGCTTTT
1 TACCCCAAAAGCATTTTTGTAATTTTTCTAAAACCAAGTTTTAGGTTGTCACCGAG-ATGCTTTT
* * * * *
952721 ATGCTAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCCTTTTTAAGT-TTTTAGGGT
65 ATGCCAAAGTTGTGCATTTAGGATAGGTTCATCCTATTTATGATCATTTTTAAATCTTTTAGGGT
* * * * *
952785 CACCAGAATATTTTCATGTCAAAGGTATACCCTAAGGGTATTTTTCTAATTTTATTAGAATTGAG
130 TACCAGAATACTTTCATGTCAAAGATATACCCTAAGGGCATTTTTCTAATTTTATTAGAACTGAG
* * * * * *
952850 TCCTAGGTCGTCACAGAGATGCTTTTATACCAAAGGTGTGCATTTAGGATAAGTTCGTCTCATTT
195 TCCTAGATCGTCACAGAGATGCTTTTATACCAAAGATGTGCATTCAGGATAAGTTCATCCCAATT
* * * * * * * *
952915 ATGATTATTTTTAAGTCTTTTAGGGTTACCGAGATATTTTTATGTTGAAAGTA
260 ATGATCATTTTAAAGTCCTTTAGAGTTACCGAAATACTTTCATGTTGAAAGCA
* ** * * * * *
952968 TACCCTAAAAGCATTTTCATAATTTTTCTAAAATCGAGTTCTAGGTTGCCACCGAGATACTTTTA
1 TACCCCAAAAGCATTTTTGTAATTTTTCTAAAACCAAGTTTTAGGTTGTCACCGAGATGCTTTTA
* * * * *
953033 TGCCAAAGTTGTGCCTTTAGGATAAGTTCATCTTATTTATGATCATTATTAAATCCTTTAGGGTT
66 TGCCAAAGTTGTGCATTTAGGATAGGTTCATCCTATTTATGATCATTTTTAAATCTTTTAGGGTT
** * * *
953098 ACC-GGGTACTTTCATGTCGAAGATATACCTTAAGGGCATTTTTGTAATTTT-TTAGAACTGAGT
131 ACCAGAATACTTTCATGTCAAAGATATACCCTAAGGGCATTTTTCTAATTTTATTAGAACTGAGT
* * * * *
953161 CTTTGATTGTCATC-GAGATGCTTTTATGCCAAA-ATGTGCATTCAGGATAGGTTCATCCCAATT
196 CCTAGATCGTCA-CAGAGATGCTTTTATACCAAAGATGTGCATTCAGGATAAGTTCATCCCAATT
* * * *
953224 ATGATCATTTTAAAGTCCTTTCGAGTTACTGAAATACTTTCATGTTGAAGGCC
260 ATGATCATTTTAAAGTCCTTTAGAGTTACCGAAATACTTTCATGTTGAAAGCA
** *
953277 TACCCCAAGTGCATTTTTGTAATTTTCCTAAAA-CATAGTTTTAGGTTGTCACCGAGATGCTTTT
1 TACCCCAAAAGCATTTTTGTAATTTTTCTAAAACCA-AGTTTTAGGTTGTCACCGAGATGCTTTT
* *
953341 ATGCCAAA-TGTGTGCATTTAGGATAGGTTTATCCTATTTATGATCATTTTTAAATCTTTTAAGG
65 ATGCCAAAGT-TGTGCATTTAGGATAGGTTCATCCTATTTATGATCATTTTTAAATCTTTTAGGG
* *
953405 TTACTAGAATATTTTCATGTC
129 TTACCAGAATACTTTCATGTC
953426 GAAGGCATAC
Statistics
Matches: 376, Mismatches: 76, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
308 2 0.01
309 176 0.47
310 49 0.13
311 135 0.36
312 14 0.04
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (312 bp):
TACCCCAAAAGCATTTTTGTAATTTTTCTAAAACCAAGTTTTAGGTTGTCACCGAGATGCTTTTA
TGCCAAAGTTGTGCATTTAGGATAGGTTCATCCTATTTATGATCATTTTTAAATCTTTTAGGGTT
ACCAGAATACTTTCATGTCAAAGATATACCCTAAGGGCATTTTTCTAATTTTATTAGAACTGAGT
CCTAGATCGTCACAGAGATGCTTTTATACCAAAGATGTGCATTCAGGATAAGTTCATCCCAATTA
TGATCATTTTAAAGTCCTTTAGAGTTACCGAAATACTTTCATGTTGAAAGCA
Found at i:955846 original size:107 final size:107
Alignment explanation
Indices: 955659--955880 Score: 268
Period size: 107 Copynumber: 2.1 Consensus size: 107
955649 GAAAACTACC
* ** * * * * *
955659 TAAATGACATCAAAATGCATGAAATGAAATAAAAATCTCTAGATCATAGAAAGTAACTTAAATAG
1 TAAATGACATAAAAACACATAAAATGAAATAAAAATCCCTAAATCATAGAAAATAACCTAAATAG
* *
955724 CATCAAAATTCACAAAATTGCAT-TCAAGTCCCTAGATCATGG
66 CATCAAAATTCACAAAATTGC-TCCCAAATCCCTAGATCATGG
* * * *
955766 TAAATGACATAAAAACACATAAAATGACATAAAAGTCCCTAAATCAT-GAAAAATGACCTAAATG
1 TAAATGACATAAAAACACATAAAATGAAATAAAAATCCCTAAATCATAG-AAAATAACCTAAATA
* *
955830 GCATCCAAATTTACAAAATTGCTCCCAAATCCCTAGATCATGG
65 GCATCAAAATTCACAAAATTGCTCCCAAATCCCTAGATCATGG
955873 TAAATGAC
1 TAAATGAC
955881 CTATATGACA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
106 2 0.02
107 95 0.98
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (107 bp):
TAAATGACATAAAAACACATAAAATGAAATAAAAATCCCTAAATCATAGAAAATAACCTAAATAG
CATCAAAATTCACAAAATTGCTCCCAAATCCCTAGATCATGG
Found at i:956893 original size:20 final size:20
Alignment explanation
Indices: 956868--956942 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
956858 TTTTACCCAG
*
956868 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * *
956888 ATGTATCAATACATGTATGA
1 ATGTATCAATACATTTTTCA
* *
956908 ATATATCAATACATTCTTCA
1 ATGTATCAATACATTTTTCA
*
956928 ATGTATCGATACATT
1 ATGTATCAATACATT
956943 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:958619 original size:10 final size:11
Alignment explanation
Indices: 958604--958632 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
958594 CCACTAGATG
958604 ATTTTTCAAA-
1 ATTTTTCAAAC
958614 ATTTTTCAAAC
1 ATTTTTCAAAC
958625 ATTTTTCA
1 ATTTTTCA
958633 TAAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCAAAC
Found at i:960292 original size:20 final size:21
Alignment explanation
Indices: 960235--960304 Score: 115
Period size: 22 Copynumber: 3.3 Consensus size: 21
960225 ACCACCCTGC
960235 ATACATTTTTCAATTGTATCG
1 ATACATTTTTCAATTGTATCG
*
960256 ATATATTTTTTCAATTGTATCG
1 ATACA-TTTTTCAATTGTATCG
960278 ATACATTTTTC-ATTGTATCG
1 ATACATTTTTCAATTGTATCG
960298 ATACATT
1 ATACATT
960305 CTTGATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 16 0.35
21 10 0.22
22 20 0.43
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.50
Consensus pattern (21 bp):
ATACATTTTTCAATTGTATCG
Found at i:962761 original size:79 final size:79
Alignment explanation
Indices: 962664--963242 Score: 489
Period size: 79 Copynumber: 7.3 Consensus size: 79
962654 AAAAATTTTG
* * * * * *
962664 ATTTTTCATCTCGAGGATACTCCAGCCTCATTATTTTCGAAAGGATACTCCAACCCCGTTTTT-T
1 ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTAT
*
962728 TGTCAAAAATATTAA
66 T-TCTAAAATATTAA
* * * * * *
962743 ATTTTTCGTCTTGGGGATATTCCAAACCCATTGA-TTCCG-AGAAGATACTTCAACCCCA-TTTT
1 ATTTTTCATCTTGGGGATACTCCAACCCCATT-ATTTTCGAAG-GGATACTCCAACCCCATTTTT
962805 ATTTCTAAAATATTAA
64 ATTTCTAAAATATTAA
* * * *
962821 ATTTTTCATCATGGGGATACTCCAACCCCATTAATTCCG-AGGGAATACTCGAATCCCC-TTTTT
1 ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAAGGG-ATACTCCAA-CCCCATTTTT
*
962884 ATTTCCAAAATATTAA
64 ATTTCTAAAATATTAA
** * * * * * * *
962900 ATTTTTCATCGCGTGGATATTCCAACCCTATTATTTTTGAGGGGATACTCCAACCCTATTTTTGT
1 ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTAT
962965 TT-TCAAAATATTAA
66 TTCT-AAAATATTAA
* * * * * *
962979 AATTTTCATCTCGGGGATACTCCTACCCCATCAATTTT-GAGGGGATACTCCAACCCCGTTTTTA
1 ATTTTTCATCTTGGGGATACTCCAACCCCAT-TATTTTCGAAGGGATACTCCAACCCCATTTTTA
963043 TTTCTAAAATATTAA
65 TTTCTAAAATATTAA
* * * * ** ** *
963058 ATTCTTCATCGTGGGTATACTCCGACCCCATTATTTTC-AAGGGGATACTTTAACTTCGTTTTTA
1 ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAA-GGGATACTCCAACCCCATTTTTA
* *
963122 TTTTTAAAATAGTAAA
65 TTTCTAAAATA-TTAA
* * * * * **
963138 ATGTTT-ATCTTGGGGATACTCCACCCCCGTTATTGTCGAGGGGATACTCCAACCTTATTTTTAT
1 ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTAT
963202 TT-TAAAAATATTAA
66 TTCT-AAAATATTAA
* **
963216 AATTTTCAT-TTCGAAGATACTCCAACC
1 ATTTTTCATCTT-GGGGATACTCCAACC
963243 TCGTATTCCG
Statistics
Matches: 403, Mismatches: 78, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
77 2 0.00
78 78 0.19
79 305 0.76
80 18 0.04
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (79 bp):
ATTTTTCATCTTGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTAT
TTCTAAAATATTAA
Found at i:963181 original size:237 final size:235
Alignment explanation
Indices: 962667--963240 Score: 603
Period size: 237 Copynumber: 2.4 Consensus size: 235
962657 AATTTTGATT
* * * * ** ** *
962667 TTTCATCTCGAGGATACTCCAGCCTCATTATTTTCGAAAGGATACTCCAACCCCGTTTTTTTGTC
1 TTTCATCGCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTTTTTTC
* * * * ** *
962732 AAAAATATTAAATTTTTCGTCTTGGGGATATTCCAAACCCATTGATTCCGAGAAGATACTTCAAC
66 -AAAATATTAAAATTTTCATCTCGGGGATACTCCAAACCCATCAATTCCGAGAAGATACTCCAAC
* *
962797 CCCATTTTATTTCTAAAATATTAAATTTTTCATCATGGGGATACTCCAACCCCATTAATTCCGAG
130 CCCATTTTATTTCTAAAATATTAAATTCTTCATCATGGGGATACTCCAACCCCATTAATTCCAAG
* *
962862 GGAATACTCGAATCCCCTTTTTATTTCCAAAATATTAAATT
195 GGAATACTCGAATCCCCTTTTTATTTCCAAAATATAAAATG
* * * *
962903 TTTCATCGCGTGGATATTCCAACCCTATTATTTTTGAGGGGATACTCCAACCCTATTTTTGTTTT
1 TTTCATCGCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTT-TTTT
* * ** **
962968 CAAAATATTAAAATTTTCATCTCGGGGATACTCCTACCCCATCAATTTTGAGGGGATACTCCAAC
65 CAAAATATTAAAATTTTCATCTCGGGGATACTCCAAACCCATCAATTCCGAGAAGATACTCCAAC
* * * * * *
963033 CCCGTTTTTATTTCTAAAATATTAAATTCTTCATCGTGGGTATACTCCGACCCCATTATTTTCAA
130 CCC-ATTTTATTTCTAAAATATTAAATTCTTCATCATGGGGATACTCCAACCCCATTAATTCCAA
* ** * * **
963098 GGGGATACTTTAA-CTTCGTTTTTATTTTTAAAATAGTAAAATG
194 GGGAATACTCGAATC-CCCTTTTTATTTCCAAAATA-TAAAATG
** * * * *
963141 TTT-ATCTTGGGGATACTCCACCCCCGTTATTGTCGAGGGGATACTCCAACCTTATTTTTATTTT
1 TTTCATCGCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTT-TTTT
* * **
963205 AAAAATATTAAAATTTTCATTTCGAAGATACTCCAA
65 CAAAATATTAAAATTTTCATCTCGGGGATACTCCAA
963241 CCTCGTATTC
Statistics
Matches: 276, Mismatches: 58, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
236 104 0.38
237 164 0.59
238 8 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (235 bp):
TTTCATCGCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTATTTTTTTTTC
AAAATATTAAAATTTTCATCTCGGGGATACTCCAAACCCATCAATTCCGAGAAGATACTCCAACC
CCATTTTATTTCTAAAATATTAAATTCTTCATCATGGGGATACTCCAACCCCATTAATTCCAAGG
GAATACTCGAATCCCCTTTTTATTTCCAAAATATAAAATG
Found at i:971497 original size:96 final size:97
Alignment explanation
Indices: 971362--971576 Score: 288
Period size: 96 Copynumber: 2.2 Consensus size: 97
971352 TTCCTTCGAA
*
971362 GGGATATTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTATCAC
1 GGGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTATCAC
* *
971427 CATCGGGGACACTTCAACCCCATTCCTCTAAG
66 CATCGGGGACACTCCAACCCCATTCCTCCAAG
* * * * * * * * * *
971459 GGGATACT-CAACCTCGCTTTTAAACGCTTTAAAGTTTAAATTTTATTTTCATTTAAATTGTCAT
1 GGGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTATCAC
*
971523 CATCGGGGACACTCCAACCCCATTCCTCCGAG
66 CATCGGGGACACTCCAACCCCATTCCTCCAAG
*
971555 GGGATACTCCAACCCCGTTTTT
1 GGGATACTCCAACCCCGCTTTT
971577 CAATCAAAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 83 0.82
97 18 0.18
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (97 bp):
GGGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTATCAC
CATCGGGGACACTCCAACCCCATTCCTCCAAG
Found at i:971598 original size:96 final size:96
Alignment explanation
Indices: 971351--971598 Score: 220
Period size: 96 Copynumber: 2.6 Consensus size: 96
971341 CTCTAATCCT
* * * * *
971351 ATTCCTTCGAAGGGATATTCCAACCCCGCTTTTAAACACATCAAAATTTAAATC---TTATTCTC
1 ATTCCTCCGAGGGGATACTCCAACCCCG-TTTT--TCA-ATCAAAAATTAAATCATTTTATTCTC
*
971413 ACTTAAATTATCACCATCGGGGACACTTCAACCCC
62 ACTTAAATTATCACCATCGGGGACACTCCAACCCC
** * * * ** * * *
971448 ATTCCTCTAAGGGGATACT-CAACCTCGCTTTTAAACGCTTTAAAGTTTAA--ATTTTATTTTCA
1 ATTCCTCCGAGGGGATACTCCAACCCCGTTTTTCAA---TCAAAAATTAAATCATTTTATTCTCA
* * *
971510 TTTAAATTGTCATCATCGGGGACACTCCAACCCC
63 CTTAAATTATCACCATCGGGGACACTCCAACCCC
971544 ATTCCTCCGAGGGGATACTCCAACCCCGTTTTTCAATCAAAAATTAAATCATTTT
1 ATTCCTCCGAGGGGATACTCCAACCCCGTTTTTCAATCAAAAATTAAATCATTTT
971599 CTCTCTCTCA
Statistics
Matches: 115, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
92 1 0.01
93 1 0.01
94 8 0.07
95 11 0.10
96 67 0.58
97 27 0.23
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (96 bp):
ATTCCTCCGAGGGGATACTCCAACCCCGTTTTTCAATCAAAAATTAAATCATTTTATTCTCACTT
AAATTATCACCATCGGGGACACTCCAACCCC
Found at i:977826 original size:27 final size:27
Alignment explanation
Indices: 977669--977827 Score: 219
Period size: 27 Copynumber: 5.8 Consensus size: 27
977659 AACCTCTTCA
* * *
977669 AAGTCCACGATTCAGTGGCATTCCTTTTT
1 AAGTCCACAACTCCGTGGCA-TCC-TTTT
* *
977698 AAGTCCACAACTCTGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
977725 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
977752 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
977779 AAGTCCATAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
977806 AAGTCCACAACTCCATGGCATC
1 AAGTCCACAACTCCGTGGCATC
977828 ATCCTTTTAA
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 100 0.84
28 2 0.02
29 17 0.14
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:977966 original size:28 final size:28
Alignment explanation
Indices: 977665--978296 Score: 367
Period size: 28 Copynumber: 22.1 Consensus size: 28
977655 GGGTAACCTC
* * *
977665 TTCAAAGTCCACGATTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
** * * * *
977694 TTTTAAGTCCACAACTCTGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
977722 TT-TAAGTCCACAACTCCGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
977749 TT-TAAGTCCACAACTTC-GTGGCATCCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCT
* * * * *
977776 TT-TAAGTCCATAACTCCGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
977803 TT-TAAGTCCACAACTCCA-TGGCATCATCCT
1 TTCAAAGCCCACAAGT-CAGTGG---CATCCT
* *
977833 TTTAAAGCCCACACAAGTCAGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* * *
977865 TTGAAAGCCCACACAAGTC-GATGGTAACCCAT
1 TTCAAAG-CC-CACAAGTCAG-TGG-CATCC-T
* *
977897 TTCAAAGCCCACAACTTC-GTGGCAT-TT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCT
** *
977924 TTTTAAGTCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
977952 TTCAAAGCCCACAAGTCAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
977980 TTCAAAGCCCACAAGTCAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
978008 TTCAAAGCCCACAAGTCAATGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
978036 TTTAAAGCCCACAAGTTAGTAGTA-CTAT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
978064 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
978092 TTCGAAGCCCAAAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
978120 TTCAAAGCCCACAAGTTAGTGGTAGT-AT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
** *
978148 TTCAAAATCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
978176 TTCAAAGCCCACAAGTTAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
978204 TTCAAAACCCACAAGTCAATGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
** *
978234 TTCAAAGCCCACACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
*
978266 TTCAAAGCTCACACAAGTTAGTGGCA-CCT
1 TTCAAAGC-C-CACAAGTCAGTGGCATCCT
978295 TT
1 TT
978297 TTTTTAAAAG
Statistics
Matches: 495, Mismatches: 74, Indels: 68
0.78 0.12 0.11
Matches are distributed among these distances:
26 4 0.01
27 109 0.22
28 234 0.47
29 27 0.05
30 30 0.06
31 14 0.03
32 61 0.12
33 11 0.02
34 5 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:978045 original size:84 final size:84
Alignment explanation
Indices: 977844--978291 Score: 416
Period size: 84 Copynumber: 5.2 Consensus size: 84
977834 TTAAAGCCCA
* *
977844 CACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTC-GATGGTAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCAG-TGG-CA-CCATTTCAAAGCCCA
* * ** *
977908 CAACTTC-GTGGCAT-TTTTTTAAGTC
59 CAA-GTCAGTGGCATCATTTCAAAGCC
*
977933 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
1 CACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
*
977998 GTGGCACCATTTCAAAGCC
66 GTGGCATCATTTCAAAGCC
* * * * * *
978017 CACAAGTCAATGGCATCATTTTAAAGCCCACAAGTTAGTAGTACTATTTCAAAGCCCACAAGTCA
1 CACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
*
978082 GTGGCATCATTTCGAAGCC
66 GTGGCATCATTTCAAAGCC
* * * * * ** **
978101 CAAAAGTCAATGGCATCCTTTCAAAGCCCACAAGTTAGTGGTAGTATTTCAAAATCCACAAGTCA
1 CACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
*
978166 GTGGCATCTTTTCAAAGCC
66 GTGGCATCATTTCAAAGCC
* * * * *
978185 CACAAGTTAGTGGCACCATTTCAAAACCCACAAGTCAATGGCATACCCTTTCAAAGCCCACACGA
1 CACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGC--ACCATTTCAAAGCCCACA--A
** *
978250 GTTGGTGGCAACTCTTTTCAAAGCTC
62 GTCAGTGGC-A-TCATTTCAAAGC-C
*
978276 ACACAAGTTAGTGGCA
1 -CACAAGTCAGTGGCA
978292 CCTTTTTTTT
Statistics
Matches: 305, Mismatches: 43, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
82 2 0.01
83 24 0.08
84 191 0.63
85 11 0.04
86 16 0.05
87 9 0.03
88 9 0.03
89 15 0.05
90 12 0.04
91 1 0.00
92 15 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (84 bp):
CACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
GTGGCATCATTTCAAAGCC
Found at i:978325 original size:34 final size:31
Alignment explanation
Indices: 978237--978333 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 31
978227 ATACCCTTTC
* *
978237 AAAGCCCACACGAGTTGGTGGCAACTCTTTTC
1 AAAGCCCACACAAGTT-GTGGCAACTCTTTTA
* * *
978269 AAAGCTCACACAAGTTAGTGGCACCTTTTTTTTA
1 AAAGCCCACACAAGTT-GTGGCAAC--TCTTTTA
*
978303 AAAGCCCACACAAGTTGTTGGCAACCCTTTT
1 AAAGCCCACACAAGTTG-TGGCAACTCTTTT
978334 CAAATCACCA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
32 25 0.48
33 1 0.02
34 26 0.50
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGTGGCAACTCTTTTA
Found at i:979520 original size:17 final size:16
Alignment explanation
Indices: 979494--979540 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
979484 TTAGGTAAGA
*
979494 AAGAAAGAAGATAAAG
1 AAGAAAGAAGAAAAAG
979510 AAGAAAGGAAGAAAAAG
1 AAGAAA-GAAGAAAAAG
*
979527 AA-AAAAAAGAAAAA
1 AAGAAAGAAGAAAAA
979541 AACATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 8 0.29
16 9 0.32
17 11 0.39
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAGAAAAAG
Found at i:979536 original size:23 final size:24
Alignment explanation
Indices: 979494--979538 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
979484 TTAGGTAAGA
* *
979494 AAGAAAGAAGATAAAGAAGAAAGG
1 AAGAAAGAAGAAAAAAAAGAAAGG
979518 AAGAAA-AAGAAAAAAAAGAAA
1 AAGAAAGAAGAAAAAAAAGAAA
979539 AAAACATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAGAAAAAAAAGAAAGG
Found at i:981278 original size:96 final size:97
Alignment explanation
Indices: 981136--981342 Score: 281
Period size: 96 Copynumber: 2.1 Consensus size: 97
981126 TCCTTCGAAG
* * *
981136 GGATTCTCCAATCCTGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTGTCACC
1 GGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTGTCACC
* *
981201 ATCGGGGACACTTCAACCCCATTCCTCTGAGA
66 ATCGGGGACACTCCAACCCCATTCCTCCGAGA
* * ** * * * *
981233 GGATACT-CAACCCCGCTTTTAAACACTTTAATGTTTAAATTTTATTTTCATTTAAATTGTCATC
1 GGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTGTCACC
*
981297 ATCGGGGACACTCCAACCCCATTCCTCCGAGG
66 ATCGGGGACACTCCAACCCCATTCCTCCGAGA
981329 GGATACTCCAACCC
1 GGATACTCCAACCC
981343 TGTTTTTCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
96 83 0.87
97 12 0.13
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (97 bp):
GGATACTCCAACCCCGCTTTTAAACACATCAAAATTTAAATCTTATTCTCACTTAAATTGTCACC
ATCGGGGACACTCCAACCCCATTCCTCCGAGA
Found at i:981371 original size:96 final size:94
Alignment explanation
Indices: 981163--981371 Score: 212
Period size: 96 Copynumber: 2.2 Consensus size: 94
981153 TTTTAAACAC
* *
981163 ATCAAAATTTAAATC---TTATTCTCACTTAAATTGTCACCATCGGGGACACTTCAACCCCATTC
1 ATCAAAAATTAAATCATTTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACCCCATTC
*
981225 CTCTGAGAGGATACTCAACCCCGCTTTTA
66 CTCCGAGAGGATACTCAACCCCGCTTTTA
* ** * * * *
981254 AACACTTTAATGTTTAA--ATTTTATTTTCATTTAAATTGTCATCATCGGGGACACTCCAACCCC
1 ATCA----AAAATTAAATCATTTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACCCC
* * *
981317 ATTCCTCCGAGGGGATACTCCAACCCTGTTTTTCA
62 ATTCCTCCGAGAGGATACT-CAACCCCGCTTTT-A
981352 ATCAAAAATTAAATCATTTT
1 ATCAAAAATTAAATCATTTT
981372 CTCTCTCTCA
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
91 3 0.03
94 6 0.07
95 6 0.07
96 61 0.67
97 11 0.12
98 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (94 bp):
ATCAAAAATTAAATCATTTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACCCCATTC
CTCCGAGAGGATACTCAACCCCGCTTTTA
Found at i:982704 original size:32 final size:31
Alignment explanation
Indices: 982652--982725 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
982642 TAATCCTCCA
* *
982652 AACTTTTT-TTAATGTCCACAACTCCGTGGC
1 AACTTTTTCTTAAAGTCCACAACTCCATGGC
982682 AACTTTTTCTTCAAAGTCCACAACTCCATGGC
1 AACTTTTTCTT-AAAGTCCACAACTCCATGGC
*
982714 ACTCTTTTTCTT
1 A-ACTTTTTCTT
982726 TCTAAAGCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.21
31 2 0.05
32 19 0.50
33 9 0.24
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.39
Consensus pattern (31 bp):
AACTTTTTCTTAAAGTCCACAACTCCATGGC
Found at i:983196 original size:55 final size:58
Alignment explanation
Indices: 983112--983263 Score: 193
Period size: 55 Copynumber: 2.6 Consensus size: 58
983102 CCCACCAACT
* * *
983112 CCCACAAGATTTGGTGGCACATTTTAGTCCTCAAAAAGGAAGATGCC-T-TTTTC-AG
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGGAAGATGCCTTCTTTTCAAG
* * *
983167 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTCAAAG
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGGAAGATGCC---TTCTTTTC-AAG
983229 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAA
1 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAA
983264 GAGCAGGACG
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
55 41 0.49
59 1 0.01
60 5 0.06
62 37 0.44
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (58 bp):
CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGGAAGATGCCTTCTTTTCAAG
Found at i:983317 original size:60 final size:61
Alignment explanation
Indices: 982717--983590 Score: 681
Period size: 62 Copynumber: 14.2 Consensus size: 61
982707 CCATGGCACT
* * * * *
982717 CTTTTTCTTTCTAAAGCCCACATGAGTTGGTGGCACCTTTTACTCCTCAAAGAGCAAGATGTT
1 CTTTTTCTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-C
* * * * * * * *
982780 TTTTTTCCTTTTAAAGCCCATACGAGTTGGTGGCATCTTTTAGTCCTCAAAAAGTAAGATGT
1 CTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * * * *
982842 CTTTTCCTTTTCAAAGCCCACTCAAGTTGGTGGCACCTTTTAATCCTCAAAGAGTAGGAAGC
1 CTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * ** **
982904 CTTTTTCTTTTCAAAACCCACACGAGTTGGTGGCACCTTTTAGTCTTTAAAGAATAGGATAC
1 CTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * * * *
982966 CTGTTTCTTTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCATGACAC
1 CTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * *
983028 CTTTTTCTTTTTAAACCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGATG-
1 CTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * *
983089 C-TTTT-TTTTAAAGCCCACCAACTCCCACAAGATTTGGTGGCACATTTTAGTCCTCAAAAAGGA
1 CTTTTTCTTTTAAAG--C-CC-A----CAC--GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
* *
983152 AGATGC
56 GGACGC
* *
983158 CTTTTTC------AGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC
1 CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
*
983213 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGT
1 CTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
** ** * *
983275 CTTTTT-TTTTAAAGCTTACACGAGTTGGTGGTGCCTTCTAGTCCTCAAAGAGCAGGACAC
1 CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * * * *
983335 CTTTTTCTTTTATAGCCCATATGAGTTGATGGCA-C-TTT--T--T-AAAGAGCAGGATGC
1 CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* *
983389 CTTTTTTTTTTAAGCCGTAACTCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
1 CTTTTTCTTTTAA-----AGC-CC-ACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
*
983454 CAC
59 CGC
* * * * **
983457 CTTTTTCCTTTTAAAAGTCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATGG-CAT
1 CTTTTT-CTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GGACGC
* ** * ** * * *
983520 CTTTTTCTTTTCAAAGCCTACA--AGTTGACGACAAGTTTTAGTCCTCAAAAAGTAGGACGT
1 CTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
983580 CTTTTTCTTTT
1 CTTTTTCTTTT
983591 TAAAACCTGT
Statistics
Matches: 667, Mismatches: 102, Indels: 87
0.78 0.12 0.10
Matches are distributed among these distances:
54 23 0.03
55 42 0.06
57 4 0.01
58 7 0.01
59 6 0.01
60 96 0.14
61 45 0.07
62 268 0.40
63 100 0.15
64 7 0.01
65 4 0.01
66 2 0.00
67 1 0.00
68 51 0.08
69 5 0.01
70 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (61 bp):
CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
Found at i:983488 original size:63 final size:63
Alignment explanation
Indices: 983411--983595 Score: 216
Period size: 63 Copynumber: 3.0 Consensus size: 63
983401 AGCCGTAACT
* * *
983411 CCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCCTTTTAAAAG
1 CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACATCTTTTTCCTTTTAAAAG
* *
983474 TCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTATGG-CATCTTTTT-CTTTTCAAAG
1 CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTA-GGACATCTTTTTCCTTTTAAAAG
** * ** * * *
983536 CCT--ACAAGTTGACGACAAGTTTTAGTCCTCAAAAAGTAGGACGTCTTTTTCTTTTTAAAA
1 CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACATCTTTTTCCTTTTAAAA
983596 CCTGTAGACA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 2 0.02
60 37 0.36
61 7 0.07
62 11 0.11
63 45 0.43
64 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (63 bp):
CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACATCTTTTTCCTTTTAAAAG
Found at i:984007 original size:20 final size:20
Alignment explanation
Indices: 983982--984050 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
983972 CTGCTAAGGA
983982 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
984002 AATGTATTGATAC---A-T-
1 AATGTATCGATACATTATTC
984017 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
984035 AATGTATTGATACATT
1 AATGTATCGATACATT
984051 GTATCGATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 10 0.26
16 2 0.05
17 2 0.05
20 25 0.64
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:984026 original size:13 final size:13
Alignment explanation
Indices: 984004--984064 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
983994 CATTATTCAA
*
984004 TGTATTGATACAT
1 TGTATCGATACAT
984017 TGTATCGATACA-
1 TGTATCGATACAT
*
984029 T-TAT---T-CAA
1 TGTATCGATACAT
*
984037 TGTATTGATACAT
1 TGTATCGATACAT
984050 TGTATCGATACAT
1 TGTATCGATACAT
984063 TG
1 TG
984065 ATCTTTGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 3 0.08
11 3 0.08
12 2 0.05
13 27 0.69
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:984047 original size:53 final size:53
Alignment explanation
Indices: 983982--984082 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
983972 CTGCTAAGGA
**
983982 AATGTATCGATACATTAT-TCAATGTATTGATACATTGTATCGATACATTATTC
1 AATGTATCGATACATTATATCAATACATTGAT-CATTGTATCGATACATTATTC
* * * *
984035 AATGTATTGATACATTGTATCGATACATTGATCTTTGTATCGATACAT
1 AATGTATCGATACATTATATCAATACATTGATCATTGTATCGATACAT
984083 CTGGGAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 31 0.76
54 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (53 bp):
AATGTATCGATACATTATATCAATACATTGATCATTGTATCGATACATTATTC
Found at i:984082 original size:33 final size:33
Alignment explanation
Indices: 983984--984063 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
983974 GCTAAGGAAA
983984 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATTGATACAT
984017 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATTGATACAT
984050 TGTATCGATACATT
1 TGTATCGATACATT
984064 GATCTTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATTGATACAT
Found at i:991058 original size:20 final size:18
Alignment explanation
Indices: 991041--991090 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
991031 AGTCAAAAGT
991041 AAAAACACACAAAAAAAAAC
1 AAAAACA-A-AAAAAAAAAC
991061 AAAAACAAAAAAAAAACAC
1 AAAAACAAAAAAAAAA-AC
991080 ACAAAA-AAAAA
1 A-AAAACAAAAA
991091 GAGAATGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.29
19 9 0.32
20 11 0.39
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAAC
Found at i:992593 original size:122 final size:122
Alignment explanation
Indices: 992367--992699 Score: 446
Period size: 122 Copynumber: 2.7 Consensus size: 122
992357 TTCAAATCTT
* * * * *
992367 TCTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACAACTCAGTGGCAATCTCT
1 TCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCCAAAGTCCACAACTCAGTGGCAATCTCT
992432 TCTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATC
66 TCTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATC
992489 TCTTCCCAAAGTCCACGACTCAATGGCATCTCTTC-CCAAAGTCCACAACTCAGTGGC-ATCT-T
1 TCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCCAAAGTCCACAACTCAGTGGCAATCTCT
992551 TCCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATC
66 T-CTT-AAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATC
* * * * * * *
992611 TCTTCCCAAAGTCCACGACTCTATGGCACCTTTTTTTTTCAAAGTCCACAACTCCGTGGC-A-CC
1 TCTTCCCAAAGTCCACGACTCAATGGCA--TCTCTTCTCCAAAGTCCACAACTCAGTGGCAATCT
* *
992674 CTT-TT-AAGTCCACAACTCTGTGGCAT
64 CTTCTTAAAGTCCACGACTCAGTGGCAT
992700 TTTTTTCCTT
Statistics
Matches: 190, Mismatches: 14, Indels: 16
0.86 0.06 0.07
Matches are distributed among these distances:
119 2 0.01
120 9 0.05
121 58 0.31
122 91 0.48
123 2 0.01
124 5 0.03
125 23 0.12
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (122 bp):
TCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCCAAAGTCCACAACTCAGTGGCAATCTCT
TCTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATC
Found at i:992638 original size:30 final size:30
Alignment explanation
Indices: 992367--992631 Score: 397
Period size: 30 Copynumber: 8.7 Consensus size: 30
992357 TTCAAATCTT
*
992367 TCTTCTCAAAGTCCACGACTCAGTGGCATT
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
* *
992397 TTTTCTTCAAAGTCCACAACTCAGTGGCAATC
1 TCTTC-TCAAAGTCCACGACTCAGTGGC-ATC
*
992429 TCTTCTTAAAGTCCACGACTCAGTGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
992459 TCTTCTCAAAGTCCACGACTCAGTGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
* *
992489 TCTTCCCAAAGTCCACGACTCAATGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
* *
992519 TCTTCCCAAAGTCCACAACTCAGTGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
992549 T-TTCCTTCAAAGTCCACGACTCAGTGGCAATC
1 TCTT-C-TCAAAGTCCACGACTCAGTGGC-ATC
992581 TCTTCTCAAAGTCCACGACTCAGTGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATC
*
992611 TCTTCCCAAAGTCCACGACTC
1 TCTTCTCAAAGTCCACGACTC
992632 TATGGCACCT
Statistics
Matches: 215, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
29 2 0.01
30 117 0.54
31 83 0.39
32 11 0.05
33 2 0.01
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (30 bp):
TCTTCTCAAAGTCCACGACTCAGTGGCATC
Found at i:992683 original size:152 final size:151
Alignment explanation
Indices: 992368--992731 Score: 455
Period size: 152 Copynumber: 2.4 Consensus size: 151
992358 TCAAATCTTT
* *
992368 CTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACAACTCAGTGGCAATCTCTT
1 CTTC-CAAAGTCCACAACTCAGTGGCATTTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTT
* *
992433 CTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
65 CTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
* *
992498 AGTCCACGACTCAATGGCATCT
130 AGTCCACAACTCAATGGCATCC
* *
992520 CTTCCCAAAGTCCACAACTCAGTGGCATCTTTCCTTCAAAGTCCACGACTCAGTGGCAATCTCTT
1 CTT-CCAAAGTCCACAACTCAGTGGCATTTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTT
* * *
992585 CTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCTA-TGGCACCTTTTTTTT
65 CTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTC-AGTGGCA---TCTCTTC
* **
992649 TCAAAGTCCACAACTCCGTGGCA-CC
126 CCAAAGTCCACAACTCAATGGCATCC
** * ** *
992674 CTT-TTAAGTCCACAACTCTGTGGCATTTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CTTCCAAAGTCCACAACTCAGTGGCA--TTTTTCCTTCAAAGTCCACAACTCAGTGGCA
992732 CTTTTTCTTT
Statistics
Matches: 183, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
152 128 0.70
153 2 0.01
154 30 0.16
155 23 0.13
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (151 bp):
CTTCCAAAGTCCACAACTCAGTGGCATTTTTCCTTCAAAGTCCACAACTCAGTGGCAATCTCTTC
TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAA
GTCCACAACTCAATGGCATCC
Found at i:992698 original size:60 final size:58
Alignment explanation
Indices: 992619--993512 Score: 542
Period size: 60 Copynumber: 14.0 Consensus size: 58
992609 TCTCTTCCCA
* *
992619 AAGTCCACGACTCTATGGCACCTTTTTTTTTCAAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTTTTT--AAGTCCACAACTCCGTGGCACCCTTTT
** *
992679 AAGTCCACAACTCTGTGGCATTTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT--TTTTAAGTCCACAACTCCGTGGCAC-----CCTTTT
* * * *
992744 AAGTCCACGACTCCGTGGCAAACTTTTTCCCTTTTAAG-CCTACACCTCCGTGGCATCCCTTTTT
1 AAGTCCACAACTCTGTGGC-ACCTTTTT---TTTTAAGTCC-ACAACTCCGTGGCA---C-----
992808 CCTTTT
53 CCTTTT
* * * * *
992814 AAGT-CATAACTCCGTGGCACCTTGTTCCTTTTATGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCTT-TT-TTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
992873 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACC-TTTT-TTTTTAAGTCCACAACTCCGTGGCACCCTTTT
**
992933 AAGTCCACAACTCTGTGGCATTTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT--TTTTAAGTCCACAACTCCGTGGCA-C-----CCTTT
992998 T
58 T
* * * *
992999 AAGTCCACAACTCCGTGGCACCTTTTTTCCCTTTTAAGCCCACACCTCTGTGGCATCCATTTTTC
1 AAGTCCACAACTCTGTGGCACC-TTTTT---TTTTAAGTCCACAACTCCGTGGCA--C------C
993064 CTTTT
54 CTTTT
* * *
993069 AAGTCCACAACTCTATGGCACGCTTTTTCCTTTTAAGTCTACAACTCCATGGCACCTTTTCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTT--TTTTAAGTCCACAACTCCGTGGCACC----C-TTT
993134 T
58 T
* * *
993135 AAGTCCACGACT-TCGTGGCACCCTTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTT
1 AAGTCCACAACTCT-GTGGCA-CCTTTTT---TTTTAAGTCCACAACTCCGTGGCA---C-----
993199 CCTTTT
53 CCTTTT
*
993205 AAGTCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCTT-TT-TTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * *
993265 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCATTTC
1 AAGTCCACAACTCTGTGGCAC-CTTTTT--TTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
993326 AAGTCCACAACACCGTGGCACC----CTTTTAAGTCCACAACTCCGTGGTATCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTT
* *
993386 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTT-TT-TTTTTAAGTCCACAACTCCGTGGCACC----C-TTTT
* * * *
993451 AAGTCCACGACTCTGTAGCACCTTTTTCCCTTTTAAGTCCACACCTCCATGGCATCCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT---TTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
993513 TCCTTTAAGT
Statistics
Matches: 689, Mismatches: 71, Indels: 146
0.76 0.08 0.16
Matches are distributed among these distances:
54 22 0.03
55 1 0.00
58 1 0.00
59 14 0.02
60 189 0.27
61 54 0.08
62 8 0.01
63 1 0.00
64 3 0.00
65 51 0.07
66 105 0.15
67 71 0.10
68 50 0.07
69 41 0.06
70 73 0.11
71 4 0.01
75 1 0.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (58 bp):
AAGTCCACAACTCTGTGGCACCTTTTTTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:992711 original size:33 final size:33
Alignment explanation
Indices: 992527--993527 Score: 783
Period size: 33 Copynumber: 31.3 Consensus size: 33
992517 TCTCTTCCCA
* **
992527 AAGTCCACAACTCAGTGGCATC--TTTCCTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * **
992558 AAGTCCACGACTCAGTGGCAATC-TCTT-C-TCA
1 AAGTCCACAACTCCGTGGC-ATCTTTTTCCTTTT
* * * **
992589 AAGTCCACGACTCAGTGGCATC-TCTTCC--CA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** *
992619 AAGTCCACGACTCTATGGCACCTTTTT--TTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
992650 CAAAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 --AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
992679 AAGTCCACAACTCTGTGGCATTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
992712 AAGTCCACAACTCCGTGGCA-CTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
992744 AAGTCCACGACTCCGTGGCAAACTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGC-ATCTTTTT-CCTTTT
*
992779 AAG-CCTACACCTCCGTGGCATCCCTTTTTCCTTTT
1 AAGTCC-ACAACTCCGTGGCAT--CTTTTTCCTTTT
* * *
992814 AAGT-CATAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
992846 ATGTCCACAACTTCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
992873 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
992906 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
992933 AAGTCCACAACTCTGTGGCATTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
992966 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
992999 AAGTCCACAACTCCGTGGCACCTTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATC-TTTTT-CCTTTT
* * *
993034 AAGCCCACACCTCTGTGGCATCCATTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCAT-C-TTTTTCCTTTT
** *
993069 AAGTCCACAACTCTATGGCACGCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * * *
993103 AAGTCTACAACTCCATGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
993135 AAGTCCACGACTTCGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTT-CCTTTT
* *
993170 AAGCCCACACCTCCGTGGCATCCCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
* * * *
993205 AAGTCCACAACTCTGTGGCACCTTGTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
993238 AAGTCCACAACTCTGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
993265 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * *
993299 AAGTCCACAACTCTGTGGCA-C-----CATTTC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
993326 AAGTCCACAACACCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
993353 AAGTCCACAACTCCGTGGTATCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
993386 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
993419 AAGTCCACAACTCCGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * *
993451 AAGTCCACGACTCTGTAGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT-CCTTTT
* *
993485 AAGTCCACACCTCCATGGCATCCCTTTTTCC-TTT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
993519 AAGTCCACA
1 AAGTCCACA
993528 TTTTCGTGGA
Statistics
Matches: 807, Mismatches: 101, Indels: 121
0.78 0.10 0.12
Matches are distributed among these distances:
27 135 0.17
28 2 0.00
29 5 0.01
30 28 0.03
31 44 0.05
32 103 0.13
33 228 0.28
34 116 0.14
35 122 0.15
36 24 0.03
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:993621 original size:51 final size:48
Alignment explanation
Indices: 993540--993957 Score: 239
Period size: 49 Copynumber: 8.9 Consensus size: 48
993530 TTCGTGGAAC
* *
993540 CTTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACCTT-T
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
*
993587 ACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 --C-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * *
993639 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * * *
993681 C---AAG-CCTAATGTCGTTGGCCTTGAATCAGCACAATGGCA-C--G-
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* *
993722 -----AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
* * * * ** * * * **
993766 CTTAAAGACCGATGTCATTGGCCTTGAATCAGCACATCGGTACCTCAACCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT----TGT
* * * *
993818 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAGTGGCACTTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTGT
* * * * * * *
993867 CTTCAAGTCTAATGTTG-TCGGCCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTT-GT
* * *
993916 CTTTAAGTCCGATATCGTTGGCCTTGAATCAACATATTGGCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
993958 TCTTTAACAT
Statistics
Matches: 296, Mismatches: 48, Indels: 50
0.75 0.12 0.13
Matches are distributed among these distances:
38 2 0.01
39 63 0.21
40 3 0.01
42 1 0.00
48 40 0.14
49 105 0.35
50 3 0.01
51 41 0.14
52 37 0.12
53 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (48 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
Found at i:993703 original size:39 final size:39
Alignment explanation
Indices: 993647--993759 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
993637 GTCTTTAAGA
993647 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * * *
993686 CTAATGTCGTTGGCCTTGAATCAGCACAATGGCACGAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* *
993725 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
993760 CTTTATCTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:993900 original size:101 final size:98
Alignment explanation
Indices: 993725--993962 Score: 287
Period size: 101 Copynumber: 2.4 Consensus size: 98
993715 TGGCACGAGC
* * *
993725 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTAAAGACCGATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTAAAGACCAATGTCATCGGCCT
*
993790 TGAATCAGCACATCGGTACCTCAACCATCTTTAAGT
66 TGAATCAGCACATCGG--CATC-ACCATCTTTAAGT
* * * * * **
993826 CCAATGTCGCTGGCCTTGAATCAGCATAGTGGCACTTTTATCTTCAAGTCTAATGTTGTCGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTAAAGACCAATGTCATCGGCCT
* **
993891 TGAATCAGCACATTGGCATCTTCATCTTTAAGT
66 TGAATCAGCACATCGGCATCACCATCTTTAAGT
* * *
993924 CCGATATCGTTGGCCTTGAATCAACATATTGGCATCTTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTT
993963 AACATTCCTA
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
98 40 0.34
99 7 0.06
101 70 0.60
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (98 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTAAAGACCAATGTCATCGGCCT
TGAATCAGCACATCGGCATCACCATCTTTAAGT
Found at i:993984 original size:98 final size:99
Alignment explanation
Indices: 993725--994015 Score: 245
Period size: 101 Copynumber: 2.9 Consensus size: 99
993715 TGGCACGAGC
* * * * * * *
993725 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTAAAGACC-GA-TGTCATTGGC
1 CCAATATCGCTGGCCTTGAATCAACATAGTGGCACTTTTAACTTCAAG-CCTAATTGTC-CTGGC
* * * **
993788 CTTGAATCAGCACATCGGTACCTCAACCATCTTTAAGT
64 CTTGAATCAGCACATTGGCA-TTC-TTCATCTTTAAGT
* * * *
993826 CCAATGTCGCTGGCCTTGAATCAGCATAGTGGCACTTTTATCTTCAAGTCTAATGTTGT-C-GGC
1 CCAATATCGCTGGCCTTGAATCAACATAGTGGCACTTTTAACTTCAAGCCTAA--TTGTCCTGGC
993889 CTTGAATCAGCACATTGGCA-TCTTCATCTTTAAGT
64 CTTGAATCAGCACATTGGCATTCTTCATCTTTAAGT
* * *
993924 CCGATATCGTTGGCCTTGAATCAACATATTGGCA-TCTTTAACATTCCTAAGCCTAA-TGTCGCT
1 CCAATATCGCTGGCCTTGAATCAACATAGTGGCACT-TTTAAC-TT-C-AAGCCTAATTGTC-CT
**
993987 GGCCTTGTCTCAGCACATTGGCATTCTTC
61 GGCCTTGAATCAGCACATTGGCATTCTTC
994016 TCCAATTCTG
Statistics
Matches: 158, Mismatches: 20, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
97 1 0.01
98 48 0.30
99 4 0.03
100 3 0.02
101 94 0.59
102 5 0.03
104 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (99 bp):
CCAATATCGCTGGCCTTGAATCAACATAGTGGCACTTTTAACTTCAAGCCTAATTGTCCTGGCCT
TGAATCAGCACATTGGCATTCTTCATCTTTAAGT
Found at i:994009 original size:150 final size:148
Alignment explanation
Indices: 993736--994062 Score: 345
Period size: 150 Copynumber: 2.2 Consensus size: 148
993726 CAATATCGCT
* * * * *
993736 GGCCTTGAATCAGCATATTGGCACCTTTATCTTAAAGACCGATGTCATTGGCCTTGAATCAGCAC
1 GGCCTTGAATCAGCACATTGGCATCTTCATCTTAAAGACCGATATCATTGGCCTTGAATCAACAC
* * * *
993801 ATCGGTACCTCAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAGTGGCACTTTTA
66 ATCGGCACCTCAACCATCTCTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAGTGGCA-TTCT-
* **
993866 TCTTCAAGTCTAATGTTGTC
129 TCTCCAAGTCTAATGTCATC
* * * *
993886 GGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAACAT
1 GGCCTTGAATCAGCACATTGGCATCTTCATCTTAAAGACCGATATCATTGGCCTTGAATCAACAC
* * * ** *
993951 ATTGGCATCTTTAA-CAT-TCCTAAG-CCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTC
66 ATCGGCA-CCTCAACCATCT-CTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACAGTGGCATTC
* * *
994013 TTCTCCAATTCTGATGTCATT
128 TTCTCCAAGTCTAATGTCATC
*
994034 GGCCTTGAATCAGCACATTGTCATTCTTC
1 GGCCTTGAATCAGCACATTGGCA-TCTTC
994063 GCATCTTCGA
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
148 36 0.24
149 11 0.07
150 96 0.65
151 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (148 bp):
GGCCTTGAATCAGCACATTGGCATCTTCATCTTAAAGACCGATATCATTGGCCTTGAATCAACAC
ATCGGCACCTCAACCATCTCTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAGTGGCATTCTTC
TCCAAGTCTAATGTCATC
Found at i:996979 original size:62 final size:60
Alignment explanation
Indices: 996644--997223 Score: 503
Period size: 62 Copynumber: 9.5 Consensus size: 60
996634 ACGTCGCGAC
* *** * *
996644 AAAGCCCACATGAGTTGGTGGCGTATTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTT
* * * * *
996705 AAA-CTACACACGAATTGGTGGCACCTTTTTGTCCT-ATAAGAGCAGGATGCCTTTT-TTTA
1 AAAGC-CCACACGAGTTGGTGGCACCTTTTAGTCCTCA-AAGAGCAGGACGCCTTTTCTTTT
* ** * * * *
996764 AAAGCTCACATAAGTTGGTGGCGCCTTTTAGTCCTCAGAA-AGTAAGACGCCTTTTTTGTTTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCA-AAGAGCAGGACGCC--TTTT-CTTTT
* * * * *
996827 AAAGCCCACACTAGTTGGTGGCACGTTTTGGTCTTTAAAGAG-AGAGACGCCTTTTCTTTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAG-GACGCCTTTTC-TTTT
* * * * * * *
996888 AAAGCCCACACAAGTTGGTGGTACTTTTTAATCCTCAAAAAACAGGACGTCTTTTCCTTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT
* *
996949 CAAAGCCTACACGAGTTTGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTT
1 -AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTT-CTTTT
* **
997012 GAAAGCCCACAAGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGTTAC-TTTTTTCTTTT
1 -AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG--ACGCCTTTTCTTTT
** *
997074 CAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACG--TTTT-TTTT
1 -AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT
* * * * * * *
997132 AAAGCTCACACGAGTTGGTGGCGCTTTTTTAGTCCTAAAAAAGCATGACACCTTTTTCTTTT
1 AAAGCCCACACGAGTTGGTGGCAC-CTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTT
* *
997194 AAAGCCCACATGAGTTGGTGACACCTTTTA
1 AAAGCCCACACGAGTTGGTGGCACCTTTTA
997224 AAGAGCAGGA
Statistics
Matches: 423, Mismatches: 73, Indels: 46
0.78 0.13 0.08
Matches are distributed among these distances:
57 20 0.05
58 24 0.06
59 42 0.10
60 12 0.03
61 106 0.25
62 120 0.28
63 97 0.23
65 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (60 bp):
AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT
Found at i:997392 original size:61 final size:60
Alignment explanation
Indices: 997312--997652 Score: 353
Period size: 61 Copynumber: 5.6 Consensus size: 60
997302 GGACGCCTCT
* *
997312 ACGAGTTGGTGGCGCCTTTTAGTCCTCAAAGAGCAGGATGTCTTTTTCTTTTAAAGCCTAC
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTAAAGCCTAC
* * * * * ** * *
997373 ATGAGTTAGTGGCATCTTTTTGTCCTCTAAGAGTAGGATGCCTTTTT-TTCAAAAGCCCAA
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTAAAGCCTAC
* * * *
997433 ACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGATGCCTTTT-TTTTAAAGCCTAC
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTAAAGCCTAC
* * * * *
997492 ACGAGTTGGTGACAACTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCTAC
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTC-TTTTAAAGCCTAC
* * * ** * ** *
997553 ACAAGTTATTGGCACTTTTTAGTCCTCAAAGAATATGACACTTTTTCCTTTTCAAAGCCCAC
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTT-CTTTT-AAAGCCTAC
*
997615 AGGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
1 ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
997653 CGCCTTAGTC
Statistics
Matches: 229, Mismatches: 47, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
59 55 0.24
60 43 0.19
61 91 0.40
62 40 0.17
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (60 bp):
ACGAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTAAAGCCTAC
Found at i:997661 original size:86 final size:86
Alignment explanation
Indices: 997571--997744 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 86
997561 TTGGCACTTT
* * ** * *
997571 TTAGTCCTCAAAGAATATGACACTTTTTCCTTTTCAAAGCCCACAGGAGTTAGTGGCACCTTTTA
1 TTAGTCCTCAAAGAACAGGACACCCTTTCCTTCTCAAAGCCCACAGGAGTTAGTGACACCTTTTA
*
997636 GTCCTCAAAGAGCAGGACGCC
66 GTCCTCAAAGAGCAGGACACC
* * ** * *
997657 TTAGTCCTCAAGGAGCAGGATGCCCTTTCCTTCTCAAAGCCCACATGAGTTGGTGACACCTTTTA
1 TTAGTCCTCAAAGAACAGGACACCCTTTCCTTCTCAAAGCCCACAGGAGTTAGTGACACCTTTTA
* *
997722 GTCTTCAAAGAGTAGGACACC
66 GTCCTCAAAGAGCAGGACACC
997743 TT
1 TT
997745 TTTCTTTTTA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (86 bp):
TTAGTCCTCAAAGAACAGGACACCCTTTCCTTCTCAAAGCCCACAGGAGTTAGTGACACCTTTTA
GTCCTCAAAGAGCAGGACACC
Found at i:997724 original size:148 final size:147
Alignment explanation
Indices: 997510--997806 Score: 362
Period size: 148 Copynumber: 2.0 Consensus size: 147
997500 GTGACAACTT
* * * * * * *
997510 TTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCTACACAAGTTATTGGCACTTTTTAG
1 TTAGTCCTCAAAGAGCAGGACGCCTTTCCTTCTCAAAGCCCACACAAGTTAGTGACACCTTTTAG
* **
997575 TCCTCAAAGAATATGACA-CTTTTTCCTTTTCAAAGCCCACAGGAGTTAGTGGCACCTTTTAGTC
66 TCCTCAAAGAATAGGACACCTTTTT-CTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTAGTC
997639 CTCAAAGAGCAGGACGCC
130 CTCAAAGAGCAGGACGCC
* * ** *
997657 TTAGTCCTCAAGGAGCAGGATGCCCTTTCCTTCTCAAAGCCCACATGAGTTGGTGACACCTTTTA
1 TTAGTCCTCAAAGAGCAGGACG-CCTTTCCTTCTCAAAGCCCACACAAGTTAGTGACACCTTTTA
* * * * * *
997722 GTCTTCAAAGAGTAGGACACCTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCATCTTTTAGTC
65 GTCCTCAAAGAATAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTAGTC
* *
997787 CTCAAAGAGCATGATGCC
130 CTCAAAGAGCAGGACGCC
997805 TT
1 TT
997807 TTTCTTTTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
147 20 0.16
148 99 0.79
149 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (147 bp):
TTAGTCCTCAAAGAGCAGGACGCCTTTCCTTCTCAAAGCCCACACAAGTTAGTGACACCTTTTAG
TCCTCAAAGAATAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCC
TCAAAGAGCAGGACGCC
Found at i:997933 original size:122 final size:123
Alignment explanation
Indices: 997692--998036 Score: 414
Period size: 122 Copynumber: 2.8 Consensus size: 123
997682 TTTCCTTCTC
* * *
997692 AAAGCCCACATGAGTTGGTGACACCTTTTAGTCTTCAAAGAGTAGGACACCTTTTTCTTTTTAAA
1 AAAGCCCATACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGTAGGACACCTTTTTCTTTTTAAA
* * * * * ** *
997757 GCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTT
66 GCCCACACAAGTTGATGGCACCTTTTAGCCCTCAAAGAGCAAGACACATTTTTC-TTTT
* *
997816 AAAG-CCATACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAGGTCATCTTTTTC-TTTTAA
1 AAAGCCCATACGAGTTGGTGGCACCTTTTAGT-CTTCAAAGAGTAGGACACCTTTTTCTTTTTAA
* *
997878 AGCCCACACGAGTTGATGGCACCTTTTAGCCCTTAAAGAGCAAGACACATTTTTCTTTT
65 AGCCCACACAAGTTGATGGCACCTTTTAGCCCTCAAAGAGCAAGACACATTTTTCTTTT
* * * *
997937 AAAGCCCATAC-AGGTTGGTGGCACCTTTTAGTTTTCAAAGAGCA--AAACGCTTTATCTTTTTA
1 AAAGCCCATACGA-GTTGGTGGCACCTTTTAGTCTTCAAAGAGTAGGACAC-CTTTTTCTTTTTA
* * *
997999 AAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
64 AAGCCCACACAAGTTGATGGCACCTTTTAGCCCTCAAA
998037 AAGTAGGACG
Statistics
Matches: 189, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
120 1 0.01
121 17 0.09
122 121 0.64
123 43 0.23
124 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (123 bp):
AAAGCCCATACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGTAGGACACCTTTTTCTTTTTAAA
GCCCACACAAGTTGATGGCACCTTTTAGCCCTCAAAGAGCAAGACACATTTTTCTTTT
Found at i:998016 original size:183 final size:184
Alignment explanation
Indices: 997692--998043 Score: 476
Period size: 183 Copynumber: 1.9 Consensus size: 184
997682 TTTCCTTCTC
* * * * * *
997692 AAAGCCCACATGAGTTGGTGACACCTTTTAGTCTTCAAAGAGTAGGACACCTTTTTCTTTTTAAA
1 AAAGCCCACACGAGTTGATGACACCTTTTAGCCTTCAAAGAGCAAGACACATTTTTCTTTTTAAA
* * ** * *
997757 GCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTTAAAGCC
66 GCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAAACGCCTTTATCTTTTTAAAGCC
* * * *
997822 ATACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGTCATCTTTTTCTTTT
131 ACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGTCATCTTTTTCTTTT
*
997876 AAAGCCCACACGAGTTGATGGCACCTTTTAGCCCTT-AAAGAGCAAGACACATTTTTC-TTTTAA
1 AAAGCCCACACGAGTTGATGACACCTTTTAG-CCTTCAAAGAGCAAGACACATTTTTCTTTTTAA
* * **
997939 AGCCCATACAGGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAAAACG-CTTTATCTTTTTAAAGC
65 AGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAAACGCCTTTATCTTTTTAAAGC
998003 CTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGG
130 C-ACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGG
998044 ACGCATTTCC
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
182 17 0.12
183 79 0.54
184 46 0.32
185 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (184 bp):
AAAGCCCACACGAGTTGATGACACCTTTTAGCCTTCAAAGAGCAAGACACATTTTTCTTTTTAAA
GCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAAACGCCTTTATCTTTTTAAAGCC
ACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGTCATCTTTTTCTTTT
Found at i:998036 original size:61 final size:61
Alignment explanation
Indices: 997692--998036 Score: 363
Period size: 61 Copynumber: 5.6 Consensus size: 61
997682 TTTCCTTCTC
** * * * * *
997692 AAAGCCCACATGAGTTGGTGACACCTTTTAGTCTTCAAAGAGTAGGACACCTTTTTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAC-GCTTTTTCTTTTT
* * * *
997754 AAAGCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACG-CTTTTTCTTTTT
* * * * * * *
997816 AAAG-CCATACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGTCATCTTTTTC-TTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAC-GCTTTTTCTTTTT
* * * * *
997876 AAAGCCCACACGAGTTGATGGCACCTTTTAGCCCTTAAAGAGCAAGACACATTTTTC-TTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGC-TTTTTCTTTTT
* * ** * *
997937 AAAGCCCATACAGGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAAAACGCTTTATCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTT
*
997998 AAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
998037 AAGTAGGACG
Statistics
Matches: 235, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
60 14 0.06
61 166 0.71
62 55 0.23
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTT
Found at i:1001520 original size:79 final size:78
Alignment explanation
Indices: 1001422--1001810 Score: 404
Period size: 79 Copynumber: 4.9 Consensus size: 78
1001412 CCCTGTTATT
* * * *
1001422 TTCTAAGGGATACTCCAACCCTATTTTTATTTTAAAAATATTAAATTTTTTGTCTTGGGGATACT
1 TTCTGAGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAATTTTTTATCTTGGGGATACT
*
1001487 CCAACCCCATCGA
66 CCAACCCCATCAA
** * * * * *
1001500 TTCTGAGCCACTACTTCAACCCCGTTTTTATTTCAAAAATATTAAAATTTTTATCTCGGGAATAC
1 TTCTGAGGGA-TACTCCAACCCCATTTTTATTTCAAAAATATTAAATTTTTTATCTTGGGGATAC
1001565 TCCAACCCCATCAA
65 TCCAACCCCATCAA
* * * * * *
1001579 TTCTGAGGGGATACTCCAATCCCATTTTTATTTCCAAAATATTAAATTCTTCATCATGGAGATAC
1 TTCTGA-GGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAATTTTTTATCTTGGGGATAC
** * *
1001644 TCCAACCCTGTTAT
65 TCCAACCCCATCAA
* * * * * *
1001658 TTTTTAGGAGATACTCTC-ACCCCATTTTTA-TTCTTAAAATATTAAAATTTTCACCTTGGGGAT
1 TTCTGAGG-GATACTC-CAACCCCATTTTTATTTC-AAAAATATTAAATTTTTTATCTTGGGGAT
*
1001721 ACTCCTACCCCATCAA
63 ACTCCAACCCCATCAA
* * * *
1001737 TTCTGAAGGGATACTCCAACCCCATTTTTATTTCCAAAATATAAAATTCTTTATCGTGGGGATAC
1 TTCTG-AGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAATTTTTTATCTTGGGGATAC
*
1001802 TCTAACCCC
65 TCCAACCCC
1001811 GTTTTTATTT
Statistics
Matches: 249, Mismatches: 54, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
78 13 0.05
79 227 0.91
80 9 0.04
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (78 bp):
TTCTGAGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAATTTTTTATCTTGGGGATACT
CCAACCCCATCAA
Found at i:1001834 original size:130 final size:130
Alignment explanation
Indices: 1001664--1001939 Score: 315
Period size: 130 Copynumber: 2.1 Consensus size: 130
1001654 TTATTTTTTA
* * * *
1001664 GGAGATACTCTCACCCCATTTTTATTCTTAAAATATTAAAATTTTCACCTTGGGGATACTCCTAC
1 GGAGATACTCTAACCCCATTTTTATTCTTAAAATAGTAAAATTTTCACCTCGGGGATACTCCAAC
* *
1001729 CCCATCAATTCT-GAAGGGATACTCCAACCCCATTTTTATTTCCAAAATA-TAAAATTCTTTATC
66 CCCAT-AATTCTCGAAGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAAATT-TTCATC
1001792 GT
129 GT
* * * *
1001794 GGGGATACTCTAACCCCGTTTTTATT-TTCAAAATAGTAAAATTTTCATCTCGGTGATACTCCAA
1 GGAGATACTCTAACCCCATTTTTATTCTT-AAAATAGTAAAATTTTCACCTCGGGGATACTCCAA
* * * * * * *** *
1001858 CCTCGTTATTGTCGAGGGGATACTCTAACCTTGTTTTTATTTCAAAAATATTAAAATTTTCATCT
65 CCCCATAATTCTCGAAGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAAATTTTCATCG
1001923 T
130 T
*
1001924 GGAGATACTCAAACCC
1 GGAGATACTCTAACCC
1001940 TGTATTCTGA
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 6 0.05
130 108 0.89
131 7 0.06
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (130 bp):
GGAGATACTCTAACCCCATTTTTATTCTTAAAATAGTAAAATTTTCACCTCGGGGATACTCCAAC
CCCATAATTCTCGAAGGGATACTCCAACCCCATTTTTATTTCAAAAATATTAAAATTTTCATCGT
Found at i:1001852 original size:51 final size:51
Alignment explanation
Indices: 1001744--1001864 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
1001734 CAATTCTGAA
* *
1001744 GGGATACTCCAACCCCATTTTTATTTCCAAAATATAAAATTCTTTATCGTG
1 GGGATACTCCAACCCCGTTTTTATTTCCAAAATATAAAATTCTTCATCGTG
* *
1001795 GGGATACTCTAACCCCGTTTTTATTTTCAAAATAGTAAAATT-TTCATC-TCG
1 GGGATACTCCAACCCCGTTTTTATTTCCAAAATA-TAAAATTCTTCATCGT-G
* *
1001846 GTGATACTCCAACCTCGTT
1 GGGATACTCCAACCCCGTT
1001865 ATTGTCGAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 53 0.87
52 7 0.11
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (51 bp):
GGGATACTCCAACCCCGTTTTTATTTCCAAAATATAAAATTCTTCATCGTG
Found at i:1001974 original size:79 final size:79
Alignment explanation
Indices: 1001811--1001967 Score: 196
Period size: 79 Copynumber: 2.0 Consensus size: 79
1001801 CTCTAACCCC
* * *
1001811 GTTTTTATTTTCAAAATAGTAAAATTTTCATCTCGGTGATACTCCAACCTCGTTATTGTCGAGGG
1 GTTTTTATTTTCAAAATAGTAAAATTTTCATCTCGGAGATACTCAAACCTCGTTATTCTCGAGGG
* * *
1001876 GATACTCTAACCTT
66 AACACTCCAACCTT
* *
1001890 GTTTTTA-TTTCAAAAATATTAAAATTTTCATCTTGGAGATACTCAAACC-C-TGTATTCT-GAG
1 GTTTTTATTTTC-AAAATAGTAAAATTTTCATCTCGGAGATACTCAAACCTCGT-TATTCTCGAG
1001951 GGAACACTCCAACCTT
64 GGAACACTCCAACCTT
1001967 G
1 G
1001968 CCTTTTTTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
77 18 0.26
78 10 0.15
79 40 0.59
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (79 bp):
GTTTTTATTTTCAAAATAGTAAAATTTTCATCTCGGAGATACTCAAACCTCGTTATTCTCGAGGG
AACACTCCAACCTT
Found at i:1003495 original size:15 final size:15
Alignment explanation
Indices: 1003475--1003512 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1003465 TTATCATTTA
1003475 TTTTTTCTTTCTCTCT
1 TTTTTTCTTT-TCTCT
1003491 TTTTTTCTTTTCT-T
1 TTTTTTCTTTTCTCT
1003505 TTTTTTCT
1 TTTTTTCT
1003513 CTTTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 10 0.45
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTCTCT
Found at i:1003515 original size:16 final size:16
Alignment explanation
Indices: 1003475--1003517 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1003465 TTATCATTTA
*
1003475 TTTTTTCT-TTCTCTC
1 TTTTTTCTCTTTTCTC
*
1003490 TTTTTT-TCTTTTCTT
1 TTTTTTCTCTTTTCTC
1003505 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
1003518 TTTCCTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCTCTTTTCTC
Found at i:1003532 original size:24 final size:24
Alignment explanation
Indices: 1003486--1003534 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1003476 TTTTTCTTTC
* *
1003486 TCTCTTTTTTTCTTTTCTTTTTTT
1 TCTCTTTTTTTCTCTTCTGTTTTT
1003510 TCTCTTTTTTTC-CTTCTAGTTTTT
1 TCTCTTTTTTTCTCTTCT-GTTTTT
1003534 T
1 T
1003535 TTAGCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (24 bp):
TCTCTTTTTTTCTCTTCTGTTTTT
Found at i:1003532 original size:26 final size:26
Alignment explanation
Indices: 1003471--1003536 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
1003461 GAAGTTATCA
* *
1003471 TTTATTTTTTCTTTCTCTCTTTTTTTC
1 TTTACTTTTT-TTTCTCTCTTTTTTCC
*
1003498 TTTTCTTTTTTTTCTCT-TTTTTTCC
1 TTTACTTTTTTTTCTCTCTTTTTTCC
*
1003523 TTCTAGTTTTTTTT
1 TT-TACTTTTTTTT
1003537 AGCTAAAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 9 0.27
26 16 0.48
27 8 0.24
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTACTTTTTTTTCTCTCTTTTTTCC
Found at i:1004585 original size:30 final size:30
Alignment explanation
Indices: 1004551--1004610 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1004541 CCTACAATTA
*
1004551 TGTGATAGATATTCATATTAATTTGTATTT
1 TGTGATAGATATTCATATTAATTTATATTT
*
1004581 TGTGATTGATATTCATATTAATTTATATTT
1 TGTGATAGATATTCATATTAATTTATATTT
1004611 GATGGGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (30 bp):
TGTGATAGATATTCATATTAATTTATATTT
Found at i:1005173 original size:14 final size:15
Alignment explanation
Indices: 1005143--1005173 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1005133 ACCTTTGTAA
1005143 TGTTTATATATGCAT
1 TGTTTATATATGCAT
1005158 TGTTTATATA-GCAT
1 TGTTTATATATGCAT
1005172 TG
1 TG
1005174 CTATATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (15 bp):
TGTTTATATATGCAT
Found at i:1005429 original size:53 final size:53
Alignment explanation
Indices: 1005344--1005449 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
1005334 TTCAGTTTTG
* * * * *
1005344 GAGTTGATTTTGTAATTTGTACATATTGTTATAATTATATGTACATATAGTTA
1 GAGTTGAATTTGTAATTTATACATACTATTATAATGATATGTACATATAGTTA
*
1005397 GAGTTGAATTTGTAGTTTATACATACTATTATAATGATATGTACATATAGTTA
1 GAGTTGAATTTGTAATTTATACATACTATTATAATGATATGTACATATAGTTA
1005450 TGCTGATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (53 bp):
GAGTTGAATTTGTAATTTATACATACTATTATAATGATATGTACATATAGTTA
Found at i:1005441 original size:22 final size:22
Alignment explanation
Indices: 1005416--1005495 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
1005406 TTGTAGTTTA
1005416 TACATACTATTATAATGATATG
1 TACATACTATTATAATGATATG
**
1005438 TACATA-TAGTTATGCTGATATG
1 TACATACTA-TTATAATGATATG
* ** * *
1005460 TACATACTAATATCGTAATATA
1 TACATACTATTATAATGATATG
1005482 TACATACTATTATA
1 TACATACTATTATA
1005496 GTAATTATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.04
22 43 0.91
23 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
TACATACTATTATAATGATATG
Found at i:1005539 original size:21 final size:21
Alignment explanation
Indices: 1005515--1005588 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
1005505 TGTGAAGTGA
* *
1005515 TTAGTTTTCTTTTTAAAGGGG
1 TTAGTTTTCTTTGTAAAGAGG
1005536 TTAGTTCTT-TTTGTAAAGAGG
1 TTAGTT-TTCTTTGTAAAGAGG
* *
1005557 TTAGTTATCTTAGTGAAAG-GG
1 TTAGTTTTCTTTGT-AAAGAGG
*
1005578 TTGGTTTTCTT
1 TTAGTTTTCTT
1005589 AGTTATTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 37 0.84
22 6 0.14
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.50
Consensus pattern (21 bp):
TTAGTTTTCTTTGTAAAGAGG
Found at i:1005756 original size:21 final size:20
Alignment explanation
Indices: 1005730--1005787 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
1005720 TAAAAGGATT
1005730 GGTTCTCTTTATGAA-ATGGTA
1 GGTTCT-TTTATGAAGA-GGTA
*
1005751 GGTTCTTTTTATGAAGAGGTT
1 GGTTC-TTTTATGAAGAGGTA
1005772 GGTTCTTTTAATGAAG
1 GGTTCTTTT-ATGAAG
1005788 GTATTGGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.45
Consensus pattern (20 bp):
GGTTCTTTTATGAAGAGGTA
Found at i:1005794 original size:21 final size:19
Alignment explanation
Indices: 1005723--1005796 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 19
1005713 CCTTCAATAA
1005723 AAGGATTGGTTCTCTTTATG
1 AAGGATTGGTTCT-TTTATG
*
1005743 AAATGG-TAGGTTCTTTTTATG
1 -AA-GGATTGGTTC-TTTTATG
*
1005764 AAGAGGTTGGTTCTTTTAATG
1 AAG-GATTGGTTCTTTT-ATG
1005785 AAGGTATTGGTT
1 AAGG-ATTGGTT
1005797 ATCTTAGTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 1 0.02
20 8 0.18
21 32 0.73
22 3 0.07
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.45
Consensus pattern (19 bp):
AAGGATTGGTTCTTTTATG
Found at i:1005939 original size:2 final size:2
Alignment explanation
Indices: 1005934--1005960 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1005924 AGTATTGCTC
1005934 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1005961 GTTATGCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1006401 original size:21 final size:23
Alignment explanation
Indices: 1006377--1006419 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
1006367 AGACAAATTT
*
1006377 AAATGATTTT-CAAGTT-AAGAA
1 AAATCATTTTACAAGTTCAAGAA
*
1006398 AAATCTTTTTACAAGTTCAAGA
1 AAATCATTTTACAAGTTCAAGA
1006420 TTAACTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 6 0.33
23 4 0.22
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (23 bp):
AAATCATTTTACAAGTTCAAGAA
Found at i:1008693 original size:20 final size:20
Alignment explanation
Indices: 1008670--1008746 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1008660 AAGTACCCAG
*
1008670 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
1008690 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
1008710 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
1008730 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
1008747 ATCTTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1016702 original size:54 final size:54
Alignment explanation
Indices: 1016620--1016729 Score: 204
Period size: 54 Copynumber: 2.0 Consensus size: 54
1016610 CATGTCATAT
1016620 TCTCACTCTATCACCATTACCCCTCAGCCAATTTATGCCACATCTTACAACCCA
1 TCTCACTCTATCACCATTACCCCTCAGCCAATTTATGCCACATCTTACAACCCA
1016674 TCTCACTCTATCACCA-TACCCCCTCAGCCAATTTATGCCACATCTTACAACCCA
1 TCTCACTCTATCACCATTA-CCCCTCAGCCAATTTATGCCACATCTTACAACCCA
1016728 TC
1 TC
1016730 ATTTGCTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 2 0.04
54 53 0.96
ACGTcount: A:0.27, C:0.42, G:0.04, T:0.27
Consensus pattern (54 bp):
TCTCACTCTATCACCATTACCCCTCAGCCAATTTATGCCACATCTTACAACCCA
Found at i:1022778 original size:12 final size:12
Alignment explanation
Indices: 1022763--1022817 Score: 65
Period size: 13 Copynumber: 4.3 Consensus size: 12
1022753 CTAAAAGAAC
1022763 AAAAAAAACAAA
1 AAAAAAAACAAA
1022775 AAAACAAAACAAA
1 AAAA-AAAACAAA
*
1022788 AAAAAAACCAAGA
1 AAAAAAAACAA-A
*
1022801 AAAAAATAGCAAA
1 AAAAAA-AACAAA
1022814 AAAA
1 AAAA
1022818 CAGAAAGGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
12 10 0.26
13 24 0.63
14 4 0.11
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:1022780 original size:17 final size:16
Alignment explanation
Indices: 1022755--1022806 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
1022745 CTTTACACCT
*
1022755 AAAAGAACAAAAAAAA
1 AAAAAAACAAAAAAAA
1022771 CAAAAAAACAAAACAAAA
1 -AAAAAAACAAAA-AAAA
*
1022789 AAAAAACCAAGAAAAAA
1 AAAAAAACAA-AAAAAA
1022806 A
1 A
1022807 TAGCAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 25 0.81
18 6 0.19
ACGTcount: A:0.85, C:0.12, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAA
Found at i:1022783 original size:25 final size:24
Alignment explanation
Indices: 1022755--1022817 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
1022745 CTTTACACCT
*
1022755 AAAAGAACAAAAAAAACAAAAAAA
1 AAAACAACAAAAAAAACAAAAAAA
* *
1022779 CAAAACAA-AAAAAAAACCAAGAAA
1 -AAAACAACAAAAAAAACAAAAAAA
* *
1022803 AAAATAGCAAAAAAA
1 AAAACAACAAAAAAA
1022818 CAGAAAGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 5 0.16
24 21 0.66
25 6 0.19
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.02
Consensus pattern (24 bp):
AAAACAACAAAAAAAACAAAAAAA
Found at i:1022817 original size:14 final size:13
Alignment explanation
Indices: 1022763--1022817 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
1022753 CTAAAAGAAC
1022763 AAAAAAAA-CAAA
1 AAAAAAAACCAAA
1022775 AAAACAAAA-C-AA
1 AAAA-AAAACCAAA
1022787 AAAAAAAACCAAGA
1 AAAAAAAACCAA-A
* *
1022801 AAAAAATAGCAAA
1 AAAAAAAACCAAA
1022814 AAAA
1 AAAA
1022818 CAGAAAGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 4 0.11
12 11 0.30
13 11 0.30
14 11 0.30
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (13 bp):
AAAAAAAACCAAA
Found at i:1024118 original size:28 final size:29
Alignment explanation
Indices: 1024073--1024351 Score: 280
Period size: 28 Copynumber: 9.6 Consensus size: 29
1024063 TCTTTCAAAT
* * * *
1024073 CTCTCTTCATAGCCCACAAGTTAGTAGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1024102 -TCCTTTCAAAGCCCACAAGTCAGTGGTA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1024130 CTCGTTTCAAAGCCCATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1024159 C-CCTTTCAAAGCCTATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1024187 CTCTTTTCAATGCCCACAAGTTAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1024216 -TCCTTTCAAAGCCCATAAGTCAGTGACA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1024244 -ACTTTTCAAAGCCCACAAGTCAATGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1024272 CTTTTTTCAAAGCCCACAAG-CTAGTGGTAA
1 CTCTTTTCAAAGCCCACAAGTC-AGTGG-CA
* *
1024302 TTCTTTTCAAAGCCCACACGAGTCGGTGGCAA
1 CTCTTTTCAAAGCCCACA--AGTCAGTGGC-A
1024334 CTCTTTTCAAAGCCCACA
1 CTCTTTTCAAAGCCCACA
1024352 CAAATTAATA
Statistics
Matches: 206, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
28 95 0.46
29 69 0.33
30 17 0.08
32 24 0.12
33 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1024171 original size:57 final size:57
Alignment explanation
Indices: 1024073--1024351 Score: 276
Period size: 57 Copynumber: 4.8 Consensus size: 57
1024063 TCTTTCAAAT
* * * * *
1024073 CTCTCTTCATAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGTA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * * * *
1024130 CTCGTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCTATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * * *
1024187 CTCTTTTCAATGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGT-G-A
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * **
1024242 CAACTTTTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAAG-CTAGTGGTAA
1 C-TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGGT-A
* * *
1024302 TTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 CTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACA
1024352 CAAATTAATA
Statistics
Matches: 184, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
55 2 0.01
56 26 0.14
57 112 0.61
58 1 0.01
59 16 0.09
60 1 0.01
61 8 0.04
62 18 0.10
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (57 bp):
CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
Found at i:1024251 original size:85 final size:86
Alignment explanation
Indices: 1024078--1024351 Score: 282
Period size: 85 Copynumber: 3.2 Consensus size: 86
1024068 CAAATCTCTC
* * * * * * * *
1024078 TTCATAGCCCACAAGTTAGTAGCA-TCCTTTCAAAGCCCACAAGTCAGTGGTACTCGTTTCAAAG
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
* *
1024142 CCCATAAGTCAGTGGCACCCT
66 CCCATAAGTCAGTGACAACCT
* * * * *
1024163 TTCAAAGCCTATAAGTCAGTGGCACTCTTTTCAATGCCCACAAGTTAGTGGCA-TCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
*
1024227 CCCATAAGTCAGTGACAACTT
66 CCCATAAGTCAGTGACAACCT
* * * *
1024248 TTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAAGCTAGTGGTAATTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGG-AACTCCTTTCAAA
* * *
1024313 GCCCACACGAGTCGGTGGCAACTCTT
65 GCCCATA--AGTCAGTGACAAC-C-T
1024339 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1024352 CAAATTAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
85 92 0.59
86 25 0.16
87 15 0.10
89 11 0.07
91 14 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
CCCATAAGTCAGTGACAACCT
Found at i:1025260 original size:20 final size:20
Alignment explanation
Indices: 1025235--1025311 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
1025225 AAGTACCTAG
1025235 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
1025255 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
1025275 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
1025295 ATGTCTCGATACATTCT
1 ATGTATCGATACATTCT
1025312 GTCTTTTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1027634 original size:97 final size:97
Alignment explanation
Indices: 1027480--1027716 Score: 402
Period size: 97 Copynumber: 2.4 Consensus size: 97
1027470 TTATTTATCG
* * *
1027480 GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACGCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
*
1027545 AAATTTTATTCTCACTTAAATTATCATCATTA
66 AAATTTTATTCTCACTTAAATTATCATCAATA
*
1027577 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAATGCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
* *
1027642 AAATTTTATTCTCACTTAAATTGTCATCAATG
66 AAATTTTATTCTCACTTAAATTATCATCAATA
*
1027674 GGGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAACCCC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCC
1027717 GTTTTTCAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 132 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
AAATTTTATTCTCACTTAAATTATCATCAATA
Found at i:1032008 original size:15 final size:13
Alignment explanation
Indices: 1031967--1032005 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
1031957 CCAAAGTAAA
1031967 TATTTAATTATTT
1 TATTTAATTATTT
*
1031980 TATTTAAGCCTATTT
1 TATTTAA--TTATTT
1031995 TATTTAATTAT
1 TATTTAATTAT
1032006 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.45
15 12 0.55
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (13 bp):
TATTTAATTATTT
Found at i:1033940 original size:20 final size:20
Alignment explanation
Indices: 1033912--1033986 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1033902 TCATACCCTG
1033912 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1033932 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1033952 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1033972 ATGTATCGATACATT
1 ATGTATCGATACATT
1033987 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1033979 original size:40 final size:39
Alignment explanation
Indices: 1033912--1033989 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1033902 TCATACCCTG
* *
1033912 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1033952 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1033990 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1049439 original size:59 final size:57
Alignment explanation
Indices: 1049281--1049927 Score: 386
Period size: 59 Copynumber: 10.8 Consensus size: 57
1049271 GATGTTCATC
* * *
1049281 CCTTTCAAAGCCCATAACGTCAGTGGCACTCC-TTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCAACAA-GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049339 -TTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCATGTGGCACT
1 CCTTTC-AAAGCCAACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA-GTGGCACT
* *
1049397 CCTTTCAAAGCCTAAC-AGTTAGTGGC-CCCTTTTTCAAAGCCCACAAATCAGT-GCACTT
1 CCTTTCAAAGCC-AACAAGTCAGTGGCACCC--TTTCAAAGCCCACAAGTCAGTGGCAC-T
* * * * *
1049455 CTTTTTAAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCAACAAGTCATTGGCACT
1 C-CTTTCAAAGCCAACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1049514 CC-TTCAAAGGCCCAACAACTCCGTGGCACTCTTTCAAAGCCCACAACGTCAG-GGCAC-
1 CCTTTCAAA-G-CCAACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCACT
* * *
1049571 CCTTTCAAAGCCCCACAAGGTCAGTGGCAACTCCTTTCCAAGCCCACAAGCCAGTGGCACT
1 CCTTTCAAAG-CCAACAA-GTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
1049632 CTTTTCAGAGCCCACAAGTCGGTGGCAACCATTTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CCTTTCAAAGCCAACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* * * * * * *
1049693 CATTTCAAACCCCACCCAAGTCGGTGGCAACCCATTCCAAAGCCCACACATTCGGTGGCAACT
1 CCTTTCAAA-GCCA-ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACA-AGTCAGTGGC-ACT
* * * * *
1049756 CATTTC-AAGCCCACACAAGTCGGTGGAACCCATTTCAAACCCCACACAAGTCGGTGGCAAC-
1 CCTTTCAAAG-CCA-ACAAGTCAGTGGCACCC-TTTCAAA-GCC-CACAAGTCAGTGGC-ACT
* * * * *
1049817 CATTTCAAAACCCACACAAGTC-GT-GCAACCCATTCCAAGCCCACACAAGTCGGTGGCAAAC-
1 CCTTTC-AAAGCCA-ACAAGTCAGTGGC-ACCCTTTCAAAG-CC-CACAAGTCAGTGGC--ACT
* *
1049878 CCATTCCAAAGCCCACACAAGTCGGTGGCAAACCCATTTCAAAGCCCACA
1 CC-TTTCAAAG-CCA-ACAAGTCAGTGGC--ACCC-TTTCAAAGCCCACA
1049928 CAAGCGGTGG
Statistics
Matches: 485, Mismatches: 59, Indels: 84
0.77 0.09 0.13
Matches are distributed among these distances:
56 2 0.00
57 54 0.11
58 74 0.15
59 105 0.22
60 57 0.12
61 63 0.13
62 74 0.15
63 37 0.08
64 6 0.01
65 7 0.01
66 6 0.01
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (57 bp):
CCTTTCAAAGCCAACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1049516 original size:117 final size:116
Alignment explanation
Indices: 1049281--1049677 Score: 425
Period size: 117 Copynumber: 3.4 Consensus size: 116
1049271 GATGTTCATC
* * *
1049281 CCTTTCAAAGCCC-ATAACGTCAGTGGCACTCCTTCAAAGCCCACAAATCAGTGGCACT-TTTTC
1 CCTTTCAAAGCCCAACAAC-TCAGTGGCACTCTTTCAAAGCCCACAAATCAGT-GCACTCTTTTT
1049344 AAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCATGTGGCACT
64 AAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAT-TGGCACT
* * * * *
1049397 CCTTTCAAAGCCTAAC-AGTTAGTGGCCCCTTTTTCAAAGCCCACAAATCAGTGCACTTCTTTTT
1 CCTTTCAAAGCCCAACAACTCAGTGG-CACTCTTTCAAAGCCCACAAATCAGTGCAC-TCTTTTT
*
1049461 AAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCAACAAGTCATTGGCACT
64 AAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCATTGGCACT
* * * *
1049514 CC-TTCAAAGGCCCAACAACTCCGTGGCACTCTTTCAAAGCCCACAACGTCAGGGCAC-C-CTTT
1 CCTTTCAAA-GCCCAACAACTCAGTGGCACTCTTTCAAAGCCCACAA-ATCAGTGCACTCTTTTT
* * * *
1049576 CAAAGCCCCACAAGGTCAGTGGCAACTCCTTTCCAAGCCCACAAGCCAGTGGCACT
64 AAAAG-CCCACAA-GTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCATTGGCACT
* * * *
1049632 CTTTTCAGAGCCC-ACAAGTCGGTGGCAAC-CATTTTCAAAGCCCACA
1 CCTTTCAAAGCCCAACAACTCAGTGGC-ACTC--TTTCAAAGCCCACA
1049678 CAAGTCGGTG
Statistics
Matches: 239, Mismatches: 27, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
115 17 0.07
116 51 0.21
117 82 0.34
118 70 0.29
119 19 0.08
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (116 bp):
CCTTTCAAAGCCCAACAACTCAGTGGCACTCTTTCAAAGCCCACAAATCAGTGCACTCTTTTTAA
AAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCATTGGCACT
Found at i:1049620 original size:31 final size:29
Alignment explanation
Indices: 1049281--1049832 Score: 418
Period size: 29 Copynumber: 18.6 Consensus size: 29
1049271 GATGTTCATC
*
1049281 CCTTTCAAAGCCCATAACGTCAGTGGCACT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCACT
*
1049311 CC-TTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1049339 -TTTTCAAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTC-AAAGCCCACAAGTCAGTGGCACT
1049367 CCTTTCAAAGCCCACAAGTCATGTGGCACT
1 CCTTTCAAAGCCCACAAGTCA-GTGGCACT
* *
1049397 CCTTTCAAAGCCTA-ACAGTTAGTGGC-C-
1 CCTTTCAAAGCCCACA-AGTCAGTGGCACT
*
1049424 CCTTTTTCAAAGCCCACAAATCAGT-GCACTT
1 CC--TTTCAAAGCCCACAAGTCAGTGGCAC-T
* *
1049455 CTTTTTAAAAGCCCACAAGTCAGTGGCACT
1 C-CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049485 CCTTTCAAAGCCAACAAGTCATTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1049514 CC-TTCAAAGGCCCAACAACTCCGTGGCACT
1 CCTTTCAAA-GCCC-ACAAGTCAGTGGCACT
1049544 -CTTTCAAAGCCCACAACGTCAG-GGCAC-
1 CCTTTCAAAGCCCACAA-GTCAGTGGCACT
1049571 CCTTTCAAAGCCCCACAAGGTCAGTGGCAACT
1 CCTTTCAAAG-CCCACAA-GTCAGTGGC-ACT
* *
1049603 CCTTTCCAAGCCCACAAGCCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1049632 CTTTTCAGAGCCCACAAGTCGGTGGCAAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGC-ACT
* *
1049661 CATTTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 C-CTTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* * *
1049693 CATTTCAAACCCCACCCAAGTCGGTGGCAAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGC-ACT
* * *
1049724 CCATTCCAAAGCCCACACATTCGGTGGCAACT
1 CC-TTTCAAAGCCCACA-AGTCAGTGGC-ACT
* * *
1049756 CATTTC-AAGCCCACACAAGTCGGTGGAAC-
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* *
1049785 CCATTTCAAACCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAA-GCC-CACAAGTCAGTGGC-ACT
* *
1049817 CATTTCAAAACCCACA
1 CCTTTCAAAGCCCACA
1049833 CAAGTCGTGC
Statistics
Matches: 437, Mismatches: 47, Indels: 77
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.00
28 56 0.13
29 149 0.34
30 96 0.22
31 89 0.20
32 45 0.10
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.20
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1049944 original size:32 final size:32
Alignment explanation
Indices: 1049468--1050104 Score: 628
Period size: 31 Copynumber: 20.7 Consensus size: 32
1049458 TTTAAAAGCC
*
1049468 CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CCA
1 CACAAGTCGGTGGCAAC-CCATTTCAAAGCCCA
**
1049498 -ACAAGTCATTGGC-ACTCC--TTCAAAGGCCCA
1 CACAAGTCGGTGGCAAC-CCATTTCAAA-GCCCA
* * *
1049528 -ACAACTCCGTGGC-ACTC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1049557 CA-ACGTCAG-GGC-ACCC-TTTCAAAGCCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1049584 CACAAGGTCAGTGGCAACTCC-TTTCCAAG-CC-
1 CACAA-GTCGGTGGCAAC-CCATTTCAAAGCCCA
* * * * *
1049615 CACAAGCCAGTGGC-ACTCTTTTCAGAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1049644 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
1049676 CACAAGTCGGTGGCAA-CCATTTCAAACCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1049707 CCCAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1049739 CAC-ATTCGGTGGCAACTCATTTC-AAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1049769 CACAAGTCGGTGG-AACCCATTTCAAACCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1049800 CACAAGTCGGTGGCAA-CCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1049831 CACAAGTC-GT-GCAACCCA-TTCCAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1049860 CACAAGTCGGTGGCAAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
1049893 CACAAGTCGGTGGCAAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
*
1049926 CACAAG-CGGTGGCCAACCCATTTCAAATCCCCCA
1 CACAAGTCGGTGG-CAACCCATTTCAAA--GCCCA
*
1049960 CACAAG-CGGTGGCAACCTA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1049990 CACAAGTCGGGTGGCAACCCATTTCAAAACCC-
1 CACAAGTC-GGTGGCAACCCATTTCAAAGCCCA
*
1050022 CAC-AGTCGGT-GCAACCCATTCCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1050051 CACAAGTCGGTGGCAACTCATTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1050083 CACAAGTCGTTGGCAACCCATT
1 CACAAGTCGGTGGCAACCCATT
1050105 AAAANNNNNN
Statistics
Matches: 525, Mismatches: 49, Indels: 64
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.00
28 27 0.05
29 94 0.18
30 87 0.17
31 124 0.24
32 112 0.21
33 63 0.12
34 16 0.03
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1050814 original size:10 final size:10
Alignment explanation
Indices: 1050796--1050847 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 10
1050786 CTTTACACCT
*
1050796 AAAAGAACAA
1 AAAAAAACAA
1050806 AAAAAAACAAAA
1 AAAAAAAC--AA
1050818 AAACAAAACAA
1 AAA-AAAACAA
1050829 AAAAAAACCAA
1 AAAAAAA-CAA
1050840 GAAAAAAA
1 -AAAAAAA
1050848 TAGCAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 11 0.31
11 8 0.22
12 12 0.33
13 5 0.14
ACGTcount: A:0.85, C:0.12, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1050818 original size:11 final size:11
Alignment explanation
Indices: 1050804--1050858 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 11
1050794 CTAAAAGAAC
1050804 AAAAAAAAACAA
1 AAAAAAAAAC-A
1050816 AAAAACAAAACA
1 AAAAA-AAAACA
*
1050828 AAAAAAAACCA
1 AAAAAAAAACA
1050839 AGAAAAAAATAGCA
1 A-AAAAAAA-A-CA
1050853 AAAAAA
1 AAAAAA
1050859 CAGAAAGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 6 0.16
12 18 0.49
13 10 0.27
14 3 0.08
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1050820 original size:13 final size:13
Alignment explanation
Indices: 1050804--1050835 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1050794 CTAAAAGAAC
1050804 AAAAAAAAACAAA
1 AAAAAAAAACAAA
*
1050817 AAAACAAAACAAA
1 AAAAAAAAACAAA
1050830 AAAAAA
1 AAAAAA
1050836 CCAAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:1050827 original size:23 final size:25
Alignment explanation
Indices: 1050796--1050858 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
1050786 CTTTACACCT
*
1050796 AAAAGAACAAAAAAAAA-CAA-AAA
1 AAAATAACAAAAAAAAACCAAGAAA
1050819 AACAA-AACAAAAAAAAACCAAGAAA
1 AA-AATAACAAAAAAAAACCAAGAAA
*
1050844 AAAATAGCAAAAAAA
1 AAAATAACAAAAAAA
1050859 CAGAAAGGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 14 0.40
24 7 0.20
25 14 0.40
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.02
Consensus pattern (25 bp):
AAAATAACAAAAAAAAACCAAGAAA
Found at i:1052162 original size:28 final size:29
Alignment explanation
Indices: 1052117--1052395 Score: 280
Period size: 28 Copynumber: 9.6 Consensus size: 29
1052107 TCTTTCAAAT
* * * *
1052117 CTCTCTTCATAGCCCACAAGTTAGTAGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1052146 -TCCTTTCAAAGCCCACAAGTCAGTGGTA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1052174 CTCGTTTCAAAGCCCATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1052203 C-CCTTTCAAAGCCTATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1052231 CTCTTTTCAATGCCCACAAGTTAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1052260 -TCCTTTCAAAGCCCATAAGTCAGTGACA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1052288 -ACTTTTCAAAGCCCACAAGTCAATGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1052316 CTTTTTTCAAAGCCCACAAG-CTAGTGGTAA
1 CTCTTTTCAAAGCCCACAAGTC-AGTGG-CA
* *
1052346 TTCTTTTCAAAGCCCACACGAGTCGGTGGCAA
1 CTCTTTTCAAAGCCCACA--AGTCAGTGGC-A
1052378 CTCTTTTCAAAGCCCACA
1 CTCTTTTCAAAGCCCACA
1052396 CAAATTAATA
Statistics
Matches: 206, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
28 95 0.46
29 69 0.33
30 17 0.08
32 24 0.12
33 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1052215 original size:57 final size:57
Alignment explanation
Indices: 1052117--1052395 Score: 276
Period size: 57 Copynumber: 4.8 Consensus size: 57
1052107 TCTTTCAAAT
* * * * *
1052117 CTCTCTTCATAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGTA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * * * *
1052174 CTCGTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCTATAAGTCAGTGGCA
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * * *
1052231 CTCTTTTCAATGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGT-G-A
1 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
* * **
1052286 CAACTTTTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAAG-CTAGTGGTAA
1 C-TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGGT-A
* * *
1052346 TTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 CTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACA
1052396 CAAATTAATA
Statistics
Matches: 184, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
55 2 0.01
56 26 0.14
57 112 0.61
58 1 0.01
59 16 0.09
60 1 0.01
61 8 0.04
62 18 0.10
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (57 bp):
CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTA
Found at i:1052295 original size:85 final size:86
Alignment explanation
Indices: 1052122--1052395 Score: 282
Period size: 85 Copynumber: 3.2 Consensus size: 86
1052112 CAAATCTCTC
* * * * * * * *
1052122 TTCATAGCCCACAAGTTAGTAGCA-TCCTTTCAAAGCCCACAAGTCAGTGGTACTCGTTTCAAAG
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
* *
1052186 CCCATAAGTCAGTGGCACCCT
66 CCCATAAGTCAGTGACAACCT
* * * * *
1052207 TTCAAAGCCTATAAGTCAGTGGCACTCTTTTCAATGCCCACAAGTTAGTGGCA-TCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
*
1052271 CCCATAAGTCAGTGACAACTT
66 CCCATAAGTCAGTGACAACCT
* * * *
1052292 TTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAAGCTAGTGGTAATTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGG-AACTCCTTTCAAA
* * *
1052357 GCCCACACGAGTCGGTGGCAACTCTT
65 GCCCATA--AGTCAGTGACAAC-C-T
1052383 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1052396 CAAATTAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
85 92 0.59
86 25 0.16
87 15 0.10
89 11 0.07
91 14 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGAACTCCTTTCAAAG
CCCATAAGTCAGTGACAACCT
Found at i:1053302 original size:20 final size:20
Alignment explanation
Indices: 1053277--1053353 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
1053267 AAGTACCTAG
1053277 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
1053297 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
1053317 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
1053337 ATGTCTCGATACATTCT
1 ATGTATCGATACATTCT
1053354 GTCTTTTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1055675 original size:97 final size:97
Alignment explanation
Indices: 1055521--1055757 Score: 402
Period size: 97 Copynumber: 2.4 Consensus size: 97
1055511 TTATTTATCG
* * *
1055521 GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACGCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
*
1055586 AAATTTTATTCTCACTTAAATTATCATCATTA
66 AAATTTTATTCTCACTTAAATTATCATCAATA
*
1055618 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAATGCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
* *
1055683 AAATTTTATTCTCACTTAAATTGTCATCAATG
66 AAATTTTATTCTCACTTAAATTATCATCAATA
*
1055715 GGGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAACCCC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCC
1055758 GTTTTTCAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 132 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACGCATCAAAGTTT
AAATTTTATTCTCACTTAAATTATCATCAATA
Found at i:1058680 original size:20 final size:20
Alignment explanation
Indices: 1058652--1058726 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1058642 TCATACCCTG
1058652 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1058672 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1058692 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1058712 ATGTATCGATACATT
1 ATGTATCGATACATT
1058727 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1058719 original size:40 final size:39
Alignment explanation
Indices: 1058652--1058729 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1058642 TCATACCCTG
* *
1058652 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1058692 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1058730 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1061082 original size:20 final size:20
Alignment explanation
Indices: 1061054--1061128 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1061044 TCATACCCTG
1061054 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1061074 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1061094 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1061114 ATGTATCGATACATT
1 ATGTATCGATACATT
1061129 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1061121 original size:40 final size:39
Alignment explanation
Indices: 1061054--1061131 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1061044 TCATACCCTG
* *
1061054 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1061094 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1061132 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1075158 original size:13 final size:12
Alignment explanation
Indices: 1075135--1075180 Score: 65
Period size: 13 Copynumber: 3.6 Consensus size: 12
1075125 CCGTTACACC
1075135 CAAAAAAAAAAA
1 CAAAAAAAAAAA
1075147 CAAAACAAAAAAA
1 CAAAA-AAAAAAA
1075160 CAAAAAAAAAATA
1 CAAAAAAAAAA-A
1075173 GCAAAAAA
1 -CAAAAAA
1075181 TAGAAGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.35
13 13 0.42
14 7 0.23
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:1076833 original size:32 final size:32
Alignment explanation
Indices: 1076403--1077294 Score: 966
Period size: 32 Copynumber: 29.2 Consensus size: 32
1076393 TGTTCATCCC
* * *
1076403 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
1076432 TTTCAAAGCCCACA-AA-TCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1076461 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1076489 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
* ** * *
1076518 TTTCAAAG-CC-TACAAGTTAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
1076547 TTTCAAAGCCCACA-AA-TCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1076576 TTTTAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
*
1076605 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
* * *
1076634 TTTCAAAGCCCACA-AA-TCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1076663 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** *
1076691 TTTCAAAG-CC-CACAACTCATTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1076719 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
* * * *
1076748 TTTCAAAG-CC-CACAAGCCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1076777 TTTCAGATG-CC-CACAAGTTAGGTGGCAACCCA
1 TTTCA-AAGCCCACACAAG-TCGGTGGCAACCCA
1076809 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1076841 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1076873 TTCCAAAGCCCACACAAGTCGGTGGCAA-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1076904 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1076936 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1076968 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1077000 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1077032 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1077064 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1077096 -TTCAAAGCCCACACAAGTCGGTGGCAACCCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCC-A
1077128 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1077160 TTTCAAAACCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1077192 TTCCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1077224 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** * *
1077256 TTTAAAAGCCCATGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1077288 TTTCAAA
1 TTTCAAA
1077295 TCACCATATT
Statistics
Matches: 794, Mismatches: 43, Indels: 49
0.90 0.05 0.06
Matches are distributed among these distances:
27 6 0.01
28 89 0.11
29 200 0.25
30 23 0.03
31 72 0.09
32 368 0.46
33 36 0.05
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:1077850 original size:20 final size:20
Alignment explanation
Indices: 1077822--1077896 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1077812 TCATACCCTG
1077822 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1077842 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1077862 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1077882 ATGTATCGATACATT
1 ATGTATCGATACATT
1077897 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1077889 original size:40 final size:39
Alignment explanation
Indices: 1077822--1077899 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1077812 TCATACCCTG
* *
1077822 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1077862 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1077900 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1081931 original size:13 final size:13
Alignment explanation
Indices: 1081913--1081950 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1081903 TCACTATTCA
*
1081913 TGTATCGATACAT
1 TGTATCGATACAG
1081926 TGTATCGATACAG
1 TGTATCGATACAG
1081939 TGTATCGATACA
1 TGTATCGATACA
1081951 CTATAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1082065 original size:20 final size:20
Alignment explanation
Indices: 1082019--1082065 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1082009 AATTTCAAAT
*
1082019 GCATGTATCGATACATTATA
1 GCATGTATCGATACATTAGA
* *
1082039 -AATTGTATCGATACATTGGA
1 GCA-TGTATCGATACATTAGA
1082059 GCATGTA
1 GCATGTA
1082066 AGTGCGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.05
20 19 0.90
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
GCATGTATCGATACATTAGA
Found at i:1082484 original size:34 final size:35
Alignment explanation
Indices: 1082421--1082487 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1082411 CTAAGTGATT
1082421 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1082457 GAGAGGCTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1082488 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1085653 original size:13 final size:13
Alignment explanation
Indices: 1085635--1085659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1085625 TTTTCCAGAT
1085635 TGTATCGATACAA
1 TGTATCGATACAA
1085648 TGTATCGATACA
1 TGTATCGATACA
1085660 TTACTTCAGT
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:1086986 original size:56 final size:56
Alignment explanation
Indices: 1086924--1087038 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
1086914 TCAAATTATA
1086924 GGTTACGATCTTTGATGAAACGGAGAGTATGATGGATCAACGGCCTTGAGATAATT
1 GGTTACGATCTTTGATGAAACGGAGAGTATGATGGATCAACGGCCTTGAGATAATT
1086980 GGTTACGATCTTTGATGAAACGGAGAGTATGATGGATCAACGGCCTTGAGATAATT
1 GGTTACGATCTTTGATGAAACGGAGAGTATGATGGATCAACGGCCTTGAGATAATT
1087036 GGT
1 GGT
1087039 AAGATCATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.29
Consensus pattern (56 bp):
GGTTACGATCTTTGATGAAACGGAGAGTATGATGGATCAACGGCCTTGAGATAATT
Found at i:1087604 original size:13 final size:13
Alignment explanation
Indices: 1087586--1087623 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1087576 TCACTATTCA
*
1087586 TGTATCGATACAT
1 TGTATCGATACAG
1087599 TGTATCGATACAG
1 TGTATCGATACAG
1087612 TGTATCGATACA
1 TGTATCGATACA
1087624 CTATAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1087738 original size:20 final size:20
Alignment explanation
Indices: 1087692--1087738 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1087682 AATTTCAAAT
*
1087692 GCATGTATCGATACATTATA
1 GCATGTATCGATACATTAGA
* *
1087712 -AATTGTATCGATACATTGGA
1 GCA-TGTATCGATACATTAGA
1087732 GCATGTA
1 GCATGTA
1087739 AGTGCGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.05
20 19 0.90
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
GCATGTATCGATACATTAGA
Found at i:1088157 original size:34 final size:35
Alignment explanation
Indices: 1088094--1088160 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1088084 CTAAGTGATT
1088094 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1088130 GAGAGGCTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1088161 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Done.