Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000521.1 Hibiscus syriacus cultivar Beakdansim tig00000999_pilon, whole genome shotgun sequence
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: 1347562
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:891597 original size:8 final size:8
Alignment explanation
Indices: 891572--891610 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
891562 AAGGGACAAA
891572 TTAAAATTT
1 TTAAAA-TT
891581 TTGAAAATT
1 TT-AAAATT
891590 TTAAAATT
1 TTAAAATT
*
891598 TTAAAAAT
1 TTAAAATT
891606 TTAAA
1 TTAAA
891611 TTATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 18 0.64
9 6 0.21
10 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (8 bp):
TTAAAATT
Found at i:893375 original size:2 final size:2
Alignment explanation
Indices: 893368--893393 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
893358 CTGTAAAGTA
893368 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
893394 TGAGTCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:894148 original size:29 final size:29
Alignment explanation
Indices: 894115--894178 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
894105 GACTGCTTGA
894115 CGACCTACAAGGTCGCTGGGAGTGCATGG
1 CGACCTACAAGGTCGCTGGGAGTGCATGG
***
894144 CGACCTTGTAGGTCGCTGGGAGTGCATGG
1 CGACCTACAAGGTCGCTGGGAGTGCATGG
894173 CGACCT
1 CGACCT
894179 GTGTTGGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (29 bp):
CGACCTACAAGGTCGCTGGGAGTGCATGG
Found at i:894202 original size:32 final size:32
Alignment explanation
Indices: 894132--894238 Score: 141
Period size: 32 Copynumber: 3.4 Consensus size: 32
894122 CAAGGTCGCT
* *
894132 GGGAGTGCATGGCGACCT-TG-T-AGGTCGCT-
1 GGGAGTGCATGGCGACCTGTGTTGGGGT-GTTG
894161 GGGAGTGCATGGCGACCTGTGTTGGGGTGTTG
1 GGGAGTGCATGGCGACCTGTGTTGGGGTGTTG
*
894193 GGGAGTGCATAGCGACCTGTGTTGGGGTGTTG
1 GGGAGTGCATGGCGACCTGTGTTGGGGTGTTG
894225 GGGACGTGCATGGC
1 GGGA-GTGCATGGC
894239 ACATGCAGAC
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
29 18 0.26
30 2 0.03
31 3 0.04
32 38 0.55
33 8 0.12
ACGTcount: A:0.12, C:0.16, G:0.47, T:0.25
Consensus pattern (32 bp):
GGGAGTGCATGGCGACCTGTGTTGGGGTGTTG
Found at i:894312 original size:28 final size:28
Alignment explanation
Indices: 894269--894345 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
894259 TCTGTGCAGC
* *
894269 TCGCCGGGAAGCCATGGTGACGTAGTAGG
1 TCGCC-GGAAGGCATGGCGACGTAGTAGG
*
894298 TCGCCGGAAGGCATGACGACGTAGTAGG
1 TCGCCGGAAGGCATGGCGACGTAGTAGG
894326 TCGCCCGGAAGGCATGGCGA
1 TCG-CCGGAAGGCATGGCGA
894346 TCTAAGGCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 23 0.53
29 20 0.47
ACGTcount: A:0.22, C:0.23, G:0.40, T:0.14
Consensus pattern (28 bp):
TCGCCGGAAGGCATGGCGACGTAGTAGG
Found at i:903122 original size:10 final size:10
Alignment explanation
Indices: 903093--903161 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
903083 GCTGCTGGAA
903093 AACCGGTTTG
1 AACCGGTTTG
*
903103 -ACCAGTTTTG
1 AACC-GGTTTG
903113 AACCGGTTTG
1 AACCGGTTTG
*
903123 -ACCGGTCTG
1 AACCGGTTTG
903132 AACCGGTTTG
1 AACCGGTTTG
*
903142 -ACCGGTCTG
1 AACCGGTTTG
*
903151 AACCGGGTTG
1 AACCGGTTTG
903161 A
1 A
903162 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:903135 original size:19 final size:19
Alignment explanation
Indices: 903093--903163 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
903083 GCTGCTGGAA
* *
903093 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
903113 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
903132 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
903151 AACCGGGTTGACC
1 AACCGGTTTGACC
903164 CGACCCGACT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 35 0.73
20 13 0.27
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:903178 original size:14 final size:14
Alignment explanation
Indices: 903159--903186 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
903149 TGAACCGGGT
903159 TGACCCGACCCGAC
1 TGACCCGACCCGAC
903173 TGACCCGACCCGAC
1 TGACCCGACCCGAC
903187 CGTTGACCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.07
Consensus pattern (14 bp):
TGACCCGACCCGAC
Found at i:904124 original size:31 final size:32
Alignment explanation
Indices: 904080--904152 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
904070 TGTGACTCTT
* *
904080 AGGTAGGCTCTGCGGCCCTGAGAT-TATTCTC
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
* * *
904111 GGGTAGGCCCTGCGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
904143 AGGTAGGCCC
1 AGGTAGGCCC
904153 CACGGCCCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (32 bp):
AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
Found at i:904190 original size:62 final size:63
Alignment explanation
Indices: 904076--904198 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 63
904066 CTAATGTGAC
* ** *
904076 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCTGAAATTATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
* *
904139 TCTTAGGTAGGCCCCACGGCCC-GAAATCTA-TCTTGGGTAGGCTCT-CAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCTGAAAT-TATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGT
904199 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
61 1 0.02
62 30 0.58
63 21 0.40
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCTGAAATTATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
Found at i:910405 original size:10 final size:10
Alignment explanation
Indices: 910376--910444 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
910366 GCTGCTGGAA
910376 AACCGGTTTG
1 AACCGGTTTG
*
910386 -ACCAGTTTTG
1 AACC-GGTTTG
910396 AACCGGTTTG
1 AACCGGTTTG
*
910406 -ACCGGTCTG
1 AACCGGTTTG
910415 AACCGGTTTG
1 AACCGGTTTG
*
910425 -ACCGGTCTG
1 AACCGGTTTG
*
910434 AACCGGGTTG
1 AACCGGTTTG
910444 A
1 A
910445 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:910418 original size:19 final size:19
Alignment explanation
Indices: 910376--910446 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
910366 GCTGCTGGAA
* *
910376 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
910396 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
910415 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
910434 AACCGGGTTGACC
1 AACCGGTTTGACC
910447 CGACCCGACT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 35 0.73
20 13 0.27
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:910461 original size:14 final size:14
Alignment explanation
Indices: 910442--910469 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
910432 TGAACCGGGT
910442 TGACCCGACCCGAC
1 TGACCCGACCCGAC
910456 TGACCCGACCCGAC
1 TGACCCGACCCGAC
910470 CGTTGACCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.07
Consensus pattern (14 bp):
TGACCCGACCCGAC
Found at i:911443 original size:32 final size:31
Alignment explanation
Indices: 911360--911436 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
911350 CTAATGTGAC
* *
911360 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
911391 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
911423 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
911437 CACGGCCAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:915347 original size:19 final size:19
Alignment explanation
Indices: 915325--915372 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
915315 ATACCTAGTT
915325 AGCTTGTATGAATTCATGA
1 AGCTTGTATGAATTCATGA
*
915344 AGCTTGTATGAGTTCATGA
1 AGCTTGTATGAATTCATGA
*
915363 AGCATGTATG
1 AGCTTGTATG
915373 TGCATCCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (19 bp):
AGCTTGTATGAATTCATGA
Found at i:915977 original size:21 final size:19
Alignment explanation
Indices: 915932--915982 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
915922 TCATGGTAGG
* *
915932 GTATCGAAACTATAGGGTC
1 GTATCGATACTATAGGGTA
915951 GATATCGATACTATAAGGGTTA
1 G-TATCGATACTAT-AGGG-TA
915973 GTATCGATAC
1 GTATCGATAC
915983 CCTTGTACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 13 0.48
22 2 0.07
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (19 bp):
GTATCGATACTATAGGGTA
Found at i:923287 original size:3 final size:3
Alignment explanation
Indices: 923279--923303 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
923269 GGCATTTTCT
923279 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
923304 AAATTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:923598 original size:27 final size:27
Alignment explanation
Indices: 923560--923612 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
923550 AGCCTAGCCG
*
923560 TAGAGGATTGTTTTCTTCTATTTACCT
1 TAGAGGATTGTTTCCTTCTATTTACCT
923587 TAGAGGATTGTTTCCTTCTATTTACC
1 TAGAGGATTGTTTCCTTCTATTTACC
923613 GTCATTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (27 bp):
TAGAGGATTGTTTCCTTCTATTTACCT
Found at i:929645 original size:19 final size:18
Alignment explanation
Indices: 929606--929640 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
929596 AGTGTATAAT
*
929606 TTTTTTTATAAATATGTA
1 TTTTTTTATAAATATCTA
929624 TTTTTTTATAAAT-TCTA
1 TTTTTTTATAAATATCTA
929641 AATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTTATAAATATCTA
Found at i:930017 original size:17 final size:18
Alignment explanation
Indices: 929990--930032 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
929980 ATAATTTATA
929990 ATTTTAA-TTTTATAAT-
1 ATTTTAATTTTTATAATC
930006 ATTTTGAATTTTTATAATC
1 ATTTT-AATTTTTATAATC
930025 ATTTTAAT
1 ATTTTAAT
930033 ACTTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 2 0.08
18 12 0.50
19 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTTTATAATC
Found at i:930909 original size:61 final size:63
Alignment explanation
Indices: 930821--930937 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 63
930811 TATAGATTTA
* *
930821 TAAAAGTATATTAATTATAACATAAATTATA-AATATTATAAGAA-CATATTTATAATATAAAT
1 TAAAAGTATATTAATTATAACACAAATTACATAATATTATAAGAATC-TATTTATAATATAAAT
* *
930883 TAAAA-TATATTAATTATAATACAAATTACATAATATTATGAGAATCTATTTATAA
1 TAAAAGTATATTAATTATAACACAAATTACATAATATTATAAGAATCTATTTATAA
930938 ATGTATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
61 22 0.45
62 26 0.53
63 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.39
Consensus pattern (63 bp):
TAAAAGTATATTAATTATAACACAAATTACATAATATTATAAGAATCTATTTATAATATAAAT
Found at i:931406 original size:15 final size:15
Alignment explanation
Indices: 931386--931431 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
931376 AGTGGGATAA
931386 AAGATTA-TAGGGAAT
1 AAGATTACTA-GGAAT
931401 AAGATTACTAGGAAT
1 AAGATTACTAGGAAT
931416 AAGATTACTAGGAAT
1 AAGATTACTAGGAAT
931431 A
1 A
931432 TTTTATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (15 bp):
AAGATTACTAGGAAT
Found at i:945930 original size:2 final size:2
Alignment explanation
Indices: 945917--945950 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
945907 TAAATGCATT
*
945917 TC TC TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
945951 GTGCGCGCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:947092 original size:14 final size:14
Alignment explanation
Indices: 947065--947108 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
947055 CGTTCATTAT
947065 GTTC-GTTATGTTC
1 GTTCGGTTATGTTC
*
947078 GTTCGGTTATATTC
1 GTTCGGTTATGTTC
947092 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
947106 GTT
1 GTT
947109 TATGTTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:947602 original size:25 final size:26
Alignment explanation
Indices: 947574--947628 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
947564 GCAAGAAAAC
947574 AAAACAAAGGTTTCTATG-AATTT-TG
1 AAAA-AAAGGTTTCTATGCAATTTCTG
** *
947599 AAAATGAGTTTTCTATGCAATTTCTG
1 AAAAAAAGGTTTCTATGCAATTTCTG
947625 AAAA
1 AAAA
947629 TGAGTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 10 0.40
25 9 0.36
26 6 0.24
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (26 bp):
AAAAAAAGGTTTCTATGCAATTTCTG
Found at i:947611 original size:24 final size:26
Alignment explanation
Indices: 947584--947633 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
947574 AAAACAAAGG
947584 TTTCTATG-AATTT-TGAAAATGAGT
1 TTTCTATGCAATTTCTGAAAATGAGT
947608 TTTCTATGCAATTTCTGAAAATGAGT
1 TTTCTATGCAATTTCTGAAAATGAGT
947634 GTAATAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.33
25 5 0.21
26 11 0.46
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (26 bp):
TTTCTATGCAATTTCTGAAAATGAGT
Found at i:948243 original size:16 final size:16
Alignment explanation
Indices: 948222--948272 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
948212 GTCTCCAACG
948222 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
948238 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
948254 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
948268 TTTAT
1 TTTAT
948273 TAAATGAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.15
15 2 0.06
16 26 0.79
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:948725 original size:16 final size:16
Alignment explanation
Indices: 948714--948747 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
948704 GTTTTTCATC
948714 ATATGAAATTTTATAA
1 ATATGAAATTTTATAA
948730 ATATGAAATTTTATAA
1 ATATGAAATTTTATAA
948746 AT
1 AT
948748 TCGTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
ATATGAAATTTTATAA
Found at i:949865 original size:25 final size:23
Alignment explanation
Indices: 949817--949874 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
949807 TATATAAAGT
949817 AATAATAAAAATAAATAAATATA
1 AATAATAAAAATAAATAAATATA
*
949840 ATTATAATAAAAATAAATAGGA-ATA
1 A--ATAATAAAAATAAATA-AATATA
949865 AATAATAAAA
1 AATAATAAAA
949875 TAGCAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 10 0.32
25 20 0.65
26 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (23 bp):
AATAATAAAAATAAATAAATATA
Found at i:951601 original size:106 final size:104
Alignment explanation
Indices: 951415--951807 Score: 484
Period size: 105 Copynumber: 3.7 Consensus size: 104
951405 GTCAATCTGT
* * * ** * *
951415 TTGTGAAGTTGGAATTGGCTATGGAATTGAGAAATTGTTTGCTGACAGTCGGTC-GTCCCTTAG-
1 TTGTGAAGTTGAAATTGGCTCT-GAATTGAGAAA-TGTTTGTTGACAACCAG-CGGTCCCTTCGT
* * * *
951478 CTGGGAAGTCGAGCTTGTGCTGTCTTGAGTTCAATATCCTTCG
63 C-GTGAAGTTGAACTTGTGCTGTCTTGAGTCCAATATCCTTCG
* * * ** *
951521 CTGTGAAGTTAAAATTGGCTCTGACATTGAGAAGTTGTTTGTTGACAGTCAGCGGTCCCTTCGTG
1 TTGTGAAGTTGAAATTGGCTCTGA-ATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
951586 GTGAAGTTGAACTTGTACTGTCTTGAGTCCAAAATCCTTCG
64 GTGAAGTTGAACTTGTGCTGTCTTGAGTCCAATATCCTTCG
* *
951627 TTGTGAAGTTGAAATTGGCTCTGAGTTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCG
1 TTGTGAAGTTGAAATTGGCTCTGAATT-GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
* * *
951692 TGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCG
65 TGAAGTTGAACTTGTGCTGTCTTGAGTCCAATATCCTTCG
951732 TTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1 TTGTGAAGTTGAAATTGGCTCTGAA-TTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
951797 TGAAGTTGAAC
65 TGAAGTTGAAC
951808 AATATCCTTC
Statistics
Matches: 251, Mismatches: 30, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
105 138 0.55
106 113 0.45
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (104 bp):
TTGTGAAGTTGAAATTGGCTCTGAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGTGCTGTCTTGAGTCCAATATCCTTCG
Found at i:951985 original size:102 final size:105
Alignment explanation
Indices: 951807--952253 Score: 813
Period size: 104 Copynumber: 4.3 Consensus size: 105
951797 TGAAGTTGAA
951807 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA---TTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
951869 GTCCCTTCGTCGTGAAGTTGAACTTGCG-TGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
951908 CAA-ATCCTTCGTTGTTGAAGTTGAAATTGGCTCTGAA-TTGAGAAATG-TTGTTGACAACCAGC
1 CAATATCCTTCGTTG-TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
951970 GGTCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTGGAGTC
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
952010 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAACGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
952075 G-CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
952114 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
952179 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
952219 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
952254 GGTAAACCTG
Statistics
Matches: 335, Mismatches: 2, Indels: 14
0.95 0.01 0.04
Matches are distributed among these distances:
100 19 0.06
101 29 0.09
102 75 0.22
103 41 0.12
104 98 0.29
105 73 0.22
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
Found at i:953078 original size:1 final size:1
Alignment explanation
Indices: 953063--953102 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
953053 ACGTTTTCTC
* * *
953063 TTTTTGTTTTGTTTTTTTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
953103 CAACTTAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (1 bp):
T
Found at i:953081 original size:22 final size:21
Alignment explanation
Indices: 953056--953103 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
953046 ACCCTAAACG
953056 TTTTCTCTTTTTGTTTTGTTTT
1 TTTTCTCTTTTTGTTTT-TTTT
* *
953078 TTTTTTTTTTTTGTTTTTTTT
1 TTTTCTCTTTTTGTTTTTTTT
953099 TTTTC
1 TTTTC
953104 AACTTAGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (21 bp):
TTTTCTCTTTTTGTTTTTTTT
Found at i:953089 original size:17 final size:17
Alignment explanation
Indices: 953063--953102 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
953053 ACGTTTTCTC
*
953063 TTTTTGTTTTGTTTTTT
1 TTTTTTTTTTGTTTTTT
953080 TTTTTTTTTTGTTTTTT
1 TTTTTTTTTTGTTTTTT
953097 TTTTTT
1 TTTTTT
953103 CAACTTAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTT
Found at i:962507 original size:10 final size:10
Alignment explanation
Indices: 962482--962515 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
962472 AAGGTTAGTA
*
962482 AAATAGAAAT
1 AAATAAAAAT
*
962492 AGATAAAAAT
1 AAATAAAAAT
962502 AAATAAAAAT
1 AAATAAAAAT
962512 AAAT
1 AAAT
962516 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:963762 original size:10 final size:10
Alignment explanation
Indices: 963737--963796 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
963727 ATGTTTATAT
*
963737 ATAAAGTAATA
1 ATAAA-TAAAA
963748 ATAAA-AATAA
1 ATAAATAA-AA
963758 ATAAATAAAA
1 ATAAATAAAA
*
963768 TTATAATAAAA
1 ATA-AATAAAA
**
963779 ATAAATAGGA
1 ATAAATAAAA
963789 ATAAATAA
1 ATAAATAA
963797 TAAAAATAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 2 0.05
10 22 0.55
11 16 0.40
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:963765 original size:25 final size:25
Alignment explanation
Indices: 963737--963799 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
963727 ATGTTTATAT
963737 ATAAAGTAATAATAAAAATAAATA-A
1 ATAAA-TAATAATAAAAATAAATAGA
*
963762 ATAAAATTATAATAAAAATAAATAGGA
1 AT-AAATAATAATAAAAATAAATA-GA
963789 ATAAATAATAA
1 ATAAATAATAA
963800 AAATAGCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 19 0.58
26 11 0.33
27 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (25 bp):
ATAAATAATAATAAAAATAAATAGA
Found at i:978778 original size:8 final size:8
Alignment explanation
Indices: 978765--978805 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
978755 CTCATTTTCA
978765 GAGAATTT
1 GAGAATTT
978773 GAGAATTT
1 GAGAATTT
*
978781 -AGAGTTT
1 GAGAATTT
*
978788 GGGAATTT
1 GAGAATTT
978796 GAGAATTT
1 GAGAATTT
978804 GA
1 GA
978806 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:979104 original size:128 final size:128
Alignment explanation
Indices: 978876--979504 Score: 1107
Period size: 128 Copynumber: 4.9 Consensus size: 128
978866 TAATCGGAGT
978876 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
978941 CATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* **
979004 ACTATTCACATGAAGGCGCGTTCCCGGGAGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
979069 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
979132 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
979197 CATTGCCTTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * *
979260 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGGACGCCTTCCATTATTTCGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
979324 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
979388 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
979453 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
979505 AATCAGGTAA
Statistics
Matches: 473, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
127 1 0.00
128 471 1.00
129 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:979942 original size:34 final size:34
Alignment explanation
Indices: 979904--980003 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 34
979894 AAATTTAATG
*
979904 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
979938 TTAAA-TTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* *
979971 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
980004 AACATTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:980553 original size:21 final size:21
Alignment explanation
Indices: 980529--980597 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
980519 TAAAACCCTA
980529 CGGGCTAGGCATGTAACCTGG
1 CGGGCTAGGCATGTAACCTGG
980550 CGGGCTAGGCATGTAACCTGG
1 CGGGCTAGGCATGTAACCTGG
*
980571 CGGGCTAGGAATGTAACCAT-G
1 CGGGCTAGGCATGTAACC-TGG
980592 CGGGCT
1 CGGGCT
980598 CGAAATGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.19
Consensus pattern (21 bp):
CGGGCTAGGCATGTAACCTGG
Found at i:980604 original size:21 final size:20
Alignment explanation
Indices: 980529--980615 Score: 84
Period size: 21 Copynumber: 4.2 Consensus size: 20
980519 TAAAACCCTA
**
980529 CGGGCTAGGCATGTAACCTGG
1 CGGGCTAGAAATGTAACCT-G
**
980550 CGGGCTAGGCATGTAACCTGG
1 CGGGCTAGAAATGTAACCT-G
*
980571 CGGGCTAGGAATGTAACCATG
1 CGGGCTAGAAATGTAACC-TG
*
980592 CGGGCTCGAAATGTAACCCTG
1 CGGGCTAGAAATGTAA-CCTG
980613 CGG
1 CGG
980616 AGATGGCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
21 58 0.95
22 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.18
Consensus pattern (20 bp):
CGGGCTAGAAATGTAACCTG
Found at i:980606 original size:42 final size:42
Alignment explanation
Indices: 980529--980609 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
980519 TAAAACCCTA
* **
980529 CGGGCTAGGCATGTAACCTGGCGGGCTAGGCATGTAACCTGG
1 CGGGCTAGGAATGTAACCTGGCGGGCTAGAAATGTAACCTGG
*
980571 CGGGCTAGGAATGTAACCAT-GCGGGCTCGAAATGTAACC
1 CGGGCTAGGAATGTAACC-TGGCGGGCTAGAAATGTAACC
980610 CTGCGGAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (42 bp):
CGGGCTAGGAATGTAACCTGGCGGGCTAGAAATGTAACCTGG
Found at i:980645 original size:21 final size:21
Alignment explanation
Indices: 980619--980666 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
980609 CCTGCGGAGA
*
980619 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
980640 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
980661 GGGCAT
1 TGGCAT
980667 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:982458 original size:31 final size:32
Alignment explanation
Indices: 982387--982463 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 32
982377 TTAATAATTC
* *
982387 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAAT-ATTACATAAATATTATTATAA
982421 TAAAAAATAATATTACATAAATA-TATTA-ATA
1 TAAAAAATAATATTACATAAATATTATTATA-A
982452 TAAAAAATAATA
1 TAAAAAATAATA
982464 ACTATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 1 0.03
31 17 0.43
32 11 0.28
33 7 0.17
34 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATATTACATAAATATTATTATAA
Found at i:982464 original size:34 final size:33
Alignment explanation
Indices: 982388--982469 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 33
982378 TAATAATTCT
*
982388 AAATAAATAATAATTATATAAATATTATTTTAATA
1 AAAT-AATAAT-ATTACATAAATATTATTTTAATA
982423 AAA-AATAATATTACATAAATA-TATTAATATAA-A
1 AAATAATAATATTACATAAATATTATT--T-TAATA
982456 AAATAATAACTATT
1 AAATAATAA-TATT
982470 TAAAAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 11 0.27
34 8 0.20
35 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATAATAATATTACATAAATATTATTTTAATA
Found at i:988618 original size:17 final size:17
Alignment explanation
Indices: 988596--988630 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
988586 TGATCTGAAG
988596 TCTAAGATTCTTGAGCT
1 TCTAAGATTCTTGAGCT
988613 TCTAAGATTCTTGAGCT
1 TCTAAGATTCTTGAGCT
988630 T
1 T
988631 AAACGATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (17 bp):
TCTAAGATTCTTGAGCT
Found at i:996503 original size:2 final size:2
Alignment explanation
Indices: 996492--996541 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
996482 AATATAGGAC
996492 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
996533 TA TA TA TA T
1 TA TA TA TA T
996542 GGTTGCATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1001393 original size:20 final size:20
Alignment explanation
Indices: 1001368--1001407 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1001358 CTTTCATTAT
1001368 TATTATTATATAAATAAATA
1 TATTATTATATAAATAAATA
1001388 TATTATTATATAAATAAATA
1 TATTATTATATAAATAAATA
1001408 AATACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTATTATATAAATAAATA
Found at i:1018882 original size:20 final size:21
Alignment explanation
Indices: 1018834--1018902 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
1018824 CTGAAGTTAT
* *
1018834 TGTAGCAGTGTAGCGGTACAC
1 TGTAGCAGTGCATCGGTACAC
* *
1018855 TGTTGCAGTGCATCGATA-AC
1 TGTAGCAGTGCATCGGTACAC
1018875 TGTAGCAGTGCATCGGTACAC
1 TGTAGCAGTGCATCGGTACAC
1018896 TGTAGCA
1 TGTAGCA
1018903 CTGTTCATGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 18 0.44
21 23 0.56
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (21 bp):
TGTAGCAGTGCATCGGTACAC
Found at i:1023752 original size:14 final size:14
Alignment explanation
Indices: 1023733--1023773 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
1023723 TTTTTATCTT
1023733 TTAAAATTATTTTC
1 TTAAAATTATTTTC
1023747 TTAAAATTATTTTC
1 TTAAAATTATTTTC
1023761 TTAAAATTATTTT
1 TTAAAATTATTTT
1023774 AAAAAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAAATTATTTTC
Found at i:1025154 original size:21 final size:21
Alignment explanation
Indices: 1025110--1025247 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 21
1025100 GCGAAATAAA
* *
1025110 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTATCAAG
*
1025130 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTATCAAG
*
1025151 AATCGCAATGCGA-TAGTACAAG
1 AATCGCAACGCGATTA-T-CAAG
* ** * *
1025173 -TTCGCATTGCGATTTTCAAT
1 AATCGCAACGCGATTATCAAG
* *
1025193 AATCGCAACGCGAATATGAA-
1 AATCGCAACGCGATTATCAAG
**
1025213 AATCGCAACGCGAACAT-ATA-
1 AATCGCAACGCGATTATCA-AG
1025233 AATCGCAACGCGATT
1 AATCGCAACGCGATT
1025248 CTGACTATCG
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
19 1 0.01
20 48 0.51
21 41 0.44
22 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATTATCAAG
Found at i:1025218 original size:20 final size:20
Alignment explanation
Indices: 1025193--1025447 Score: 176
Period size: 20 Copynumber: 12.7 Consensus size: 20
1025183 GATTTTCAAT
* *
1025193 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
1025213 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
1025233 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
1025252 CTATCGCAACGAGTATCCGTA
1 -AATCGCAACGCGAATACGTA
*
1025273 AATCGCAATGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
1025294 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
* * *
1025314 AATAGCAATGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
1025334 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
1025354 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
** * *
1025374 AATCGCATTGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
** **
1025394 AATCGCAACGATAATATATAA
1 AATCGCAACGCGAATACGT-A
* *
1025415 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
1025435 AATCGCAACGCGA
1 AATCGCAACGCGA
1025448 TTTTTAAAGC
Statistics
Matches: 177, Mismatches: 48, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 138 0.78
21 34 0.19
22 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:1025348 original size:40 final size:41
Alignment explanation
Indices: 1025254--1025444 Score: 269
Period size: 40 Copynumber: 4.7 Consensus size: 41
1025244 GATTCTGACT
* * *
1025254 ATCGCAACGAGTATCCGTAAATCGCAATGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
* *
1025295 ATCGCAACGCGTATCCGTAAATAGCAATGAGAATACGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
*
1025335 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
** * **
1025375 ATCGCATTGCGTATCCGTAAATCGCAACGATAATATATAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
1025416 ATCGCAACGCGTATCCGTAAATCGCAACG
1 ATCGCAACGCGTATCCGTAAATCGCAACG
1025445 CGATTTTTAA
Statistics
Matches: 135, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 71 0.53
41 64 0.47
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
Found at i:1025357 original size:121 final size:121
Alignment explanation
Indices: 1025212--1025442 Score: 297
Period size: 121 Copynumber: 1.9 Consensus size: 121
1025202 GCGAATATGA
* * *
1025212 AAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAAA
1 AAATCGCAACGCGAACATATAAATCGCAACGAGAATACGT-A-AATCGCAACGAGTATCCGTAAA
* *
1025275 TCGCAATGACAATACGTAAAATCGCAACGCGTATCCGTAAATAGCAATGAGAATACGT
64 TCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAATAGCAATGAGAATACGT
* * ** *
1025333 AAATCGCAACGCGTATC-TGTAAATCGCAACGAGAATACGTAAATCGCATTGCGTATCCGTAAAT
1 AAATCGCAACGCG-AACATATAAATCGCAACGAGAATACGTAAATCGCAACGAGTATCCGTAAAT
* * *
1025397 CGCAACGATAATATATAAAATCGCAACGCGTATCCGTAAATCGCAA
65 CGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAATAGCAA
1025443 CGCGATTTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
121 87 0.93
122 6 0.06
123 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (121 bp):
AAATCGCAACGCGAACATATAAATCGCAACGAGAATACGTAAATCGCAACGAGTATCCGTAAATC
GCAACGACAATACATAAAATCGCAACGCGTATCCGTAAATAGCAATGAGAATACGT
Found at i:1025418 original size:81 final size:81
Alignment explanation
Indices: 1025254--1025444 Score: 267
Period size: 81 Copynumber: 2.4 Consensus size: 81
1025244 GATTCTGACT
* *
1025254 ATCGCAACGAGTATCCGTAAATCGCAATGACAATACGTAAAATCGCAACGCGTATCCGTAAATAG
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATAG
* *
1025319 CAATGAGAATACGTAA
66 CAACGAGAATACATAA
* * ** *
1025335 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-AAATCGCATTGCGTATCCGTAAATCG
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATAG
* *
1025399 CAACGATAATATATAAA
66 CAACGAGAATACAT-AA
1025416 ATCGCAACGCGTATCCGTAAATCGCAACG
1 ATCGCAACGCGTATCCGTAAATCGCAACG
1025445 CGATTTTTAA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 33 0.34
81 64 0.66
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (81 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATAG
CAACGAGAATACATAA
Found at i:1026028 original size:20 final size:20
Alignment explanation
Indices: 1026003--1026099 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
1025993 TTCTAAACTT
*
1026003 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
*
1026023 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
1026043 ACTATCGCAACTA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
1026064 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
1026083 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
1026100 CCAAAATCGC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 19 0.29
20 30 0.46
21 16 0.25
ACGTcount: A:0.52, C:0.20, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1026082 original size:19 final size:19
Alignment explanation
Indices: 1026003--1026110 Score: 99
Period size: 19 Copynumber: 5.5 Consensus size: 19
1025993 TTCTAAACTT
**
1026003 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
* *
1026023 AAAATCACAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
1026043 ACTATCGCAACTAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
1026064 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
1026083 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
1026102 AAAATCGCA
1 AAAATCGCA
1026111 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
19 33 0.45
20 26 0.35
21 14 0.19
22 1 0.01
ACGTcount: A:0.51, C:0.21, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:1026153 original size:33 final size:33
Alignment explanation
Indices: 1026111--1026216 Score: 185
Period size: 33 Copynumber: 3.2 Consensus size: 33
1026101 CAAAATCGCA
* * *
1026111 TTGCGATTTTCATTTTGCGTTGCGATTCTCTAG
1 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1026144 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1026177 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1026210 TTGCGAT
1 TTGCGAT
1026217 AGTCATTTCC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
Found at i:1026165 original size:19 final size:19
Alignment explanation
Indices: 1026143--1026203 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1026133 CGATTCTCTA
1026143 GTTGCGATTTTTATTTCGC
1 GTTGCGATTTTTATTTCGC
* *
1026162 GTTGCGA----T-TCTCTC
1 GTTGCGATTTTTATTTCGC
1026176 GTTGCGATTTTTATTTCGC
1 GTTGCGATTTTTATTTCGC
1026195 GTTGCGATT
1 GTTGCGATT
1026204 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
18 1 0.03
19 20 0.61
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.49
Consensus pattern (19 bp):
GTTGCGATTTTTATTTCGC
Found at i:1026225 original size:33 final size:33
Alignment explanation
Indices: 1026111--1026265 Score: 184
Period size: 33 Copynumber: 4.5 Consensus size: 33
1026101 CAAAATCGCA
* *
1026111 TTGCGATTTTCATTTTGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1026144 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1026177 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
1026210 TTGCGATAGTCATTTCCCCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGC----G--ATTCTCTCG
1026250 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1026266 AACCAAAAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
33 75 0.71
34 7 0.07
38 1 0.01
39 1 0.01
40 22 0.21
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1026263 original size:20 final size:20
Alignment explanation
Indices: 1026201--1026256 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
1026191 TCGCGTTGCG
1026201 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
1026221 ATT-TCCCCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
1026241 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
1026257 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:1027609 original size:41 final size:41
Alignment explanation
Indices: 1027563--1027645 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
1027553 TCCTATCGTG
*
1027563 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCACCATTC
1 AAGAGGCCACTATCA-TCCTCGAAGAGGTCCCC-CCACCATTC
* * *
1027604 AAGAGGCCACTGTCATCGTTGAAGAGGTCCCCCCACCATTC
1 AAGAGGCCACTATCATCCTCGAAGAGGTCCCCCCACCATTC
1027645 A
1 A
1027646 GAGCCCGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.11
41 26 0.72
42 6 0.17
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.20
Consensus pattern (41 bp):
AAGAGGCCACTATCATCCTCGAAGAGGTCCCCCCACCATTC
Found at i:1028556 original size:28 final size:28
Alignment explanation
Indices: 1028516--1028569 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
1028506 AAAGAAGCTC
1028516 ATATTACAGTTAGCAGAGACGAGACCCA
1 ATATTACAGTTAGCAGAGACGAGACCCA
1028544 ATATTACAGTTAGCAGAGACGAGACC
1 ATATTACAGTTAGCAGAGACGAGACC
1028570 GCACCACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (28 bp):
ATATTACAGTTAGCAGAGACGAGACCCA
Found at i:1029034 original size:13 final size:13
Alignment explanation
Indices: 1028998--1029036 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
1028988 TTTGATGTTT
1028998 AATTGATTTTGTAA
1 AATTGA-TTTGTAA
1029012 AATATGATTTGTAA
1 AAT-TGATTTGTAA
*
1029026 AGTTGATTTGT
1 AATTGATTTGT
1029037 TTAATTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 12 0.52
15 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:1029152 original size:19 final size:19
Alignment explanation
Indices: 1029130--1029188 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
1029120 AAAAATGACT
1029130 ACCGCAATGCGAAATGAAA
1 ACCGCAATGCGAAATGAAA
*
1029149 ACCGCAA--CG--A-GAGA
1 ACCGCAATGCGAAATGAAA
*
1029163 ATCGCAATGCGAAATGAAA
1 ACCGCAATGCGAAATGAAA
*
1029182 ATCGCAA
1 ACCGCAA
1029189 CGACAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
ACCGCAATGCGAAATGAAA
Found at i:1029174 original size:33 final size:33
Alignment explanation
Indices: 1029132--1029209 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
1029122 AAATGACTAC
* *
1029132 CGCAATGCGAAATGAAAACCGCAACGAGAGAAT
1 CGCAATGCGAAATGAAAACCGCAACGACAAAAT
*
1029165 CGCAATGCGAAATGAAAATCGCAACGACAAAAT
1 CGCAATGCGAAATGAAAACCGCAACGACAAAAT
*
1029198 CGCAACGCGAAA
1 CGCAATGCGAAA
1029210 CTAAATTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
CGCAATGCGAAATGAAAACCGCAACGACAAAAT
Found at i:1029245 original size:19 final size:18
Alignment explanation
Indices: 1029221--1029379 Score: 82
Period size: 19 Copynumber: 9.4 Consensus size: 18
1029211 TAAATTTGTA
1029221 TGCGATTTTCATTTCGCTT
1 TGCGATTTTCATTTCGC-T
**
1029240 TGCGA--TTCCCTT-G-T
1 TGCGATTTTCATTTCGCT
1029254 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGC-T
1029273 TGCGA--TTC---TCG-T
1 TGCGATTTTCATTTCGCT
1029285 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGC-T
**
1029304 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGC-T
1029324 TGCGA-TTT-AGTTTCGCGT
1 TGCGATTTTCA-TTTCGC-T
*
1029342 TGCGA-TTT--TGTCG-T
1 TGCGATTTTCATTTCGCT
*
1029356 TGCGA-TTTCATTTCGCA
1 TGCGATTTTCATTTCGCT
1029373 TGCGATT
1 TGCGATT
1029380 CTCTCGTTGC
Statistics
Matches: 110, Mismatches: 12, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
12 6 0.05
14 21 0.19
16 14 0.13
17 17 0.15
18 15 0.14
19 28 0.25
20 9 0.08
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (18 bp):
TGCGATTTTCATTTCGCT
Found at i:1029263 original size:33 final size:31
Alignment explanation
Indices: 1029216--1029399 Score: 144
Period size: 31 Copynumber: 5.6 Consensus size: 31
1029206 GAAACTAAAT
*
1029216 TTGTATGCGATTTTCATTTCGCTTTGCGATTCCC
1 TTGT-TGCGATTTTCATTTCGCATTGCGATT--C
1029250 TTGTTGCGATTTTCATTTCGCATTGCGATTC
1 TTGTTGCGATTTTCATTTCGCATTGCGATTC
*
1029281 TCGTTGCGATTTTCATTTCGCATTGCGATAGTC
1 TTGTTGCGATTTTCATTTCGCATTGCGAT--TC
* *
1029314 ATTTCCGCGTTGCGA-TTT-AGTTTCGCGTTGCGATTT
1 --TT----GTTGCGATTTTCA-TTTCGCATTGCGATTC
1029350 TGTCGTTGCGA-TTTCATTTCGCA-TGCGATTC
1 T-T-GTTGCGATTTTCATTTCGCATTGCGATTC
*
1029381 TCTCGTTGCG-TTTTTATTT
1 T-T-GTTGCGATTTTCATTT
1029400 ATGCGTTTGC
Statistics
Matches: 129, Mismatches: 9, Indels: 27
0.78 0.05 0.16
Matches are distributed among these distances:
31 52 0.40
32 17 0.13
33 28 0.22
34 5 0.04
35 2 0.02
36 1 0.01
37 1 0.01
38 16 0.12
39 7 0.05
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.47
Consensus pattern (31 bp):
TTGTTGCGATTTTCATTTCGCATTGCGATTC
Found at i:1030898 original size:172 final size:168
Alignment explanation
Indices: 1030609--1030940 Score: 612
Period size: 172 Copynumber: 2.0 Consensus size: 168
1030599 ACCTTGATTT
1030609 AATTTTATACAAATGAACACCACAAAGTCCATGAAAGCATCTGAGAACACCTTCTAACAGCGTTG
1 AATTTTATACAAATGAACACCACAAAGTCCATGAAAGCATCTGAGAACACCTTCTAACAGCGTTG
1030674 TCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAAT-CCTAAG
66 TCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAG
1030738 ATGCCCCATATAAACCATGTCCATGAATCAGATGATTTTA
131 ATGCCCC--ATAAACCATGTCCATGAATCAGATGATTTTA
1030778 AATTTCTATACAAATGAACACCACAAAGTCCATGAAAAGCATCTGAGAAACACCTTCTAACAGCG
1 AATTT-TATACAAATGAACACCACAAAGTCCATG-AAAGCATCTGAG-AACACCTTCTAACAGCG
1030843 TTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCT
63 TTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCT
1030908 AAGATGCCCCATAAACCATGTCCATGAATCAGA
128 AAGATGCCCCATAAACCATGTCCATGAATCAGA
1030941 GGTTTCAGAT
Statistics
Matches: 159, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
169 5 0.03
170 28 0.18
171 35 0.22
172 78 0.49
173 13 0.08
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (168 bp):
AATTTTATACAAATGAACACCACAAAGTCCATGAAAGCATCTGAGAACACCTTCTAACAGCGTTG
TCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAG
ATGCCCCATAAACCATGTCCATGAATCAGATGATTTTA
Found at i:1031723 original size:15 final size:15
Alignment explanation
Indices: 1031703--1031732 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1031693 TAATTTTTGT
1031703 GTAACAATCAACTGC
1 GTAACAATCAACTGC
1031718 GTAACAATCAACTGC
1 GTAACAATCAACTGC
1031733 TATCTTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (15 bp):
GTAACAATCAACTGC
Found at i:1031937 original size:27 final size:27
Alignment explanation
Indices: 1031907--1031988 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
1031897 CAGTCGTAAC
1031907 TTAATTAAATTATTTTACGGTAAGACT
1 TTAATTAAATTATTTTACGGTAAGACT
* ** *
1031934 TTAATT-AAGTA-CATA---TGA-AC-
1 TTAATTAAATTATTTTACGGTAAGACT
1031954 TTAATTAAATTATTTTACGGTAAGACT
1 TTAATTAAATTATTTTACGGTAAGACT
1031981 TTAATTAA
1 TTAATTAA
1031989 GTACATATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
20 6 0.15
21 6 0.15
22 4 0.10
25 4 0.10
26 6 0.15
27 14 0.35
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (27 bp):
TTAATTAAATTATTTTACGGTAAGACT
Found at i:1031958 original size:47 final size:47
Alignment explanation
Indices: 1031904--1032001 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
1031894 TTACAGTCGT
1031904 AACTTAATTAAATTATTTTACGGTAAGACTTTAATTAAGTACATATG
1 AACTTAATTAAATTATTTTACGGTAAGACTTTAATTAAGTACATATG
*
1031951 AACTTAATTAAATTATTTTACGGTAAGACTTTAATTAAGTACATATT
1 AACTTAATTAAATTATTTTACGGTAAGACTTTAATTAAGTACATATG
1031998 AACT
1 AACT
1032002 CCATATAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (47 bp):
AACTTAATTAAATTATTTTACGGTAAGACTTTAATTAAGTACATATG
Found at i:1032303 original size:59 final size:60
Alignment explanation
Indices: 1032232--1032377 Score: 172
Period size: 60 Copynumber: 2.5 Consensus size: 60
1032222 TATTATAATT
* * *
1032232 TGGTCCCTAAACTTTT-AACAATCTTAATTTCATCCT-AAACTATGACTC-TCATTCTAAAC
1 TGGTCCCCAAACTTTTGAACAATC-CAAATTCATCCTCAAACTATGAC-CATCATTCTAAAC
* * * *
1032291 TGGTCCCCAAACTTTTGAACATTCCAAATTCATCGTCAAACTATGACCATTATTCTAAAT
1 TGGTCCCCAAACTTTTGAACAATCCAAATTCATCCTCAAACTATGACCATCATTCTAAAC
* *
1032351 TAGTCCCCAAACTTTTGAACATTCCAA
1 TGGTCCCCAAACTTTTGAACAATCCAA
1032378 TAATATCCCT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 25 0.33
60 51 0.67
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (60 bp):
TGGTCCCCAAACTTTTGAACAATCCAAATTCATCCTCAAACTATGACCATCATTCTAAAC
Found at i:1032357 original size:60 final size:59
Alignment explanation
Indices: 1032260--1032377 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 59
1032250 CAATCTTAAT
*
1032260 TTCATCCTAAACTATGACTCTCATTCTAAACTGGTCCCCAAACTTTTGAACATTCCAAA
1 TTCATCCTAAACTATGACTCTCATTCTAAACTAGTCCCCAAACTTTTGAACATTCCAAA
* * *
1032319 TTCATCGTCAAACTATGAC-CATTATTCTAAATTAGTCCCCAAACTTTTGAACATTCCAA
1 TTCATCCT-AAACTATGACTC-TCATTCTAAACTAGTCCCCAAACTTTTGAACATTCCAA
1032378 TAATATCCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 8 0.15
60 45 0.85
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (59 bp):
TTCATCCTAAACTATGACTCTCATTCTAAACTAGTCCCCAAACTTTTGAACATTCCAAA
Found at i:1044028 original size:28 final size:28
Alignment explanation
Indices: 1043950--1044029 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
1043940 ATCCTATATA
1043950 ATTAATAAATTATATTTAAATAGAATCATT
1 ATTAATAAATTATATTTAAA-A-AATCATT
* * * *
1043980 ATTAATAAA-TCTACTCAAAAAAACTATT
1 ATTAATAAATTATATTTAAAAAATC-ATT
1044008 ATTAATAAATTATATTTAAAAA
1 ATTAATAAATTATATTTAAAAA
1044030 CGAGCTCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
27 3 0.07
28 13 0.32
29 16 0.39
30 9 0.22
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (28 bp):
ATTAATAAATTATATTTAAAAAATCATT
Found at i:1054298 original size:50 final size:50
Alignment explanation
Indices: 1054235--1054456 Score: 390
Period size: 50 Copynumber: 4.4 Consensus size: 50
1054225 CACCGTGAAG
*
1054235 TACGCTATAAGGAAAATGCATCACTTTCATCCCACTATATAAGCGTCAAC
1 TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
* * *
1054285 TACGTTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTGAAG
1 TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
*
1054335 TACGCCATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
1 TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
1054385 TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
1 TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
*
1054435 TACGCTATAAGGAGAATGCATC
1 TACGCTATAAGGAAAATGCATC
1054457 TCTATCCCTT
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 162 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (50 bp):
TACGCTATAAGGAAAATGCATCACTTTCATCCAACTATATAAGCGTCAAC
Found at i:1057914 original size:2 final size:2
Alignment explanation
Indices: 1057907--1057937 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1057897 AGTGCATCGA
*
1057907 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1057938 AAATATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1068760 original size:32 final size:32
Alignment explanation
Indices: 1068719--1068789 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1068709 TGTTATTCAC
1068719 AAAATCATTTCAACAGACATCTACTGAGATCT
1 AAAATCATTTCAACAGACATCTACTGAGATCT
*
1068751 AAAATCATTTCAACAGACATCTTCTGAGATCT
1 AAAATCATTTCAACAGACATCTACTGAGATCT
1068783 AAAATCA
1 AAAATCA
1068790 CATAGATACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (32 bp):
AAAATCATTTCAACAGACATCTACTGAGATCT
Found at i:1081063 original size:44 final size:44
Alignment explanation
Indices: 1081014--1081152 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
1081004 GACTATTCAA
*
1081014 ATCTCACCCTTAAATCATAGAATACTAAATATTAAATATATTTG
1 ATCTCATCCTTAAATCATAGAATACTAAATATTAAATATATTTG
* ** * * * * * * * * **
1081058 ATCTCATGCTTTTAT-GTATATTACATCAACAATGAGT-TATTCAA
1 ATCTCATCCTTAAATCATAGAATAC-TAAATATTAAATATATT-TG
1081102 ATCTCATCCTTAAATCATAGAATACTAAATATTAAATATATTTG
1 ATCTCATCCTTAAATCATAGAATACTAAATATTAAATATATTTG
1081146 ATCTCAT
1 ATCTCAT
1081153 GCTTTTATGT
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 10 0.16
44 44 0.69
45 10 0.16
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.39
Consensus pattern (44 bp):
ATCTCATCCTTAAATCATAGAATACTAAATATTAAATATATTTG
Found at i:1081113 original size:88 final size:88
Alignment explanation
Indices: 1081007--1081176 Score: 331
Period size: 88 Copynumber: 1.9 Consensus size: 88
1080997 ATTATCAGAC
1081007 TATTCAAATCTCACCCTTAAATCATAGAATACTAAATATTAAATATATTTGATCTCATGCTTTTA
1 TATTCAAATCTCACCCTTAAATCATAGAATACTAAATATTAAATATATTTGATCTCATGCTTTTA
1081072 TGTATATTACATCAACAATGAGT
66 TGTATATTACATCAACAATGAGT
*
1081095 TATTCAAATCTCATCCTTAAATCATAGAATACTAAATATTAAATATATTTGATCTCATGCTTTTA
1 TATTCAAATCTCACCCTTAAATCATAGAATACTAAATATTAAATATATTTGATCTCATGCTTTTA
1081160 TGTATATTACATCAACA
66 TGTATATTACATCAACA
1081177 TCGACATTAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (88 bp):
TATTCAAATCTCACCCTTAAATCATAGAATACTAAATATTAAATATATTTGATCTCATGCTTTTA
TGTATATTACATCAACAATGAGT
Found at i:1084339 original size:23 final size:24
Alignment explanation
Indices: 1084309--1084454 Score: 123
Period size: 23 Copynumber: 6.4 Consensus size: 24
1084299 TAGACGAATG
1084309 GAAGAAGAAATGGA-TTTATGGAA
1 GAAGAAGAAATGGAGTTTATGGAA
1084332 GAAGAAGAAAT-GAGTTTATGGGAA
1 GAAGAAGAAATGGAGTTTAT-GGAA
* * *
1084356 -AAAAAGAAAT-GTGTTTAT-AAA
1 GAAGAAGAAATGGAGTTTATGGAA
*
1084377 AAAGAAGAAA-GGAGTTTATGGAA
1 GAAGAAGAAATGGAGTTTATGGAA
* * *
1084400 GAAGAATAAA-CGAGTTTATGTGTA
1 GAAGAAGAAATGGAGTTTATG-GAA
* *
1084424 G--GAAAAAAT-GAGTTAATGGAA
1 GAAGAAGAAATGGAGTTTATGGAA
1084445 GAAGAAGAAA
1 GAAGAAGAAA
1084455 CTTGTTTTGA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
21 5 0.05
22 31 0.31
23 57 0.57
24 7 0.07
ACGTcount: A:0.51, C:0.01, G:0.27, T:0.21
Consensus pattern (24 bp):
GAAGAAGAAATGGAGTTTATGGAA
Found at i:1084417 original size:45 final size:45
Alignment explanation
Indices: 1084333--1084418 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
1084323 TTTATGGAAG
* * *
1084333 AAGAAGAAATGAGTTTATGGGAAAAAAAGAAATGTGTTTATAAAA
1 AAGAAGAAAGGAGTTTATGGGAAAAAAAGAAACGAGTTTATAAAA
* *
1084378 AAGAAGAAAGGAGTTTAT-GGAAGAAGAATAAACGAGTTTAT
1 AAGAAGAAAGGAGTTTATGGGAA-AAAAAGAAACGAGTTTAT
1084419 GTGTAGGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 4 0.11
45 31 0.89
ACGTcount: A:0.51, C:0.01, G:0.24, T:0.23
Consensus pattern (45 bp):
AAGAAGAAAGGAGTTTATGGGAAAAAAAGAAACGAGTTTATAAAA
Found at i:1084450 original size:68 final size:68
Alignment explanation
Indices: 1084309--1084454 Score: 170
Period size: 68 Copynumber: 2.1 Consensus size: 68
1084299 TAGACGAATG
* * *
1084309 GAAGAAGAAATGGATTTATGGAAGAAGAAGAAATGAGTTTATGGGAAAAAAAGAAATGTGTTTAT
1 GAAGAAGAAATGGATTTATGGAAGAAGAAGAAACGAGTTTATGGGAAAAAAAGAAATGAGTTAAT
1084374 AAA
66 AAA
* * * * **
1084377 AAAGAAGAAA-GGAGTTTATGGAAGAAGAATAAACGAGTTTATGTGTAGGAAA-AAATGAGTTAA
1 GAAGAAGAAATGGA-TTTATGGAAGAAGAAGAAACGAGTTTATGGGAAAAAAAGAAATGAGTTAA
*
1084440 TGGAA
65 T-AAA
1084445 GAAGAAGAAA
1 GAAGAAGAAA
1084455 CTTGTTTTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
67 13 0.20
68 52 0.80
ACGTcount: A:0.51, C:0.01, G:0.27, T:0.21
Consensus pattern (68 bp):
GAAGAAGAAATGGATTTATGGAAGAAGAAGAAACGAGTTTATGGGAAAAAAAGAAATGAGTTAAT
AAA
Found at i:1087858 original size:2 final size:2
Alignment explanation
Indices: 1087853--1087878 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1087843 CACAAAAAAT
1087853 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1087879 AGTTTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1091944 original size:225 final size:223
Alignment explanation
Indices: 1091557--1092216 Score: 1002
Period size: 217 Copynumber: 3.0 Consensus size: 223
1091547 TAGGAAACTA
*
1091557 AATAGTATATGAAACAAGGTAAGAGT-CC---C---AAAAAAAATCAAGAAAAAAGGCGGAAAAA
1 AATAATATATGAAACAAGGTAAGAGTCCCAAACAAAAAAAAAAATCAAGAAAAAAGGCGGAAAAA
* * *
1091615 AA-A-CAAT-TCAGCTTTTTTTCCTCTCTTTTTTTATCGAATGCCAAATAGTACCTTCAAGAACG
66 AACAGAAATGT-AGCTTTTTTTCCTCTC-TTTTTTATCGAATGCCAAACAGTACCTTAAAGAACG
*
1091677 AATCAAAATGAGGAAACGAGGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAATCC
129 AATCAAAATGAGGAAACGAAGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAAT-C
1091742 AACATTTTCTATAATTTCGAGATCTCAAAAG
193 AACATTTTCTATAATTTCGAGATCTCAAAAG
1091773 AATAATATATGAAACAAGGTAAGAGTCCCAAACAAAAAAAAAAATCAAGAAAAAAGGCGGAAAAA
1 AATAATATATGAAACAAGGTAAGAGTCCCAAACAAAAAAAAAAATCAAGAAAAAAGGCGGAAAAA
1091838 AACAGAAATGTAGCTTTTTTTTCCTCTCTTTTTTATCGAATGCCAAACAGTACCTTAAAGAACGA
66 AACAGAAATGTAGC-TTTTTTTCCTCTCTTTTTTATCGAATGCCAAACAGTACCTTAAAGAACGA
* *
1091903 ATCAAGATGAGGAAACGAAAAAACAATTCAGCTTCCCCTGATTGAGACCT----A-C---A--AA
130 ATCAAAATGAGGAAACGAAGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAATCAA
*
1091958 -ATTTTCTATAATTTCGATATCTCAAAAG
195 CATTTTCTATAATTTCGAGATCTCAAAAG
1091986 AATAATATATGAAACAAGGTAAGAGTCCCAAACAAAAAAGAAAAGAAAATCAAGAAAAAAGGCGG
1 AATAATATATGAAACAAGGTAAGAGTCCCAAAC---AAA-AAAA-AAAATCAAGAAAAAAGGCGG
*
1092051 AAAAAAACAGAAATGTAGCTTTTTTTCCTCTCTTTTTTATCGAATGCCAGACAGTACCTTAAAGA
61 AAAAAAACAGAAATGTAGCTTTTTTTCCTCTCTTTTTTATCGAATGCCAAACAGTACCTTAAAGA
1092116 ACGAATCAAAATGAGGAAACGAAGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAA
126 ACGAATCAAAATGAGGAAACGAAGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAA
1092181 TACAACATTTTCTATAATTTCGAGATCTCAAAAG
191 T-CAACATTTTCTATAATTTCGAGATCTCAAAAG
1092215 AA
1 AA
1092217 ACCATAGAAA
Statistics
Matches: 404, Mismatches: 12, Indels: 43
0.88 0.03 0.09
Matches are distributed among these distances:
213 60 0.15
214 2 0.00
216 28 0.07
217 104 0.26
218 39 0.10
220 2 0.00
221 2 0.00
222 1 0.00
223 31 0.08
224 1 0.00
225 89 0.22
226 14 0.03
228 2 0.00
229 29 0.07
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (223 bp):
AATAATATATGAAACAAGGTAAGAGTCCCAAACAAAAAAAAAAATCAAGAAAAAAGGCGGAAAAA
AACAGAAATGTAGCTTTTTTTCCTCTCTTTTTTATCGAATGCCAAACAGTACCTTAAAGAACGAA
TCAAAATGAGGAAACGAAGAAACAATTCAGCTTCCCCTGATTGAGACCTACAAAGCAAAATCAAC
ATTTTCTATAATTTCGAGATCTCAAAAG
Found at i:1094018 original size:21 final size:22
Alignment explanation
Indices: 1093993--1094044 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1093983 ACACTTTACA
*
1093993 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1094016 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1094039 ATATAA
1 ATATAA
1094045 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1094029 original size:23 final size:23
Alignment explanation
Indices: 1094003--1094065 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1093993 ATATAACCAC
1094003 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1094026 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1094049 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1094066 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1094520 original size:39 final size:39
Alignment explanation
Indices: 1094466--1094591 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
1094456 TCAAGTTGTA
1094466 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1094505 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
* *
1094544 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1094583 GATTTTGAT
1 GATTTTGAT
1094592 GAGCATCGGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
Found at i:1094871 original size:18 final size:18
Alignment explanation
Indices: 1094848--1094884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1094838 CGAAATATAT
1094848 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1094866 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1094884 A
1 A
1094885 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1095161 original size:25 final size:25
Alignment explanation
Indices: 1095133--1095183 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1095123 TTAATCCAAA
*
1095133 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
1095158 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
1095183 T
1 T
1095184 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:1095474 original size:21 final size:22
Alignment explanation
Indices: 1095449--1095500 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1095439 ACACTTTACA
*
1095449 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1095472 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1095495 ATATAA
1 ATATAA
1095501 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1095485 original size:23 final size:23
Alignment explanation
Indices: 1095459--1095516 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1095449 ATATAACCAC
1095459 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1095482 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
1095505 TACCTATTACAT
1 TACCTATTACAT
1095517 CAATTGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1095870 original size:20 final size:21
Alignment explanation
Indices: 1095832--1095871 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1095822 TCCACAGTGA
* *
1095832 AAAAAGTATGGACACTTTTAT
1 AAAAAGGATAGACACTTTTAT
1095853 AAAAAGGATAGACA-TTTTA
1 AAAAAGGATAGACACTTTTA
1095872 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAAGGATAGACACTTTTAT
Found at i:1095905 original size:16 final size:16
Alignment explanation
Indices: 1095884--1095917 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1095874 ATATAACCAC
1095884 TACCTATTACATTATA
1 TACCTATTACATTATA
1095900 TACCTATTACATTATA
1 TACCTATTACATTATA
1095916 TA
1 TA
1095918 AGGGCTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (16 bp):
TACCTATTACATTATA
Found at i:1096102 original size:421 final size:423
Alignment explanation
Indices: 1095215--1096461 Score: 2248
Period size: 424 Copynumber: 2.9 Consensus size: 423
1095205 TTTGAATTAT
* *
1095215 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGA-TGTTTTGATA-TTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
* *
1095278 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATA
66 TTAGAATTTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
1095343 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAA
129 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAA
1095408 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
194 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
1095473 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACC--TATATTG
259 TAT--A--ATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTATATATTG
1095536 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
320 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
1095601 AA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
385 AATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
1095639 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1095704 TTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
66 TTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
1095769 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAA
131 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAA
*
1095834 AAAGTATGGACACTTTTATAAAAAGGATAGACATTTTACAATATAACCACTACCTATTACA-T-T
195 AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTAT
1095897 AT-ATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTATTATATTGAAAG
260 ATAATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTA-TATATTGAAAG
*
1095961 TGTACATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
324 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
1096026 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
389 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
1096061 TTGATTTAATAATTTCATTTGCACAAAAAATTA-TTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1096125 TTAGAATTTTTAATTTAATAAT-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
66 TTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
1096189 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAAAA
131 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAAAA
1096254 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
1096319 TAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTAT-TATTGAA
261 T--A--ATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTATATATTGAA
1096383 AGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
322 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
1096447 TTTTTTTAACAGTGT
387 TTTTTTTAACAGTGT
1096462 ACTGCGAATT
Statistics
Matches: 801, Mismatches: 8, Indels: 29
0.96 0.01 0.03
Matches are distributed among these distances:
418 48 0.06
419 74 0.09
420 93 0.12
421 129 0.16
422 69 0.09
423 71 0.09
424 146 0.18
425 85 0.11
426 86 0.11
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (423 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
TTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAAAA
AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
TAATACCTATTACATTATATAAGGGCTACCTATTACATCAATTGTTTACCTATATATTGAAAGTG
TCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
TTTAACAGTGTTTCATGTTTTCCACCTACAATA
Found at i:1096318 original size:21 final size:22
Alignment explanation
Indices: 1096293--1096344 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1096283 ACACTTTACA
*
1096293 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1096316 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1096339 ATATAA
1 ATATAA
1096345 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1096329 original size:23 final size:23
Alignment explanation
Indices: 1096303--1096360 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1096293 ATATAACCAC
1096303 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1096326 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
1096349 TACCTATTACAT
1 TACCTATTACAT
1096361 CAATTGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1099495 original size:22 final size:22
Alignment explanation
Indices: 1099465--1099506 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1099455 TTCCACAGTG
1099465 AAAAAGTATCGACAC-TTTTAT
1 AAAAAGTATCGACACATTTTAT
1099486 AAAAAGGTATCGACACATTTT
1 AAAAA-GTATCGACACATTTT
1099507 TATACCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
AAAAAGTATCGACACATTTTAT
Found at i:1099612 original size:21 final size:21
Alignment explanation
Indices: 1099569--1099623 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
1099559 TGTGTAAATG
1099569 TCGACACTTTGTGAAAAAAGTA
1 TCGACACTTT-TGAAAAAAGTA
*
1099591 TCGACACTTTT-ATAAAAGGTA
1 TCGACACTTTTGA-AAAAAGTA
1099612 TCGACACATTTT
1 TCGACAC-TTTT
1099624 TATACCGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 15 0.50
22 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (21 bp):
TCGACACTTTTGAAAAAAGTA
Found at i:1099620 original size:117 final size:118
Alignment explanation
Indices: 1099465--1099695 Score: 455
Period size: 117 Copynumber: 2.0 Consensus size: 118
1099455 TTCCACAGTG
1099465 AAAAAGTATCGACACTTTTATAAAAAGGTATCGACACATTTTTATACCGGTTATATTACAAAATT
1 AAAAAGTATCGACACTTTTATAAAAAGGTATCGACACATTTTTATACCGGTTATATTACAAAATT
1099530 ATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTGTGA
66 ATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTGTGA
1099583 AAAAAGTATCGACACTTTTAT-AAAAGGTATCGACACATTTTTATACCGGTTATATTACAAAATT
1 AAAAAGTATCGACACTTTTATAAAAAGGTATCGACACATTTTTATACCGGTTATATTACAAAATT
1099647 ATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTT
66 ATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTT
1099696 TTTAAATGGT
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 92 0.81
118 21 0.19
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (118 bp):
AAAAAGTATCGACACTTTTATAAAAAGGTATCGACACATTTTTATACCGGTTATATTACAAAATT
ATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACACTTTGTGA
Found at i:1100008 original size:181 final size:183
Alignment explanation
Indices: 1099619--1100308 Score: 1203
Period size: 181 Copynumber: 3.8 Consensus size: 183
1099609 GTATCGACAC
*
1099619 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1099684 TGTCGACACTTTTTTAAATGGT-TCGACACATTTTTCTT-CAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
1099747 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
1099800 ATTTTTATACCGGTTATATTACAAAATTATATATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1099865 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
1099930 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACC-GT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
1099982 ATTTTTATACCGGTTATATT-CAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
*
1100046 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
*
1100111 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* * * *
1100164 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTC
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATG--TGTA
* * * *
1100229 AA--TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTACAGAC
64 AATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGAC
*
1100292 ACAATATTAAAAAGTGT
129 ACAATATTAGAAAGTGT
1100309 GAAAACTTTG
Statistics
Matches: 490, Mismatches: 13, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
181 241 0.49
182 59 0.12
183 186 0.38
185 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:1100308 original size:364 final size:362
Alignment explanation
Indices: 1099619--1100308 Score: 1204
Period size: 364 Copynumber: 1.9 Consensus size: 362
1099609 GTATCGACAC
*
1099619 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1099684 TGTCGACACTTTTTTAAATGGTTCGACACATTTTTCTTCAATCTGAACATAAAGTACCGACACAA
66 TGTCGACACTTTTTTAAATGGTTCGACACATTTTTCTTCAATCTGAACATAAAGTACCGACACAA
*
1099749 TATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATTTTTATACCGGT
131 TATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
1099814 TATATTACAAAATTATATATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACTTTTT
196 TATATTACAAAATTATATATTACATTATAAATATGGGTTCCGATGTGTAAA-GTCGACACTTTTT
* *
1099879 TAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACACAATATTAGAAAGTG
260 TAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAAGTG
1099944 TCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGT
325 TCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGT
1099982 ATTTTTATACCGGTTATATT-CAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
*
1100046 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGT-TCGACACATTTTTCTT-CAATCTGAACATAAAGTACCGACAC
*
1100111 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
129 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
* * * *
1100176 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTCAA-TCGACACTT
194 GTTATATTACAAAATTATATATTACATTATAAATATGGGTTCCGATG--TGTAAAGTCGACACTT
* * *
1100240 TTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTACAGACACAATATTAAAAA
257 TTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAA
1100305 GTGT
322 GTGT
1100309 GAAAACTTTG
Statistics
Matches: 310, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
362 65 0.21
363 36 0.12
364 205 0.66
366 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (362 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTTCGACACATTTTTCTTCAATCTGAACATAAAGTACCGACACAA
TATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
TATATTACAAAATTATATATTACATTATAAATATGGGTTCCGATGTGTAAAGTCGACACTTTTTT
AAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAAGTGT
CGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGT
Found at i:1101491 original size:3 final size:3
Alignment explanation
Indices: 1101483--1101556 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
1101473 ACTTGTTTGG
* * **
1101483 ATC ATC ATC -TC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
1101530 AGC TTC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1101557 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.26, C:0.35, G:0.05, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:1101538 original size:30 final size:30
Alignment explanation
Indices: 1101504--1101568 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
1101494 ATCATCATCA
* *
1101504 TCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCGCCAGCT
* *
1101534 TCATCGTCATCATCATCATCATCGTCAGCT
1 TCATCATCATCATCATCATCATCGCCAGCT
1101564 TCATC
1 TCATC
1101569 TTCTGCGACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.34
Consensus pattern (30 bp):
TCATCATCATCATCATCATCATCGCCAGCT
Found at i:1103402 original size:198 final size:199
Alignment explanation
Indices: 1103017--1104390 Score: 2133
Period size: 198 Copynumber: 6.9 Consensus size: 199
1103007 TATTTAAATT
1103017 AGTATCGAC-CAAAACTATATTAGTGTCGACACATTATTTAGACATA-T-TCTCATAAAACCGGT
1 AGTATCGACAC-AAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
1103079 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
65 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
1103144 GATCGACACTTCTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGG
130 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG
1103208 AAAAA
195 AAAAA
*
1103213 AGTATCTACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1103278 TAATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
1103342 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACATTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
1103407 AAAA
196 AAAA
*
1103411 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTCGACATATTCTCTCATAAACATTATT
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AA-A--A--
* * ** * *
1103476 TCGACATATTCTCTCATAAAACGGTATAATTGTACCGGTTAGATTGAAAAATTAC--A-TACATT
60 CCG--GTATAAT-T-GT---ACCG-------G------TTAGATTGAAAAATTACATATTACATT
1103538 ATACTTTTGGGTTCGATGATTTTGGGATCGACAC--TTT-TATATGGATCGACACTTTATGGGTG
105 ATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTG
1103600 CACCTTG--TTCCATTCATTCTGGGGAAAAA
170 CACCTTGTTTTCCATTCATTCT-GGGAAAAA
1103629 AGTATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1103693 T-ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
1103756 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
1103819 AAAA
196 AAAA
1103823 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1103888 TAA-TGTACCGG-T---TTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
1103948 ATCGACACTTTTTATATATGGATCGACAC-TT-TGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
1104011 AAAA
196 AAAA
1104015 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1104080 TAATTGTACCGGTTTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
66 TAATTGTACCGG--TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
1104145 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
129 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
1104208 GAAAAA
194 GAAAAA
*
1104214 AGTATCGACAC-AACTATA-TAGTGTCGACCACATTATTTCGACATATTCTCTCATAAAACCGGT
1 AGTATCGACACAAACTATATTAGTGTCGA-CACATTATTTAGACATATTCTCTCATAAAACCGGT
1104277 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
65 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
* *
1104342 GATTGACACTTTTTTATATATGGATCGAC-CTTTATGGGTGCACCCTGTT
130 GATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
1104391 GGCCATATTG
Statistics
Matches: 1101, Mismatches: 21, Indels: 110
0.89 0.02 0.09
Matches are distributed among these distances:
190 17 0.02
191 64 0.06
192 119 0.11
193 48 0.04
194 48 0.04
195 65 0.06
196 119 0.11
197 102 0.09
198 206 0.19
199 118 0.11
200 1 0.00
202 1 0.00
203 3 0.00
204 2 0.00
206 5 0.00
207 2 0.00
208 2 0.00
209 3 0.00
211 5 0.00
213 1 0.00
215 1 0.00
216 2 0.00
217 55 0.05
218 20 0.02
219 31 0.03
220 3 0.00
222 41 0.04
224 17 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (199 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAA
Found at i:1103471 original size:27 final size:27
Alignment explanation
Indices: 1103441--1103495 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1103431 TAGTGTCGAC
1103441 ACATTATTTCGACATATTCTCTCATAA
1 ACATTATTTCGACATATTCTCTCATAA
1103468 ACATTATTTCGACATATTCTCTCATAA
1 ACATTATTTCGACATATTCTCTCATAA
1103495 A
1 A
1103496 ACGGTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (27 bp):
ACATTATTTCGACATATTCTCTCATAA
Found at i:1103674 original size:217 final size:222
Alignment explanation
Indices: 1103243--1103685 Score: 781
Period size: 217 Copynumber: 2.0 Consensus size: 222
1103233 TAGTGTCGAC
1103243 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1103308 TATACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTT
66 -ATACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGACACTT
1103373 TATGGGTGCACATTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACACAAACTATATTAGTGTC
129 TATGGGTGCACATTG-TTTCCATTCATTCTGGGAAAAAAGTATCGACACAAACTATATTAGTGTC
*
1103438 GACACATTATTTCGACATATTCTCTCATAA
193 GACACATTATTTAGACATATTCTCTCATAA
*
1103468 ACATTATTTCGACATATTCTCTCATAAAA-CGGTATAATTGTACCGGTTAGATTGAAAAATTAC-
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1103531 ATACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTT-TATATGGATCGACACTTTA
66 ATACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTTTA
*
1103594 TGGGTGCACCTTG-TTCCATTCATTCTGGGGAAAAAAGTATCGACAC-AACTATATTAGTGTCGA
131 TGGGTGCACATTGTTTCCATTCATTCT-GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGA
1103657 CACATTATTTAGACATATTCTCTCATAA
195 CACATTATTTAGACATATTCTCTCATAA
1103685 A
1 A
1103686 ACCGGTATAT
Statistics
Matches: 214, Mismatches: 3, Indels: 10
0.94 0.01 0.04
Matches are distributed among these distances:
217 58 0.27
218 19 0.09
219 31 0.14
220 3 0.01
222 41 0.19
224 34 0.16
225 28 0.13
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (222 bp):
ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
ATACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTTTA
TGGGTGCACATTGTTTCCATTCATTCTGGGAAAAAAGTATCGACACAAACTATATTAGTGTCGAC
ACATTATTTAGACATATTCTCTCATAA
Found at i:1104192 original size:199 final size:197
Alignment explanation
Indices: 1103468--1104390 Score: 1582
Period size: 192 Copynumber: 4.7 Consensus size: 197
1103458 TCTCTCATAA
*
1103468 ACATTATTTCGACATATTCTCTCATAAAA-CGGTATAATTGTACCGGTTAGATTGAAAAATTAC-
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1103531 -A-TACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTT-TATATGGATCGACACTT
66 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTT
1103592 TATGGGTGCACCTTG--TTCCATTCATTCTGGGGAAAAAAGTATCGACACAACTATATTAGTGTC
131 TATGGGTGCACCTTGTTTTCCATTCATTCT-GGGAAAAAAGTATCGACACAACTATATTAGTGTC
1103655 GAC
195 GAC
1103658 ACATTATTTAGACATATTCTCTCATAAAACCGGTAT-ATTGTACCGGTTAGATTGAAAAATTACA
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1103722 TATTACATTATACTTTTGGG-TCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTT
66 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTT
1103786 TATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AAAAAGTATCGACACAAACTATATTAGTGTC
131 TATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACAC-AACTATATTAGTGTC
1103850 GAC
195 GAC
1103853 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAA-TGTACCGG-T---TTGAAAAATTACA
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1103913 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACAC-
66 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGACACT
1103977 TT-TGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACACAAACTATATTAGTGT
130 TTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACAC-AACTATATTAGTGT
1104041 CGAC
194 CGAC
1104045 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTTTAGATTGAAAAATTA
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGG--TTAGATTGAAAAATTA
1104110 CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT-TATATGGATCGACAC
64 CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACAC
1104174 TTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACACAACTATA-TAGTGT
129 TTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACACAACTATATTAGTGT
1104238 CGACC
194 CGA-C
*
1104243 ACATTATTTCGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
1 ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
*
1104308 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATTGACACTTTTTTATATATGGATCGAC-C
66 TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC--TTTTATATATGGATCGACAC
*
1104372 TTTATGGGTGCACCCTGTT
129 TTTATGGGTGCACCTTGTT
1104391 GGCCATATTG
Statistics
Matches: 703, Mismatches: 4, Indels: 44
0.94 0.01 0.06
Matches are distributed among these distances:
190 55 0.08
191 70 0.10
192 119 0.17
193 48 0.07
194 48 0.07
195 65 0.09
196 75 0.11
197 24 0.03
198 83 0.12
199 116 0.17
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (197 bp):
ACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
TATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGGATCGACACTT
TATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAAAGTATCGACACAACTATATTAGTGTCG
AC
Found at i:1104542 original size:19 final size:19
Alignment explanation
Indices: 1104510--1104556 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1104500 TTATATTAAC
1104510 ATACAAAA--ATAAATCGT
1 ATACAAAATTATAAATCGT
*
1104527 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1104546 ATACAAAATTA
1 ATACAAAATTA
1104557 ACTCGACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 8 0.30
19 19 0.70
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1106465 original size:21 final size:21
Alignment explanation
Indices: 1106424--1106466 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1106414 ACCCCCTTAT
*
1106424 TCTCTCGAGTGTATCTTCGAC
1 TCTCTCGAGTGTATCTACGAC
* *
1106445 TCTCTCGAGTTTCTCTACGAC
1 TCTCTCGAGTGTATCTACGAC
1106466 T
1 T
1106467 TGATCAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.40
Consensus pattern (21 bp):
TCTCTCGAGTGTATCTACGAC
Found at i:1106476 original size:21 final size:21
Alignment explanation
Indices: 1106452--1106491 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1106442 GACTCTCTCG
1106452 AGTTTCTCTACGACTTGATCA
1 AGTTTCTCTACGACTTGATCA
*
1106473 AGTTTCTCTTCGACTTGAT
1 AGTTTCTCTACGACTTGAT
1106492 TGTCTTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
AGTTTCTCTACGACTTGATCA
Found at i:1108716 original size:17 final size:18
Alignment explanation
Indices: 1108694--1108736 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1108684 ATATATCCGG
1108694 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
1108711 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
1108731 TATCAT
1 TATCAT
1108737 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:1108726 original size:20 final size:20
Alignment explanation
Indices: 1108699--1108745 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1108689 TCCGGTATCA
1108699 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1108718 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1108739 TTTTACC
1 TTTTACC
1108746 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1108908 original size:20 final size:17
Alignment explanation
Indices: 1108866--1108909 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
1108856 CACTTTTAAA
1108866 TTTACCGGTTTTCATTT
1 TTTACCGGTTTTCATTT
1108883 TGTTACCGGTTTTATCATATT
1 T-TTACCGG-TTT-TCAT-TT
1108904 TTTACC
1 TTTACC
1108910 TGGTATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 7 0.30
19 3 0.13
20 9 0.39
21 3 0.13
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.55
Consensus pattern (17 bp):
TTTACCGGTTTTCATTT
Found at i:1109906 original size:16 final size:17
Alignment explanation
Indices: 1109887--1109919 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1109877 TTTTATTTGA
1109887 TTTAAAAATA-ATTTTT
1 TTTAAAAATACATTTTT
*
1109903 TTTACAAATACATTTTT
1 TTTAAAAATACATTTTT
1109920 AAACTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAAAATACATTTTT
Found at i:1110433 original size:14 final size:14
Alignment explanation
Indices: 1110410--1110440 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1110400 AATGAAAAGA
1110410 AACATCGTTACCGG
1 AACATCGTTACCGG
*
1110424 AACATTGTTACCGG
1 AACATCGTTACCGG
1110438 AAC
1 AAC
1110441 GTACCAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (14 bp):
AACATCGTTACCGG
Found at i:1115850 original size:5 final size:5
Alignment explanation
Indices: 1115840--1115866 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1115830 ATCAGCCAAC
1115840 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1115867 TCAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1125345 original size:103 final size:103
Alignment explanation
Indices: 1125017--1125334 Score: 582
Period size: 103 Copynumber: 3.1 Consensus size: 103
1125007 GTCGAGGGTC
*
1125017 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1125082 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1125120 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1125185 TTGATCATTGGCATATGTATATGATTTTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1125223 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1125288 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1125326 TATGTGGTC
1 TATGTGGTC
1125335 CTTATGGACA
Statistics
Matches: 207, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1125420 original size:23 final size:23
Alignment explanation
Indices: 1125344--1125421 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1125334 CCTTATGGAC
*
1125344 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
1125368 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
1125391 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
1125414 ATTATATG
1 ATTATATG
1125422 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Done.