Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007718.1 Hibiscus syriacus cultivar Beakdansim tig00109949_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: 1062497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:795154 original size:21 final size:21
Alignment explanation
Indices: 795088--795154 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
795078 GTGAATCGGG
*
795088 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
795108 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
795130 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
795151 CTCT
1 CTCT
795155 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:795211 original size:21 final size:21
Alignment explanation
Indices: 795187--795293 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
795177 CAATGATAGG
795187 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
* **
795208 AGTGGCCTCTTGAAGGG-TGGG
1 AGTGGACTCTTG-AGGGATGAC
* * * *
795229 AGGGGACTCTCGAGGAATGAT
1 AGTGGACTCTTGAGGGATGAC
* * * ** *
795250 AGGGGCCTCTTCAATGAT-AGG
1 AGTGGACTCTTGAGGGATGA-C
795271 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
795292 AG
1 AG
795294 GCGAGTCAGG
Statistics
Matches: 60, Mismatches: 22, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 4 0.07
21 51 0.85
22 5 0.08
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.22
Consensus pattern (21 bp):
AGTGGACTCTTGAGGGATGAC
Found at i:795229 original size:84 final size:84
Alignment explanation
Indices: 795118--795293 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
795108 CCTCTTCAAC
795118 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
795183 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
795202 GATGACAGTGGCCTCTTGAAGGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
795267 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
795286 GATGACAG
1 GATGACAG
795294 GCGAGTCAGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
TAGGAGTGGACTCTTGAGG
Found at i:795687 original size:91 final size:90
Alignment explanation
Indices: 795512--795696 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
795502 ATTTCAAACT
*
795512 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
795577 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
795605 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
795669 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
795696 T
1 T
795697 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:797433 original size:19 final size:19
Alignment explanation
Indices: 797382--797530 Score: 175
Period size: 19 Copynumber: 8.1 Consensus size: 19
797372 TCTTTTGGTT
*
797382 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
797401 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
797421 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
797438 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAACGC
797454 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
797473 GAAATGAAAATCGCAACG-
1 GAAATGAAAATCGCAACGC
797491 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
797510 AAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
797529 GA
1 GA
797531 TTTTGGTTTC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.08
15 1 0.01
16 2 0.02
17 2 0.02
18 19 0.17
19 62 0.55
20 17 0.15
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:797449 original size:33 final size:33
Alignment explanation
Indices: 797407--797508 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 33
797397 ACGAGATAAT
**
797407 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
797440 GAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
*
797477 TGAAAATCGCAACG-GAAATGAAAATCGCAACG
1 -GAGAATCGCAACGCGAAATGAAAATCGCAACG
797509 CAAAATGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
33 27 0.46
35 4 0.07
37 17 0.29
38 11 0.19
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:797499 original size:37 final size:38
Alignment explanation
Indices: 797382--797530 Score: 175
Period size: 37 Copynumber: 4.1 Consensus size: 38
797372 TCTTTTGGTT
* *
797382 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** * *
797421 GAAATGACTATCGCAA--CG--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
797454 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACG-
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
797491 GAAATGAAAATCGCAACGCAAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
797529 GA
1 GA
797531 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
33 27 0.29
34 1 0.01
35 2 0.02
37 37 0.39
38 13 0.14
39 14 0.15
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:797559 original size:19 final size:19
Alignment explanation
Indices: 797526--797570 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
797516 AAAATCGCAA
*
797526 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
797545 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
797564 TGCGATT
1 TGCGATT
797571 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:798186 original size:20 final size:20
Alignment explanation
Indices: 798101--798214 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
798091 CGCTATGTAA
* * *
798101 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* * *
798121 ATCGCGTTACGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
798141 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
798162 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
798182 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
798202 ATCGCATTGCGAT
1 ATCGCATTGCGAT
798215 TTTCCCAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:798199 original size:61 final size:61
Alignment explanation
Indices: 798101--798217 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
798091 CGCTATGTAA
* * * *
798101 ATCGCGTTGCGAAAGTCAGAATCGCGTTACGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * * *
798162 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTT
798218 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:798233 original size:61 final size:61
Alignment explanation
Indices: 798101--798235 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
798091 CGCTATGTAA
* * * * ** *
798101 ATCGCGTTGCGAAAGTCAGAATCGCGTTACGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * * *
798162 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
798224 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
798236 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCATTACGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:801780 original size:24 final size:24
Alignment explanation
Indices: 801753--801840 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
801743 TTATATTATA
*
801753 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
*
801777 ATACTTGACCTGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
**
801801 ATACTTGACCTGGATT-TGGATTTG
1 ATACTTGACCTGGATTCT-GATCGG
801825 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
801841 ATGTTTTGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 1 0.02
24 57 0.98
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:801848 original size:24 final size:24
Alignment explanation
Indices: 801753--801850 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
801743 TTATATTATA
* **
801753 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATTTG
*
801777 ATACTTGACCTGGATTCTGA-TCG
1 ATACTTGACCTGGATTCTGATTTG
801800 AATACTTGACCTGGATT-TGGATTTG
1 -ATACTTGACCTGGATTCT-GATTTG
* *
801825 ATACTTGACCTGGATTATGTTTTG
1 ATACTTGACCTGGATTCTGATTTG
801849 AT
1 AT
801851 TTTTGATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
23 2 0.03
24 60 0.92
25 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATTTG
Found at i:805242 original size:20 final size:19
Alignment explanation
Indices: 805217--805268 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
805207 TGATTCAAAC
*
805217 AGTATCGATACCGAAGAGGG
1 AGTATCGATACCGAAG-GGA
*
805237 AGTATCGATATCGAAGGGA
1 AGTATCGATACCGAAGGGA
805256 AGATATCGATACC
1 AG-TATCGATACC
805269 ATTTTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGA
Found at i:805321 original size:19 final size:21
Alignment explanation
Indices: 805294--805346 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
805284 GCAAAAATGA
*
805294 TATCAATACCATAGGA-GG-G
1 TATCGATACCATAGGATGGAG
*
805313 TATCGATACCATAGTATGGTAG
1 TATCGATACCATAGGATGG-AG
805335 TATCGATACCAT
1 TATCGATACCAT
805347 GGTAAGGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 2 0.07
22 13 0.45
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (21 bp):
TATCGATACCATAGGATGGAG
Found at i:806230 original size:59 final size:59
Alignment explanation
Indices: 805806--806208 Score: 630
Period size: 59 Copynumber: 6.8 Consensus size: 59
805796 ATGGCACTAC
* *
805806 GTGTGCTAAAATGTTAAGAAATTCATACAAAGTGTATGAATTTCCATATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* **
805865 GTGTGCTAAAATGTTAAGAAATTCATACTCAGTGTATGAATTTCCACATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
805924 GTGTGC-AAACATGCTAAGAAATTCATACTAGGTGTATGAATTTCCATGTTGGGCACTAT
1 GTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
805983 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTAT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
806042 GTGTGCTAAAATGTTAAGAAATTCATACTAAATGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
806101 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGAGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
806160 GTGTGC-AAACATGTTAAGAAATTCATACTAGGTGTATGAATTTCCGTAT
1 GTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
806209 GAGAAAATAT
Statistics
Matches: 321, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
58 6 0.02
59 312 0.97
60 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:808705 original size:37 final size:38
Alignment explanation
Indices: 808646--808719 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 38
808636 GGAGTATCGA
* *
808646 AACGTTTAATAAACTTAGTTAAAATAAATAATAAAAAC
1 AACGTTTAATAAACCTAATTAAAATAAATAATAAAAAC
808684 AACG-TTAATAAACCTAATTAAAATAAATAATAAAAA
1 AACGTTTAATAAACCTAATTAAAATAAATAATAAAAA
808720 ATAGAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 30 0.88
38 4 0.12
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (38 bp):
AACGTTTAATAAACCTAATTAAAATAAATAATAAAAAC
Found at i:814765 original size:41 final size:41
Alignment explanation
Indices: 814677--815078 Score: 329
Period size: 41 Copynumber: 9.7 Consensus size: 41
814667 AATACTATAA
* * * * *
814677 TTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGAATCA-TAA
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-AGTAT
* *
814718 TGTAGTGGCGTTTTTATACAAACGCCGCTATAAACTAGTAT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTAGTAT
** * *
814759 TTTAGTGATGTTTTTATACAAACGCCGCTATAAAC-ACATACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTA-GTA-T
* * *
814801 TTT-GTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTAGTAT
** *
814842 TTTAGTGGTATTTTTACACAAACGCCGCTATAGA-TACGTACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTA-GTA-T
* * *
814884 TTT-GTGGCATTTTAATACAAAGGCCGCTATAGAC-ACGTACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTA-GTA-T
* * * *
814925 TTT-GTGGCGTTTTAATACCAAACGCCGCTATAGATTTGTAC
1 TTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTAGTAT
*
814966 TTTAGTGGCGTTTTTACACAAACGCCGCTATAGAC-ACGTACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTA-GTA-T
* * *
815008 TTT-GTGGCGTTTTAATTACCAAAGGCCGCTATAGACTCA-TAC
1 TTTAGTGGCGTTTTTA-TA-CAAACGCCGCTATAGACT-AGTAT
* *
815050 TTTAGTGGCGTTTTAATACCAAATGCCGC
1 TTTAGTGGCGTTTTTATA-CAAACGCCGC
815079 AATTGTTATA
Statistics
Matches: 299, Mismatches: 43, Indels: 37
0.79 0.11 0.10
Matches are distributed among these distances:
40 3 0.01
41 181 0.61
42 84 0.28
43 30 0.10
45 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTAGTAT
Found at i:814848 original size:83 final size:84
Alignment explanation
Indices: 814677--815078 Score: 412
Period size: 83 Copynumber: 4.8 Consensus size: 84
814667 AATACTATAA
* * * * *
814677 TTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGA-ATCATAATGTAGTGGCGTTTTTATA-CA
1 TTTAGTGGCGTTT-TAATACCAAACGCCGCTATAGACA-CATACTTTAGTGGCGTTTTAATACCA
* *
814738 AACGCCGCTATAAACTA-GTAT
64 AACGCCGCTATAGAC-ACGTAC
** * * *
814759 TTTAGTGATGTTTTTATA-CAAACGCCGCTATAAACACATACTTTTGTGGCGTTTTAATACCAAA
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACATACTTTAGTGGCGTTTTAATACCAAA
*
814823 CGCCGCTATAGACTCGTAC
66 CGCCGCTATAGACACGTAC
** * * * *
814842 TTTAGTGGTATTTT--TACACAAACGCCGCTATAGATACGTACTTTTGTGGCATTTTAATA-CAA
1 TTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACATACTTTAGTGGCGTTTTAATACCAA
*
814904 AGGCCGCTATAGACACGTAC
65 ACGCCGCTATAGACACGTAC
* ****
814924 TTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTTGTACTTTAGTGGCGTTTT--TACACAA
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACATACTTTAGTGGCGTTTTAATAC-CAA
814987 ACGCCGCTATAGACACGTAC
65 ACGCCGCTATAGACACGTAC
* * *
815007 TTTTGTGGCGTTTTAATTACCAAAGGCCGCTATAGACTCATACTTTAGTGGCGTTTTAATACCAA
1 TTTAGTGGCGTTTTAA-TACCAAACGCCGCTATAGACACATACTTTAGTGGCGTTTTAATACCAA
*
815072 ATGCCGC
65 ACGCCGC
815079 AATTGTTATA
Statistics
Matches: 274, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
81 5 0.02
82 78 0.28
83 140 0.51
84 39 0.14
85 9 0.03
86 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (84 bp):
TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACATACTTTAGTGGCGTTTTAATACCAAA
CGCCGCTATAGACACGTAC
Found at i:814856 original size:124 final size:125
Alignment explanation
Indices: 814696--815078 Score: 522
Period size: 124 Copynumber: 3.1 Consensus size: 125
814686 GTTTGTATAA
* * * * * *
814696 AAACGCCGCTAAAGAATCATAATGTAGTGGCGTTTTTATACAAACGCCGCTATAAACTA-GTA-T
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACTACGTACT
** * * *
814759 TTTAGTGATGTTTTTATACAAACGCCGCTATAAACACATACTTTTGTGGCGTTTTAATACC
66 TTT-GTGGCGTTTTAATACAAAGGCCGCTATAGACACATACTTTTGTGGCGTTTTAATACC
* **
814820 AAACGCCGCTATAGACTCGTACTTTAGTGGTATTTTTACACAAACGCCGCTATAGA-TACGTACT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACTACGTACT
* *
814884 TTTGTGGCATTTTAATACAAAGGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
66 TTTGTGGCGTTTTAATACAAAGGCCGCTATAGACACATACTTTTGTGGCGTTTTAATACC
* *
814944 AAACGCCGCTATAGATTTGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGAC-ACGTACT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACTACGTACT
* *
815008 TTTGTGGCGTTTTAATTACCAAAGGCCGCTATAGACTCATACTTTAGTGGCGTTTTAATACC
66 TTTGTGGCGTTTTAA-TA-CAAAGGCCGCTATAGACACATACTTTTGTGGCGTTTTAATACC
*
815070 AAATGCCGC
1 AAACGCCGC
815079 AATTGTTATA
Statistics
Matches: 229, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
123 2 0.01
124 173 0.76
125 6 0.03
126 48 0.21
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (125 bp):
AAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACTACGTACT
TTTGTGGCGTTTTAATACAAAGGCCGCTATAGACACATACTTTTGTGGCGTTTTAATACC
Found at i:819219 original size:42 final size:43
Alignment explanation
Indices: 819059--819381 Score: 318
Period size: 43 Copynumber: 7.6 Consensus size: 43
819049 AAGGTAATTA
* *
819059 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTATGACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * *
819102 ACGGCGTTTGTGTTCAAAAATGCCGTTATAGGTCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* *
819145 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
*
819188 GCGGCGTTTGT-TCTAAAAACGCCAG-TATAGGTCT-ACTCTTTT
1 GCGGCGTTTGTATCCAAAAACGCC-GCTATAGGTCTGAC-CTTTT
* * *
819230 GCGGCGTTTGTATCAAAAAACGCTGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * ** * *
819273 GCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTC-TGACCTTTT
* * * *
819316 GTGGCGTTTGT-TCCAAAAA-ACCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCT-GACCTTTT
* * *
819358 GCGGCATTTGT-TCAAAAAATGCCG
1 GCGGCGTTTGTATCCAAAAACGCCG
819382 TAATAGAAAT
Statistics
Matches: 235, Mismatches: 36, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
41 3 0.01
42 88 0.37
43 141 0.60
44 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:819249 original size:85 final size:86
Alignment explanation
Indices: 819059--819381 Score: 338
Period size: 85 Copynumber: 3.8 Consensus size: 86
819049 AAGGTAATTA
* * * * *
819059 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTATGACTTTTTACGGCGTTTGTGT-TCAAAAAT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* *
819123 GCCGTTATAGGTCTGAC-CTTTT
64 GCCGCTATAGGTCTAACTCTTTT
* * * * *
819145 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCTAAAAACGC
819210 CAG-TATAGGTCT-ACTCTTTT
66 C-GCTATAGGTCTAACTCTTTT
* * * *
819230 GCGGCGTTTGTATCAAAAAACGCTGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCTAAAAACGC
**
819295 CGCTATATATCATAACT-TTTT
66 CGCTATAGGTC-TAACTCTTTT
* * * *
819316 GTGGCGTTTGT-TCCAAAAAA--CCGCTATAGATATCGACCTTTTGCGGCATTTGTTCAAAAAAT
1 GCGGCGTTTGTAT-CAAAAAACGCCGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCTAAAAAC
819378 GCCG
64 GCCG
819382 TAATAGAAAT
Statistics
Matches: 206, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
84 14 0.07
85 116 0.56
86 73 0.35
87 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (86 bp):
GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGCTATAGGTCTAACTCTTTT
Found at i:819396 original size:128 final size:125
Alignment explanation
Indices: 819059--819412 Score: 342
Period size: 128 Copynumber: 2.8 Consensus size: 125
819049 AAGGTAATTA
* * *
819059 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTAT-GACTTTTTACGGCGTTTGTGTTC-AAAAA
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATA-GTATCGACCTTTTGCGGC-ATT-TGTTCAAAAAA
* * * * *
819122 TGCCGTTATAGGTCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTT
62 TGCCG-TATAGATCTGACCTTTTGCGGCGTTT-TTTCCAAAAACGCCGCTATAGATCTAACCTTT
819187 T
125 T
* * * * *
819188 GCGGCGTTTGTTCTAAAAACGCCAG-TATAG-GTCTACTCTTTTGCGGCGTTTGTATCAAAAAAC
1 GCGGCGTTTGTTCCAAAAACGCC-GCTATAGTATCGAC-CTTTTGCGGCATTTGT-TCAAAAAAT
* * * * *
819251 GCTGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
63 GCCG-TATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCGCTATAGATC-TAACCTTTT
* *
819316 GTGGCGTTTGTTCCAAAAA-ACCGCTATAGATATCGACCTTTTGCGGCATTTGTTCAAAAAATGC
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAG-TATCGACCTTTTGCGGCATTTGTTCAAAAAATGC
*
819380 CGTAATAGAAAT-TGACCTATTGCGGCGTTTTTT
65 CGT-ATAG--ATCTGACCTTTTGCGGCGTTTTTT
819413 GTTCTCAAAC
Statistics
Matches: 186, Mismatches: 27, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
126 6 0.03
127 48 0.26
128 114 0.61
129 18 0.10
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (125 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGTATCGACCTTTTGCGGCATTTGTTCAAAAAATGCC
GTATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCGCTATAGATCTAACCTTTT
Found at i:820339 original size:2 final size:2
Alignment explanation
Indices: 820332--820373 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
820322 GAAATTAATA
820332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
820374 GTACATGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:820485 original size:2 final size:2
Alignment explanation
Indices: 820430--820465 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
820420 ATGTACATTA
820430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
820466 CGTGGAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827858 original size:15 final size:16
Alignment explanation
Indices: 827824--827864 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
827814 TCTCTCTCTA
* *
827824 TATATATAATCTTGTT
1 TATATATTATCTTATT
827840 TATATATTATC-TATT
1 TATATATTATCTTATT
827855 TATATATTAT
1 TATATATTAT
827865 ATAAATAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (16 bp):
TATATATTATCTTATT
Found at i:833667 original size:17 final size:17
Alignment explanation
Indices: 833647--833686 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
833637 ACTACTTCCC
833647 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
833664 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
833681 TTAATG
1 TAAATG
833687 CACAACATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:834814 original size:19 final size:19
Alignment explanation
Indices: 834763--834825 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
834753 AATGTGCTCA
834763 TTTTC-ACTCTCAATTCTC
1 TTTTCAACTCTCAATTCTC
834781 TTTTCAATGCTCTCAATGTCT-
1 TTTTCAA--CTCTCAAT-TCTC
*
834802 TTTTCAACTCTCATTTCTTC
1 TTTTCAACTCTCAATTC-TC
834822 TTTT
1 TTTT
834826 TTTCAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.18
19 9 0.24
20 4 0.11
21 15 0.39
22 3 0.08
ACGTcount: A:0.16, C:0.27, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTCAACTCTCAATTCTC
Found at i:836548 original size:20 final size:19
Alignment explanation
Indices: 836473--836550 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
836463 TTCCAAATTG
* **
836473 GTAAGTCTTTCGGGCCATCA
1 GTAAGTCTTTCGAG-CATGT
836493 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCTTTCGAGCATG-T
* *
836513 GATTAAATCCTTCGAGTCATGT
1 G--TAAGTCTTTCGAG-CATGT
836535 GTAAGTCTTTCGAGCA
1 GTAAGTCTTTCGAGCA
836551 AGATGATAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.11
20 25 0.53
22 13 0.28
23 4 0.09
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (19 bp):
GTAAGTCTTTCGAGCATGT
Found at i:837190 original size:3 final size:3
Alignment explanation
Indices: 837176--837224 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
837166 CAATATTTAA
* * *
837176 TAT TAC TAT TAT TAT TAT TAT TAT TAT TATT TAT TAA TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
837222 TAT
1 TAT
837225 ATTCAGATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:843931 original size:21 final size:21
Alignment explanation
Indices: 843907--843950 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
843897 GGGGCATGCA
*
843907 AAATTTAATAATAATAATAAT
1 AAATATAATAATAATAATAAT
* *
843928 AAATATAATGATAATAGTAAT
1 AAATATAATAATAATAATAAT
843949 AA
1 AA
843951 TTAAAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATATAATAATAATAATAAT
Found at i:847017 original size:129 final size:132
Alignment explanation
Indices: 846789--847154 Score: 381
Period size: 132 Copynumber: 2.8 Consensus size: 132
846779 ATCGATATTA
* * *
846789 AGAATAGTAATATCTTTTAATTTTGGTTGGAGTAAT-AATGACTGCTTTAA-GTCATG--AGGTA
1 AGAATAGTAATATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGT-ATGAAAGGTA
* * * * * *
846850 ATTTATTCTCGATTGAAAATAATTTGATATTACCGTTTTCTCTCGAA-TTA-ATT-GATTTTTAA
65 ATTTATTCTAGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATTTATATTAAATTTTAAA
846912 GGC
130 GGC
* * * * *
846915 TGAATAGTGATATCTCTTCATTTCGATAGGAGTAATAAATGACTGCTTTAAGGTATGAAAGGTTA
1 AGAATAGTAATATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAAAGGTAA
* * *
846980 TTTAATT-TAGATTGGAAATCATTAGATATTATCGTTTTCACTTGAATTTATATTAAATTTTAAA
66 TTT-ATTCTAGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATTTATATTAAATTTTAAA
847044 GGC
130 GGC
* * * * * ** * *
847047 AAAATAGTAATATATCTTTATTTCAATTGGGGTAATAAATGACTATTTTAAGGCATGAAAGGTCA
1 AGAATAGTAATATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAAAGGTAA
* * *
847112 TTTATTCTCA-ATAGGAAATAATTAGAAATTATTGTTTTCTCTC
66 TTTATTCT-AGATTGGAAATAATTAGATATTATCGTTTTCTCTC
847155 TTAAAATTAT
Statistics
Matches: 195, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
126 29 0.15
127 17 0.09
128 2 0.01
129 40 0.21
130 6 0.03
131 6 0.03
132 94 0.48
133 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (132 bp):
AGAATAGTAATATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAAAGGTAA
TTTATTCTAGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATTTATATTAAATTTTAAAG
GC
Found at i:869011 original size:10 final size:10
Alignment explanation
Indices: 868996--869032 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
868986 TACCCATACT
868996 AATGGAATGC
1 AATGGAATGC
869006 AATGGAATGC
1 AATGGAATGC
869016 AATGGAATGC
1 AATGGAATGC
869026 AATGGAA
1 AATGGAA
869033 GGACAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.30, T:0.19
Consensus pattern (10 bp):
AATGGAATGC
Found at i:870055 original size:6 final size:6
Alignment explanation
Indices: 870044--870133 Score: 100
Period size: 6 Copynumber: 15.2 Consensus size: 6
870034 TGAAGAATGA
870044 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA- AAGAAAG --AAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG
*
870089 AAAAGAG AAGAAG AAAAAG AAAGAA- AAAAGAG AAAAAG AAAAAG A
1 AAAA-AG AAAAAG AAAAAG AAA-AAG AAAA-AG AAAAAG AAAAAG A
870134 GAACAAATAA
Statistics
Matches: 73, Mismatches: 2, Indels: 18
0.78 0.02 0.19
Matches are distributed among these distances:
4 4 0.05
5 7 0.10
6 53 0.73
7 9 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:870146 original size:14 final size:14
Alignment explanation
Indices: 870044--870136 Score: 94
Period size: 13 Copynumber: 7.1 Consensus size: 14
870034 TGAAGAATGA
870044 AAAAAG-AAAA-AG
1 AAAAAGAAAAAGAG
*
870056 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAG
870070 AAAAAGAAAGAA-AG
1 AAAAAGAAA-AAGAG
870084 -AAAA-AAAAAGAG
1 AAAAAGAAAAAGAG
*
870096 AAGAAG-AAAA-AG
1 AAAAAGAAAAAGAG
*
870108 AAAGA-AAAAAGAG
1 AAAAAGAAAAAGAG
870121 AAAAAGAAAAAGAG
1 AAAAAGAAAAAGAG
870135 AA
1 AA
870137 CAAATAAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 2 0.03
12 20 0.30
13 21 0.32
14 21 0.32
15 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAG
Found at i:871078 original size:131 final size:131
Alignment explanation
Indices: 870822--871186 Score: 351
Period size: 131 Copynumber: 2.8 Consensus size: 131
870812 TCAATATTGA
* * * * * * * *
870822 AAATAGTAATATCTTTTCATTT-ATGTTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCA
1 AAATAGTAACATCTCTTCATTTCA-ATAGGAGTAATAAATGAATGCTTTAAGGCATGAAATGTCA
* * * * * * * *
870886 TTTA-TTATCGATTGGAAATAATTGGATATTACCGTTCTCTCTCAAATTAGTATTGATTTTTAAT
65 TTTATTTA-CGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTAAATTTTAA-
*
870950 G-TG
128 GACG
* * * * * *
870953 GAATAGTGACATTTCTTCATTTCGATAGGAGTAATAAATGAATGCTTTAAGGTATGAAATGTTAT
1 AAATAGTAACATCTCTTCATTTCAATAGGAGTAATAAATGAATGCTTTAAGGCATGAAATGTCAT
* * * *
871018 TTATTTAAGATTGGAAATTATTAGATATTATTGTTTTCACTCGAATCAATATTAAATTTTAAGAC
66 TTATTTACGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTAAATTTTAAGAC
871083 G
131 G
* * * * * *
871084 AAATAGTAATATCTCTTCATTTCAATTGGGGTAATAAATGATTGTTTTAACGCATGAAATGTCAT
1 AAATAGTAACATCTCTTCATTTCAATAGGAGTAATAAATGAATGCTTTAAGGCATGAAATGTCAT
* *
871149 TTATTCT-CGATTGAAAATAATTAGGTATTATCGTTTTC
66 TTATT-TACGATTGGAAATAATTAGATATTATCGTTTTC
871187 TCTCTTAAAA
Statistics
Matches: 186, Mismatches: 44, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
130 1 0.01
131 181 0.97
132 4 0.02
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (131 bp):
AAATAGTAACATCTCTTCATTTCAATAGGAGTAATAAATGAATGCTTTAAGGCATGAAATGTCAT
TTATTTACGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTAAATTTTAAGAC
G
Found at i:880169 original size:21 final size:22
Alignment explanation
Indices: 880140--880180 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
880130 ACTAGCAAGG
*
880140 ACTAAAAT-ATAAATTAAAAAA
1 ACTAAAATAACAAATTAAAAAA
*
880161 ACTAGAATAACAAATTAAAA
1 ACTAAAATAACAAATTAAAA
880181 GACACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
ACTAAAATAACAAATTAAAAAA
Found at i:883487 original size:21 final size:22
Alignment explanation
Indices: 883458--883498 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
883448 ACTAGCAAGG
*
883458 ACTAAAAT-ATAAATTAAAAAA
1 ACTAAAATAACAAATTAAAAAA
*
883479 ACTAGAATAACAAATTAAAA
1 ACTAAAATAACAAATTAAAA
883499 GACACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
ACTAAAATAACAAATTAAAAAA
Found at i:886811 original size:21 final size:22
Alignment explanation
Indices: 886782--886822 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
886772 ACTAGCAAGG
*
886782 ACTAAAAT-ATAAATTAAAAAA
1 ACTAAAATAACAAATTAAAAAA
*
886803 ACTAGAATAACAAATTAAAA
1 ACTAAAATAACAAATTAAAA
886823 GACACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
ACTAAAATAACAAATTAAAAAA
Found at i:888613 original size:74 final size:75
Alignment explanation
Indices: 888463--888659 Score: 269
Period size: 74 Copynumber: 2.7 Consensus size: 75
888453 AAGAGGAACT
* * * * *
888463 ATCTCAGGTGAGATAAA-ATATGTTTT-GAGGGAAAATCGTTTCAAGTGAGATGAAGTTTGTTTT
1 ATCTCAAGTGAGATAAATTTATGTTTTCGAGTGAAAATTGTCTCAAGTGAGATGAAGTTTGTTTT
888526 AAAAAAAACA
66 AAAAAAAACA
*
888536 ATCTCAAGTGAGATAAATTTATGTTTTCAAGTGAAAATTGTCTCAAGTGAGATGAAG-TTGTTTT
1 ATCTCAAGTGAGATAAATTTATGTTTTCGAGTGAAAATTGTCTCAAGTGAGATGAAGTTTGTTTT
* *
888600 AATAAAAATA
66 AAAAAAAACA
* *
888610 ATCTCAAGTGAGATAAATTTCTG-TTTCGAGTG-AAATTGTCTCAAGCGAGA
1 ATCTCAAGTGAGATAAATTTATGTTTTCGAGTGAAAATTGTCTCAAGTGAGA
888660 CAAATCTTTG
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
72 17 0.15
73 24 0.22
74 45 0.41
75 25 0.23
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (75 bp):
ATCTCAAGTGAGATAAATTTATGTTTTCGAGTGAAAATTGTCTCAAGTGAGATGAAGTTTGTTTT
AAAAAAAACA
Found at i:888615 original size:35 final size:35
Alignment explanation
Indices: 888503--888623 Score: 134
Period size: 35 Copynumber: 3.3 Consensus size: 35
888493 GAAAATCGTT
* *
888503 TCAAGTGAGATGAAGTTTGTTTTAAAAAAAACAATC
1 TCAAGTGAGATGAAG-TTGTTTTAATAAAAATAATC
* * * **
888539 TCAAGTGAGATAAATTTATGTTTTCAAGTGAAAATTGTC
1 TCAAGTGAGATGAA-GT-TGTTTT-AA-TAAAAATAATC
888578 TCAAGTGAGATGAAGTTGTTTTAATAAAAATAATC
1 TCAAGTGAGATGAAGTTGTTTTAATAAAAATAATC
888613 TCAAGTGAGAT
1 TCAAGTGAGAT
888624 AAATTTCTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
35 19 0.28
36 16 0.23
37 12 0.17
38 3 0.04
39 19 0.28
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.34
Consensus pattern (35 bp):
TCAAGTGAGATGAAGTTGTTTTAATAAAAATAATC
Found at i:888652 original size:37 final size:36
Alignment explanation
Indices: 888537--888669 Score: 117
Period size: 37 Copynumber: 3.6 Consensus size: 36
888527 AAAAAAACAA
888537 TCTCAAGTGAGATAAATTTATGTTTTCAAGTGAAAATTG
1 TCTCAAGTGAGATAAATTT-TG-TTTCAAGTG-AAATTG
* * * * **
888576 TCTCAAGTGAGATGAA-GTTGTTTTAA-TAAAAATAA
1 TCTCAAGTGAGATAAATTTTGTTTCAAGT-GAAATTG
*
888611 TCTCAAGTGAGATAAATTTCTGTTTCGAGTGAAATTG
1 TCTCAAGTGAGATAAATTT-TGTTTCAAGTGAAATTG
* *
888648 TCTCAAGCGAGACAAATCTTTG
1 TCTCAAGTGAGATAAAT-TTTG
888670 CTTTGAAATT
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
35 20 0.27
36 6 0.08
37 29 0.39
38 4 0.05
39 15 0.20
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (36 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAGTGAAATTG
Found at i:892767 original size:3 final size:3
Alignment explanation
Indices: 892759--892823 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
892749 TTCGGGCATG
* * * *
892759 TAA TAA TAA TAA TAA TAA TAA AAA TAA TGA TAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
892807 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
892824 AATGAGACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:893358 original size:17 final size:17
Alignment explanation
Indices: 893336--893386 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
893326 GTTGAACAAG
893336 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
**
893353 TTCTTCATC-GGATGAA-
1 TTCTTC-TCATTATGAAC
893369 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
893386 T
1 T
893387 ACTCATTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
17 12 0.44
18 2 0.07
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.45
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:893683 original size:36 final size:36
Alignment explanation
Indices: 893626--893709 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
893616 GGGAAAATTG
* * *
893626 TCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACCA
1 TCTCAAGTGAGAAGAAGTTTGTTTTAACAAAAACAA
* *
893662 TCTCTAGTGAGAAGAATTTTGTTTTAACAAAAACAA
1 TCTCAAGTGAGAAGAAGTTTGTTTTAACAAAAACAA
*
893698 TCTCGAGTGAGA
1 TCTCAAGTGAGA
893710 TAAATCTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTCAAGTGAGAAGAAGTTTGTTTTAACAAAAACAA
Found at i:893946 original size:20 final size:20
Alignment explanation
Indices: 893921--894000 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 20
893911 TATCATCTTG
893921 CTCGAAAGACTTACAAATGA
1 CTCGAAAGACTTACAAATGA
* *
893941 CTCGAAGGATTTA-AGTATTATG-
1 CTCGAAAGACTTACA--A--ATGA
* *
893963 CTCAAAAGACTTACTAATGA
1 CTCGAAAGACTTACAAATGA
* *
893983 CTCGAATGATTTACAAAT
1 CTCGAAAGACTTACAAAT
894001 TTGGGAAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
19 4 0.09
20 25 0.57
21 2 0.05
22 10 0.23
23 3 0.07
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (20 bp):
CTCGAAAGACTTACAAATGA
Found at i:897104 original size:93 final size:92
Alignment explanation
Indices: 896969--897154 Score: 243
Period size: 93 Copynumber: 2.0 Consensus size: 92
896959 TACATTTATC
*
896969 AGGCTAGTTGAAACTTATCCATAAAACCGGGGCAATTAACCAACTGCTCTATAGGGACAACTCAA
1 AGGCTAGTTGAAACTTATCCATAAAACCGGGGCAATTAACCAACTGCTCTAGAGGGACAACTCAA
897034 GCTCTATTGCATATA-ATA-ATAATATAAT
66 GCTCTATT--ATATATATATAT-ATATAAT
* *** * *
897062 AGGCTAGTTGAATA-TTATCCATAAAGCCGGGTTGATTAACCAATTGCTTTAGAGGGACAACTCA
1 AGGCTAGTTGAA-ACTTATCCATAAAACCGGGGCAATTAACCAACTGCTCTAGAGGGACAACTCA
*
897126 AGCTTTATTATATATATATATATATAAT
65 AGCTCTATTATATATATATATATATAAT
897154 A
1 A
897155 ATATAACATG
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
91 5 0.06
92 11 0.13
93 65 0.79
94 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (92 bp):
AGGCTAGTTGAAACTTATCCATAAAACCGGGGCAATTAACCAACTGCTCTAGAGGGACAACTCAA
GCTCTATTATATATATATATATATAAT
Found at i:901422 original size:20 final size:20
Alignment explanation
Indices: 901397--901439 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
901387 TTTAAGAGCT
*
901397 CATTTAGGAGCATATAGATG
1 CATTTAGAAGCATATAGATG
* *
901417 CATTTAGAAGCATTTAGTTG
1 CATTTAGAAGCATATAGATG
901437 CAT
1 CAT
901440 GTGGTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGAAGCATATAGATG
Found at i:904989 original size:3 final size:3
Alignment explanation
Indices: 904981--905016 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
904971 TCTAAATAAA
904981 ATT ATT ATTT ATT ATTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT A-TT ATT A-TT ATT ATT ATT ATT ATT ATT A
905017 ATAAATGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:904994 original size:7 final size:7
Alignment explanation
Indices: 904982--905015 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
904972 CTAAATAAAA
904982 TTATTAT
1 TTATTAT
904989 TTATTAT
1 TTATTAT
904996 TTATTA-
1 TTATTAT
905002 TTATTA-
1 TTATTAT
905008 TTATTAT
1 TTATTAT
905015 T
1 T
905016 AATAAATGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTAT
Found at i:910276 original size:13 final size:13
Alignment explanation
Indices: 910258--910287 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
910248 AATCCTACAT
910258 CAAAAACACCACA
1 CAAAAACACCACA
910271 CAAAAACACCACA
1 CAAAAACACCACA
910284 CAAA
1 CAAA
910288 GCTCTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.37, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAACACCACA
Found at i:914173 original size:90 final size:90
Alignment explanation
Indices: 914020--914185 Score: 280
Period size: 90 Copynumber: 1.8 Consensus size: 90
914010 TTTTATAGCG
914020 AAGTTACCCTAATCATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
1 AAGTTACCCTAATCATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
*
914085 AAAATTTAATAATCCTTATATATCC
66 AAAATTAAATAATCCTTATATATCC
* *
914110 AAGTTACCCTAATCATATTAGGGATTT-TATTATTTCAAATTACTTAAATTTATATTTAATTAAT
1 AAGTTACCCTAATCATATTAGGG-TTTCTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
*
914174 TGAAATTAAATA
65 TAAAATTAAATA
914186 TTCAGGATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 68 0.96
91 3 0.04
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (90 bp):
AAGTTACCCTAATCATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
AAAATTAAATAATCCTTATATATCC
Found at i:918160 original size:18 final size:18
Alignment explanation
Indices: 918137--918172 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
918127 GCATAAACTT
918137 TTGCTCCATTTCCCACTC
1 TTGCTCCATTTCCCACTC
918155 TTGCTCCATTTCCCACTC
1 TTGCTCCATTTCCCACTC
918173 GTAGGTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.06, T:0.39
Consensus pattern (18 bp):
TTGCTCCATTTCCCACTC
Found at i:921043 original size:90 final size:90
Alignment explanation
Indices: 920880--921057 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 90
920870 CCTAACACAC
*
920880 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTAT
1 CCTTATATAGCCAAGTTACCCTAATAATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTAT
*
920945 ATTTAATTAATTAAAATTTAATAAT
66 ATTTAATTAATTAAAATTAAATAAT
* *
920970 CCTTATATATCCAAGTTACCCTAATCATATTAGGGATTT-TATTATTTCAAATTAATTAAATCTA
1 CCTTATATAGCCAAGTTACCCTAATAATATTAGGG-TTTCTATTATTTCAAATTAATTAAATCTA
*
921034 TATTTAATTAATTGAAATTAAATA
65 TATTTAATTAATTAAAATTAAATA
921058 TTCGAGATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 79 0.96
91 3 0.04
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (90 bp):
CCTTATATAGCCAAGTTACCCTAATAATATTAGGGTTTCTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTAAAATTAAATAAT
Found at i:926821 original size:18 final size:20
Alignment explanation
Indices: 926798--926835 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
926788 TTTTCATTTT
926798 TTATA-TTTA-TTATTATTC
1 TTATAGTTTACTTATTATTC
926816 TTATATGTTTACTTATTATT
1 TTATA-GTTTACTTATTATT
926836 ATTACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATAGTTTACTTATTATTC
Found at i:927798 original size:107 final size:108
Alignment explanation
Indices: 927569--927811 Score: 262
Period size: 107 Copynumber: 2.2 Consensus size: 108
927559 TCCCACTAGG
* * * *
927569 TTTAGTGCATTTTTTGCATTTTGATCACCTGTAGAGACCAAATCTGATATTTACCCTTTTTCATG
1 TTTAGAGCA-TTTTTGTATTTTGATCACCTATAGAGACCAAATCTGATATTTACCATTTTTCATG
* * *
927634 TATGTTACATATTTACTGTGTTATTTACTATTTAGTCTCTCTAAG
65 TATGTTA-ATATTTACTGGGTTATTTACTATTTAGTCCCTCTAAA
* *
927679 TTTAGAGCATTTTTGTATTTGGATCACCTATAGGGACCAAATCT-AGTATTTACCATTTTGTGCA
1 TTTAGAGCATTTTTGTATTTTGATCACCTATAGAGACCAAATCTGA-TATTTACCATTTT-T-CA
* * ** *
927743 TGT-TG-T-GTATTTATTGGGTTATTTGTTGTTTAGTCCCTCTAAA
63 TGTATGTTAATATTTACTGGGTTATTTACTATTTAGTCCCTCTAAA
*
927786 TTTA-ACGTATTTTTGTATTTTGATCA
1 TTTAGA-GCATTTTTGTATTTTGATCA
927812 TATGTAGTGA
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
106 1 0.01
107 51 0.45
108 1 0.01
109 44 0.39
110 11 0.10
111 5 0.04
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (108 bp):
TTTAGAGCATTTTTGTATTTTGATCACCTATAGAGACCAAATCTGATATTTACCATTTTTCATGT
ATGTTAATATTTACTGGGTTATTTACTATTTAGTCCCTCTAAA
Found at i:928621 original size:140 final size:140
Alignment explanation
Indices: 928369--928648 Score: 560
Period size: 140 Copynumber: 2.0 Consensus size: 140
928359 TTTTAAAAAT
928369 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
1 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
928434 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
66 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
928499 TGGATCTAAG
131 TGGATCTAAG
928509 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
1 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
928574 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
66 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
928639 TGGATCTAAG
131 TGGATCTAAG
928649 TTCTTTTGCA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (140 bp):
ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
TGGATCTAAG
Found at i:928723 original size:140 final size:139
Alignment explanation
Indices: 928369--928724 Score: 357
Period size: 140 Copynumber: 2.5 Consensus size: 139
928359 TTTTAAAAAT
* * * * * ** **
928369 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
1 ATTTTAATTTAATTCCTTAATTTCGAATAGATTATTTA-ATAATTATAAATATATTAAATAGGTT
* *
928434 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
65 AAATAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
928499 TGGATCTAAG
130 TGGATCTAAG
* * * * * ** **
928509 ATTTTAATTTAATTCCTTAATTTCTAATAGGTTATTTAGATAATTATTAGTATTTTTGATTTGTT
1 ATTTTAATTTAATTCCTTAATTTCGAATAGATTATTTA-ATAATTATAAATATATTAAATAGGTT
* *
928574 GATTAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
65 AAATAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTC
928639 TGGATCTAAG
130 TGGATCTAAG
* *
928649 TTCTTTTGCACTTT-ATTCCTTAAATCTT-GAATTAGATT-TTT-A-AATTA-AAATA-ATTAAA
1 --ATTTT--AATTTAATTCCTT-AAT-TTCGAA-TAGATTATTTAATAATTATAAATATATTAAA
928707 TAGGTTAAATAGATCCTA
59 TAGGTTAAATA-ATCCTA
928725 TAACACCATC
Statistics
Matches: 195, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
139 10 0.05
140 149 0.76
141 5 0.03
142 5 0.03
143 7 0.04
144 12 0.06
145 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.49
Consensus pattern (139 bp):
ATTTTAATTTAATTCCTTAATTTCGAATAGATTATTTAATAATTATAAATATATTAAATAGGTTA
AATAATCCTAAAATTTTAGGAATTATTGATTTTAGTCCTTGAACTTTTAGATTTTTTAGAACTCT
GGATCTAAG
Found at i:929417 original size:81 final size:81
Alignment explanation
Indices: 929239--929894 Score: 933
Period size: 81 Copynumber: 8.1 Consensus size: 81
929229 TGTTAAGCAT
* * * *
929239 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCGTCTAACTTTCAATATTGGCA-CTTTCTCCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
929303 ATGCACAACTATGCAA
66 ATGCACAGCTAGGCAA
* *
929319 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
929384 ATTCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * *
929400 TTAATCTTTTACTCAAAGGAATTTAGCATTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
929465 ATGCACAGTTAGGCAA
66 ATGCACAGCTAGGCAA
* * * **
929481 TTTATCTTTTACTCAAAGGCGTTTAGCCTTTCATCTAATTTGCAATATTGGCA--TTTCCACCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
929544 ATGCACAACTAGGCAA
66 ATGCACAGCTAGGCAA
* *
929560 TTAATCTTTTACTCAAAAGCATTTAGCCTTTAATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
929625 ATGCACAGCTAGGTAA
66 ATGCACAGCTAGGCAA
* * *
929641 TTAATCTTTTACTCAAAGGTATTTAGCCTTTCATCTAACTTGCAATATTGGCATCTTTCTACCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
929706 ATTCACAGCTAGGCTA
66 ATGCACAGCTAGGCAA
* * *
929722 TTAATCTTTTACTCAAA-GCGATTTAGCCTTTCAGCTAACTTGCAATATTGACACTTTTCTGCCA
1 TTAATCTTTTACTCAAAGGC-ATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCA
*
929786 AATGCACAGCTAGGAAA
65 AATGCACAGCTAGGCAA
* * * * *
929803 CTAATCTTTTACTCAAAGGTATTTATCCTTTCATTTAACTTGCAATATTGGTACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
929868 ATGCACAACTAGACAA
66 ATGCACAGCTAGGCAA
929884 TTAATCTTTTA
1 TTAATCTTTTA
929895 TTTTAAGAAC
Statistics
Matches: 509, Mismatches: 62, Indels: 9
0.88 0.11 0.02
Matches are distributed among these distances:
79 70 0.14
80 50 0.10
81 388 0.76
82 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
ATGCACAGCTAGGCAA
Found at i:929835 original size:322 final size:322
Alignment explanation
Indices: 929239--929894 Score: 994
Period size: 322 Copynumber: 2.0 Consensus size: 322
929229 TGTTAAGCAT
* ** *
929239 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCGTCTAACTTTCAATATTGGCACTTTCTCCCAAA
1 TTAATCTTTTACTCAAAAGAATTTAGCCTTTAATCTAACTTGCAATATTGGCACTTTCTCCCAAA
*
929304 TGCACAACTATGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTG
66 TGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTG
* *
929369 ACACATTTCTGCCAAATTCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTCAT
131 ACACATTTCTACCAAATTCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTCAG
* * * *
929434 CTAACTTGCAATATTGACACCTTTCTGCCAAATGCACAGTTAGGCAATTTATCTTTTACTCAAAG
196 CTAACTTGCAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAACTAATCTTTTACTCAAAG
* * *
929499 GCGTTTAGCCTTTCATCTAATTTGCAATATTGG-CATTTCCACCAAATGCACAACTAGGCAA
261 GCATTTAGCCTTTCATCTAACTTGCAATATTGGACATTTCCACCAAATGCACAACTAGACAA
* *
929560 TTAATCTTTTACTCAAAAGCATTTAGCCTTTAATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAAGAATTTAGCCTTTAATCTAACTTGCAATATTGGCA-CTTTCTCCCAA
* * *
929625 ATGCACAGCTAGGTAATTAATCTTTTACTCAAAGGTATTTAGCCTTTCATCTAACTTGCAATATT
65 ATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
* * *
929690 GGCATC-TTTCTACCAAATTCACAGCTAGGCTATTAATCTTTTACTCAAAGCG-ATTTAGCCTTT
130 GACA-CATTTCTACCAAATTCACAGCTAGGCAATTAATCTTTTACTCAAAG-GAATTTAGCATTT
*
929753 CAGCTAACTTGCAATATTGACACTTTTCTGCCAAATGCACAGCTAGGAAACTAATCTTTTACTCA
193 CAGCTAACTTGCAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAACTAATCTTTTACTCA
* * * * **
929818 AAGGTATTTATCCTTTCATTTAACTTGCAATATTGGTACCTTTCTGCCAAATGCACAACTAGACA
258 AAGGCATTTAGCCTTTCATCTAACTTGCAATATTGG-ACATTTCCACCAAATGCACAACTAGACA
929883 A
322 A
929884 TTAATCTTTTA
1 TTAATCTTTTA
929895 TTTTAAGAAC
Statistics
Matches: 301, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
321 48 0.16
322 216 0.72
323 2 0.01
324 35 0.12
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (322 bp):
TTAATCTTTTACTCAAAAGAATTTAGCCTTTAATCTAACTTGCAATATTGGCACTTTCTCCCAAA
TGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTG
ACACATTTCTACCAAATTCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTCAG
CTAACTTGCAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAACTAATCTTTTACTCAAAG
GCATTTAGCCTTTCATCTAACTTGCAATATTGGACATTTCCACCAAATGCACAACTAGACAA
Found at i:930439 original size:95 final size:95
Alignment explanation
Indices: 930311--930606 Score: 407
Period size: 95 Copynumber: 3.1 Consensus size: 95
930301 CCATACCATG
* * * * *
930311 GTATAGATACTTCTATACAATGGTATTGATACTCCCTTTAAATATCGATTCCATTTTGACATTCT
1 GTATCGATACTTCTATACTATGGTATCGATACTCCCTTTAAGTATCGATACCATTTTGACATTCT
930376 GGAATCCATGGTATCGATACCTTTCTCCTA
66 GGAATCCATGGTATCGATACCTTTCTCCTA
* * *
930406 GTACCGATACTTCTATACTATGGTATCGATACTCCCTTTTAGTATCGATACCATTTTGGCATTCT
1 GTATCGATACTTCTATACTATGGTATCGATACTCCCTTTAAGTATCGATACCATTTTGACATTCT
*
930471 GGAATCCATGGTATTGATACCTTTCT-CTAA
66 GGAATCCATGGTATCGATACCTTTCTCCT-A
* * *
930501 GTATCGATACTTCTATACTATGGTATCGATACTCCCTTTCAGTATCGATACCATTTAT-ATATTA
1 GTATCGATACTTCTATACTATGGTATCGATACTCCCTTTAAGTATCGATACCATTT-TGACATTC
* * * * *
930565 TGGATTCCAAGGTATCAATAACTTTCTCTTA
65 TGGAATCCATGGTATCGATACCTTTCTCCTA
930596 GTATCGATACT
1 GTATCGATACT
930607 CACACCAGTA
Statistics
Matches: 178, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
94 2 0.01
95 174 0.98
96 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGGTATCGATACTCCCTTTAAGTATCGATACCATTTTGACATTCT
GGAATCCATGGTATCGATACCTTTCTCCTA
Found at i:934615 original size:81 final size:81
Alignment explanation
Indices: 934482--935137 Score: 860
Period size: 81 Copynumber: 8.1 Consensus size: 81
934472 TGTTAAGCAT
* * * *
934482 TTAATCTTTTACTTAAAGGCATTTAGCCTTTCGTCTAACTTGTAATATTGGCACCTTTCTCCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
934547 ATGCACAACTATG-AA
66 ATGCACAGCTAGGCAA
* * * *
934562 TTTAATCTTTTATTCAAAGGCATTTAGCCTTTCATCTAACTTGTAATATTGGCACATTTCTTCCA
1 -TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCA
*
934627 AA--CACATCTAGGCAA
65 AATGCACAGCTAGGCAA
* * ** * * * *
934642 TTAATCCTTTACTCAAAGGCATTTAGCCTTTCATCAAACTTAAAATATTGACATCATTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
934707 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* *
934723 TTAATCTTTTACTTAAAGGCATTTAGCCTTTCATCTAACTTTCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
934788 ATGCACAGCTAGGAAA
66 ATGCACAGCTAGGCAA
** * *
934804 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCATTTTTTTTTACC
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCA--CCTTTCTGCC
934869 AAATGCACAGCTAGGCAA
64 AAATGCACAGCTAGGCAA
* * * * * *
934887 TTAATC-CTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCACTATTGACACATTTCTGCTAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
934951 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * *
934967 TTAATCTTTTACTCAAA--TATTTAGCCTTTCATCTAACTTGCAATATTGGAACCTTTCTGTCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
935030 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * * *
935046 TTAATCTTTCACTCAGAGGCATTTAGCCTTTTATCTAACTTGCAATATTGGTACCATTT-TGCCA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACC-TTTCTGCCA
935110 AATGCACA-CATAGGCAA
65 AATGCACAGC-TAGGCAA
935127 TTAATCTTTTA
1 TTAATCTTTTA
935138 TTTTAAGAAT
Statistics
Matches: 506, Mismatches: 59, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
79 134 0.26
80 32 0.06
81 266 0.53
82 45 0.09
83 29 0.06
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
ATGCACAGCTAGGCAA
Found at i:934760 original size:160 final size:161
Alignment explanation
Indices: 934482--935137 Score: 844
Period size: 160 Copynumber: 4.1 Consensus size: 161
934472 TGTTAAGCAT
* * * * *
934482 TTAATCTTTTACTTAAAGGCATTTAGCCTTTCGTCTAACTTGTAATATTGGCACCTTTCTCCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTTCCAA
* * * *
934547 ATGCACAACTATG-AATTTAATCTTTTATTCAAAGGCATTTAGCCTTTCATCTAACTTGTAATAT
66 ATGCACAGCTAGGCAA-TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATAT
* *
934611 TGGCACATTTCTTCCAAA-CACATCTAGGCAA
130 TGGCACATTTCTGCCAAAGCACAGCTAGGCAA
* * ** * *
934642 TTAATCCTTTACTCAAAGGCATTTAGCCTTTCATCAAACTTAAAATATTGACATCATTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTTCCAA
* *
934707 ATGCACAGCTAGGCAATTAATCTTTTACTTAAAGGCATTTAGCCTTTCATCTAACTTTCAATATT
66 ATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
* *
934772 GGCACCTTTCTGCCAAATGCACAGCTAGGAAA
131 GGCACATTTCTGCCAAA-GCACAGCTAGGCAA
* ** *
934804 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCATTTTTTTTTACC
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACA-CCTTTCTT-CC
* * *
934869 AAATGCACAGCTAGGCAATTAATC-CTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCACTA
64 AAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATA
* *
934933 TTGACACATTTCTGCTAAATGCACAGCTAGGCAA
129 TTGGCACATTTCTGCCAAA-GCACAGCTAGGCAA
*
934967 TTAATCTTTTACTCAAA--TATTTAGCCTTTCATCTAACTTGCAATATTGGA-ACCTTTCTGT-C
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT-GACACCTTTCT-TCC
* * *
935028 AAATGCACAGCTAGGCAATTAATCTTTCACTCAGAGGCATTTAGCCTTTTATCTAACTTGCAATA
64 AAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATA
*
935093 TTGGTACCATTT-TGCCAAATGCACA-CATAGGCAA
129 TTGGCA-CATTTCTGCCAAA-GCACAGC-TAGGCAA
935127 TTAATCTTTTA
1 TTAATCTTTTA
935138 TTTTAAGAAT
Statistics
Matches: 435, Mismatches: 51, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
159 26 0.06
160 198 0.46
161 38 0.09
162 60 0.14
163 87 0.20
164 26 0.06
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (161 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTTCCAA
ATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
GGCACATTTCTGCCAAAGCACAGCTAGGCAA
Found at i:935069 original size:323 final size:321
Alignment explanation
Indices: 934482--935137 Score: 885
Period size: 323 Copynumber: 2.0 Consensus size: 321
934472 TGTTAAGCAT
* * * *
934482 TTAATCTTTTACTTAAAGGCATTTAGCCTTTCGTCTAACTTGTAATATTGGCACCTTTCTCCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTACCAA
* * * *
934547 ATGCACAACTATGAATTTAATCTTTTATTCAAAGGCATTTAGCCTTTCATCTAACTTGTAATATT
66 ATGCACAACTAGGAATTTAATCTCTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
* * *
934612 GGCACATTTCTTCCAAACACATCTAGGCAATTAATCCTTTACTCAAAGGCATTTAGCCTTTCATC
131 GACACATTTCTGCCAAACACAGCTAGGCAATTAATCCTTTACTCAAA-GCATTTAGCCTTTCATC
* * *
934677 AAACTTAAAATATTGACATCATTCTTCCAAATGCACAGCTAGGCAATTAATCTTTTACTTAAAGG
195 AAACTTAAAATATTGACACCATTCTTCCAAATGCACAGCTAGGCAATTAATCTTTCACTCAAAGG
*
934742 CATTTAGCCTTTCATCTAACTTTCAATATTGGCACC-TTTCTGCCAAATGCACAGC-TAGGAAA
260 CATTTAGCCTTTCATCTAACTTGCAATATTGGCACCATTT-TGCCAAATGCACA-CATAGGAAA
** *
934804 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCATTTTTTTTTACC
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCA--CCTTTCTACC
* * *
934869 AAATGCACAGCTAGGCAA-TTAATC-CTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCACT
64 AAATGCACAACTAGG-AATTTAATCTCTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAT
* * *
934932 ATTGACACATTTCTGCTAAATGCACAGCTAGGCAATTAATCTTTTACTCAAA-TATTTAGCCTTT
128 ATTGACACATTTCTGCCAAA--CACAGCTAGGCAATTAATCCTTTACTCAAAGCATTTAGCCTTT
* ** *
934996 CATCTAACTTGCAATATTGGA-ACCTTTCTGT-CAAATGCACAGCTAGGCAATTAATCTTTCACT
191 CATCAAACTTAAAATATT-GACACCATTCT-TCCAAATGCACAGCTAGGCAATTAATCTTTCACT
* * *
935059 CAGAGGCATTTAGCCTTTTATCTAACTTGCAATATTGGTACCATTTTGCCAAATGCACACATAGG
254 CAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCATTTTGCCAAATGCACACATAGG
*
935124 CAA
319 AAA
935127 TTAATCTTTTA
1 TTAATCTTTTA
935138 TTTTAAGAAT
Statistics
Matches: 293, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
322 51 0.17
323 181 0.62
324 31 0.11
325 30 0.10
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (321 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTACCAA
ATGCACAACTAGGAATTTAATCTCTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
GACACATTTCTGCCAAACACAGCTAGGCAATTAATCCTTTACTCAAAGCATTTAGCCTTTCATCA
AACTTAAAATATTGACACCATTCTTCCAAATGCACAGCTAGGCAATTAATCTTTCACTCAAAGGC
ATTTAGCCTTTCATCTAACTTGCAATATTGGCACCATTTTGCCAAATGCACACATAGGAAA
Found at i:938779 original size:18 final size:18
Alignment explanation
Indices: 938722--938787 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
938712 CAGCTTGGTG
938722 AGCCACTGAGCCGAGCCGA
1 AGCCACTGAGCCGAGCC-A
* * * **
938741 A-CCATTGAGTCAAGCTG
1 AGCCACTGAGCCGAGCCA
938758 AGCCACTGAGCCGAGCCA
1 AGCCACTGAGCCGAGCCA
938776 AGCCAACTGAGC
1 AGCC-ACTGAGC
938788 TGTTGATCTG
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
17 1 0.03
18 26 0.74
19 8 0.23
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (18 bp):
AGCCACTGAGCCGAGCCA
Found at i:941375 original size:31 final size:31
Alignment explanation
Indices: 941337--941470 Score: 108
Period size: 31 Copynumber: 4.3 Consensus size: 31
941327 TTAATATGAC
*
941337 TCTTGGGTAGGTTCTGCGGCCCCGAGATCAT
1 TCTTGGGTAGGTTCTGCGGCCCTGAGATCAT
** * **
941368 TCTTGGGTAGGCCCTGCGGCCCTGGGATTTT
1 TCTTGGGTAGGTTCTGCGGCCCTGAGATCAT
* * *
941399 TATTGGGTA-GTCTCTGTGGCCTTGAGATCAT
1 TCTTGGGTAGGT-TCTGCGGCCCTGAGATCAT
* ** * * *
941430 TCTTGGGTACGCCCTGCAGCCCTGAGAGCTT
1 TCTTGGGTAGGTTCTGCGGCCCTGAGATCAT
*
941461 TCATGGGTAG
1 TCTTGGGTAG
941471 ACCCCGTGGT
Statistics
Matches: 77, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
30 1 0.01
31 75 0.97
32 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (31 bp):
TCTTGGGTAGGTTCTGCGGCCCTGAGATCAT
Found at i:941487 original size:62 final size:62
Alignment explanation
Indices: 941360--941487 Score: 152
Period size: 62 Copynumber: 2.1 Consensus size: 62
941350 CTGCGGCCCC
* * * * * * * *
941360 GAGATCATTCTTGGGTAGGCCCTGCGGCCCTGGGATTTTTATTGGGTAGTCTCTGTGGCCTT
1 GAGATCATTCTTGGGTACGCCCTGCAGCCCTGAGACTTTCATTGGGTAGACCCCGTGGCCTT
941422 GAGATCATTCTTGGGTACGCCCTGCAGCCCTGAGAGCTTTCA-TGGGTAGACCCCGTGGTCC-T
1 GAGATCATTCTTGGGTACGCCCTGCAGCCCTGAGA-CTTTCATTGGGTAGACCCCGTGG-CCTT
941484 GAGA
1 GAGA
941488 ACTTTTTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 50 0.89
63 6 0.11
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (62 bp):
GAGATCATTCTTGGGTACGCCCTGCAGCCCTGAGACTTTCATTGGGTAGACCCCGTGGCCTT
Found at i:946267 original size:31 final size:31
Alignment explanation
Indices: 946195--946364 Score: 160
Period size: 31 Copynumber: 5.5 Consensus size: 31
946185 CTAATGTGAC
*** * *
946195 TCTTGGGTAGGTTTTGCGGCCCCGAGATCAT
1 TCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
* *
946226 TCTTTGGGTAGGCCCTGCGGCCCTGGGATTTT
1 TC-TTGGGTAGGCCCTGCGGCCCTGAGATCTT
* * * * *
946258 TATTGGGTAGTCCCTGTGGCCTTGAGATCAT
1 TCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
*
946289 TCTTGTGTAGGCCCTGCGGCCCTGAGATCTT
1 TCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
* * ** *
946320 TCTTGGGTAGACCCCGTAGCCCTGAGAACTT
1 TCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
*
946351 TTTTGGGTAGGCCC
1 TCTTGGGTAGGCCC
946365 ACGATTTTCA
Statistics
Matches: 110, Mismatches: 28, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
31 87 0.79
32 23 0.21
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.32
Consensus pattern (31 bp):
TCTTGGGTAGGCCCTGCGGCCCTGAGATCTT
Found at i:946346 original size:62 final size:62
Alignment explanation
Indices: 946213--946364 Score: 187
Period size: 62 Copynumber: 2.4 Consensus size: 62
946203 AGGTTTTGCG
* * * * * *
946213 GCCCCGAGATCATTCTTTGGGTAGGCCCTGCGGCCCTGGGATTTTTATTGGGTAGTCCCTGTG
1 GCCCTGAGATCATTC-TTGGGTAGGCCCTGCGGCCCTGAGATCTTTATTGGGTAGACCCCGTA
* * *
946276 GCCTTGAGATCATTCTTGTGTAGGCCCTGCGGCCCTGAGATCTTTCTTGGGTAGACCCCGTA
1 GCCCTGAGATCATTCTTGGGTAGGCCCTGCGGCCCTGAGATCTTTATTGGGTAGACCCCGTA
* * *
946338 GCCCTGAGAACTTTTTTGGGTAGGCCC
1 GCCCTGAGATCATTCTTGGGTAGGCCC
946365 ACGATTTTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
62 62 0.83
63 13 0.17
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.31
Consensus pattern (62 bp):
GCCCTGAGATCATTCTTGGGTAGGCCCTGCGGCCCTGAGATCTTTATTGGGTAGACCCCGTA
Found at i:948383 original size:18 final size:18
Alignment explanation
Indices: 948360--948408 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
948350 TGGTGAGCCA
948360 CTGAGCCAAGCCGCCGAG
1 CTGAGCCAAGCCGCCGAG
* * *
948378 CTGAGCC-ATCGAGTCGAG
1 CTGAGCCAAGC-CGCCGAG
948396 CTGAGCCAAGCCG
1 CTGAGCCAAGCCG
948409 ACTGAGCCGT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.22, C:0.35, G:0.33, T:0.10
Consensus pattern (18 bp):
CTGAGCCAAGCCGCCGAG
Found at i:953348 original size:29 final size:29
Alignment explanation
Indices: 953316--953465 Score: 128
Period size: 29 Copynumber: 5.2 Consensus size: 29
953306 AATTGGGCGT
*
953316 TATTCTGGTAATTAATTCAAAATAGGTGC
1 TATTTTGGTAATTAATTCAAAATAGGTGC
** *
953345 TATTTTGGTAATTTTTTTCAAAA-AGGTGA
1 TATTTTGGTAA-TTAATTCAAAATAGGTGC
* * **
953374 TATTTTTGG-AATTAATTC-GATTTTGTGC
1 TA-TTTTGGTAATTAATTCAAAATAGGTGC
* * * *
953402 TATTATGGGAATTAATTCAAAATGGGTGT
1 TATTTTGGTAATTAATTCAAAATAGGTGC
953431 TATTTTGGTAATTAATTCGAAAA-AGGGTGC
1 TATTTTGGTAATTAATTC-AAAATA-GGTGC
953461 TATTT
1 TATTT
953466 CTGTAAAATA
Statistics
Matches: 93, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
27 6 0.06
28 19 0.20
29 40 0.43
30 28 0.30
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (29 bp):
TATTTTGGTAATTAATTCAAAATAGGTGC
Found at i:960576 original size:29 final size:29
Alignment explanation
Indices: 960544--960685 Score: 101
Period size: 29 Copynumber: 4.9 Consensus size: 29
960534 ATTAGATTTT
*
960544 GGTGCTATTCTGAG-AATTAATTTGAAATA
1 GGTGCTATTATG-GTAATTAATTTGAAATA
* * **
960573 GGTGCAATTTTGGTAATTTTTTTCGAAA-A
1 GGTGCTATTATGGTAATTAATTT-GAAATA
* * * ** *
960602 -GTGATATTATGGGAATTAATTCGATTTT
1 GGTGCTATTATGGTAATTAATTTGAAATA
* ** *
960630 GGTGCTATTATGGAAATTAATTCAAAATG
1 GGTGCTATTATGGTAATTAATTTGAAATA
*
960659 GGTGCTATTTTGGTAATTAATTTGAAA
1 GGTGCTATTATGGTAATTAATTTGAAA
960686 AGGGGTGCTA
Statistics
Matches: 85, Mismatches: 24, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
27 2 0.02
28 16 0.19
29 63 0.74
30 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (29 bp):
GGTGCTATTATGGTAATTAATTTGAAATA
Found at i:960694 original size:30 final size:29
Alignment explanation
Indices: 960630--960698 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
960620 ATTCGATTTT
* *
960630 GGTGCTATTATGGAAATTAATTCAAAATG
1 GGTGCTATTTTGGAAATTAATTCAAAAGG
* *
960659 GGTGCTATTTTGGTAATTAATTTGAAAAGG
1 GGTGCTATTTTGGAAATTAA-TTCAAAAGG
960689 GGTGCTATTT
1 GGTGCTATTT
960699 CTGTAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (29 bp):
GGTGCTATTTTGGAAATTAATTCAAAAGG
Found at i:961479 original size:15 final size:15
Alignment explanation
Indices: 961456--961489 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
961446 ACGGTATTTT
961456 ATATCGATTTTCTGA
1 ATATCGATTTTCTGA
*
961471 ATATTGATTTTCTG-
1 ATATCGATTTTCTGA
961485 ATATC
1 ATATC
961490 TGAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
ATATCGATTTTCTGA
Found at i:962362 original size:19 final size:19
Alignment explanation
Indices: 962340--962386 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
962330 TGTAATTTTG
* *
962340 GTATCGATATTGTAGGATA
1 GTATCGATATTATAGGACA
* *
962359 GTATCGGTATTATAGGGCA
1 GTATCGATATTATAGGACA
962378 GTATCGATA
1 GTATCGATA
962387 CCTTAGATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.34
Consensus pattern (19 bp):
GTATCGATATTATAGGACA
Found at i:964817 original size:41 final size:41
Alignment explanation
Indices: 964760--964841 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
964750 ATTTTCTAGA
964760 CTCGCTTTGGAGGATAAAGATTATGTTTATTGTCCTAGTGC
1 CTCGCTTTGGAGGATAAAGATTATGTTTATTGTCCTAGTGC
*
964801 CTCGCTTTGGAGGATAAAGATTATGTTTATTGTCTTAGTGC
1 CTCGCTTTGGAGGATAAAGATTATGTTTATTGTCCTAGTGC
964842 TAGTGATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (41 bp):
CTCGCTTTGGAGGATAAAGATTATGTTTATTGTCCTAGTGC
Found at i:965748 original size:43 final size:43
Alignment explanation
Indices: 965700--965826 Score: 164
Period size: 43 Copynumber: 3.0 Consensus size: 43
965690 AAGAATGCTT
*
965700 TTAATATGTTAGTTTAATGTATTTGTGGATTGTTACTTTGGTC
1 TTAATATGTTAGTTTGATGTATTTGTGGATTGTTACTTTGGTC
* * * *
965743 TTAATATGTTAGTTTGGTGAATTTGTGGATTGGTACTTTGGTT
1 TTAATATGTTAGTTTGATGTATTTGTGGATTGTTACTTTGGTC
* * * * *
965786 TTAATATGTTAATTTGTTGTCTTTGTGGATTATTAGTTTGG
1 TTAATATGTTAGTTTGATGTATTTGTGGATTGTTACTTTGG
965827 AATTTAGACT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.20, C:0.03, G:0.24, T:0.54
Consensus pattern (43 bp):
TTAATATGTTAGTTTGATGTATTTGTGGATTGTTACTTTGGTC
Found at i:966494 original size:69 final size:68
Alignment explanation
Indices: 966363--966509 Score: 172
Period size: 69 Copynumber: 2.1 Consensus size: 68
966353 TTGCATGATA
* * * * * * *
966363 ATGGTGACTCACACGGGAGCATCTAATCATTTTTATTTCATGTGATTCGTACAGAAGTCTCAAAG
1 ATGGTGACTCACACGGGAACACCTAATCATGTTTATTTCAGGTGACTCG-ACAGAAGCCTCAAAA
966428 GATT
65 GATT
*
966432 ATGGTGACTCACACGGGAACACCTAATCATGTTTATTTCGGGTGACTC-ACATGAGAGCCTCAAA
1 ATGGTGACTCACACGGGAACACCTAATCATGTTTATTTCAGGTGACTCGACA-GA-AGCCTCAAA
966496 AGATT
64 AGATT
966501 -TAGGTGACT
1 AT-GGTGACT
966510 TGCATGAAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
67 3 0.04
68 3 0.04
69 61 0.91
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (68 bp):
ATGGTGACTCACACGGGAACACCTAATCATGTTTATTTCAGGTGACTCGACAGAAGCCTCAAAAG
ATT
Found at i:967753 original size:20 final size:20
Alignment explanation
Indices: 967728--967780 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
967718 ATTGAACCGG
967728 CTTGAACCGGTCTAAGTCAA
1 CTTGAACCGGTCTAAGTCAA
* ** *
967748 CTTGAATCGACCTAAGTTAA
1 CTTGAACCGGTCTAAGTCAA
*
967768 CTTGAACCAGTCT
1 CTTGAACCGGTCT
967781 GACCCGTTAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (20 bp):
CTTGAACCGGTCTAAGTCAA
Found at i:969692 original size:20 final size:20
Alignment explanation
Indices: 969669--969716 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
969659 TATAACTTTT
*
969669 TTTTTATTAAATTTACTATG
1 TTTTTATTAAATTTAATATG
969689 TTTTTGATTAAATTTAATATG
1 TTTTT-ATTAAATTTAATATG
969710 TTTTTAT
1 TTTTTAT
969717 GACTGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTATTAAATTTAATATG
Found at i:970692 original size:29 final size:29
Alignment explanation
Indices: 970649--970825 Score: 150
Period size: 29 Copynumber: 6.2 Consensus size: 29
970639 GTTGACCTGG
*
970649 TGATATTTTAG-TAATTATTGTGAAAATGA
1 TGATATTTT-GCTAATTATTTTGAAAATGA
*
970678 TGATATTTTGCTAATTATTTTGAAAATGG
1 TGATATTTTGCTAATTATTTTGAAAATGA
* * *
970707 TGCTATTTT-CATAATTTTTTTTAAAA--A
1 TGATATTTTGC-TAATTATTTTGAAAATGA
* * *
970734 TGATATTTT-CGTAATTTTTTTTAAAAAG-
1 TGATATTTTGC-TAATTATTTTGAAAATGA
* * *
970762 TGATATTTTGGTAATTATTTTAAAAATGG
1 TGATATTTTGCTAATTATTTTGAAAATGA
** *
970791 TGATATTTTGGAAATTTATTTTGAAAATGC
1 TGATATTTTGCTAA-TTATTTTGAAAATGA
970821 TGATA
1 TGATA
970826 ATTGTGTAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
27 24 0.19
28 25 0.20
29 59 0.47
30 18 0.14
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (29 bp):
TGATATTTTGCTAATTATTTTGAAAATGA
Found at i:970753 original size:28 final size:27
Alignment explanation
Indices: 970710--970789 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
970700 AAAATGGTGC
*
970710 TATTTTCATAATTTTTTTTAAAAATGA
1 TATTTTCGTAATTTTTTTTAAAAATGA
970737 TATTTTCGTAATTTTTTTTAAAAAGTGA
1 TATTTTCGTAATTTTTTTTAAAAA-TGA
* *
970765 TATTTTGGTAA-TTATTTTAAAAATG
1 TATTTTCGTAATTTTTTTTAAAAATG
970790 GTGATATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.04
27 34 0.69
28 13 0.27
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (27 bp):
TATTTTCGTAATTTTTTTTAAAAATGA
Found at i:970807 original size:84 final size:85
Alignment explanation
Indices: 970649--970819 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 85
970639 GTTGACCTGG
* * *
970649 TGATATTTTAGTAATTATTGTGAAAATGATGATATTTTGCTAATTATTTTGAAAATGGTGCTATT
1 TGATATTTTAGTAATTATTGTGAAAAAGATGATATTTTGCTAATTATTTTAAAAATGGTGATATT
*
970714 TTCATAATTTTTTTTAAAAA
66 TTCATAATTTATTTTAAAAA
* * * * *
970734 TGATATTTTCGTAATTTTTTTTAAAAAG-TGATATTTTGGTAATTATTTTAAAAATGGTGATATT
1 TGATATTTTAGTAATTATTGTGAAAAAGATGATATTTTGCTAATTATTTTAAAAATGGTGATATT
* *
970798 TTGGA-AATTTATTTTGAAAA
66 TT-CATAATTTATTTTAAAAA
970818 TG
1 TG
970820 CTGATAATTG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
84 50 0.68
85 24 0.32
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (85 bp):
TGATATTTTAGTAATTATTGTGAAAAAGATGATATTTTGCTAATTATTTTAAAAATGGTGATATT
TTCATAATTTATTTTAAAAA
Found at i:971570 original size:24 final size:24
Alignment explanation
Indices: 971539--971607 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
971529 ACTGGTCTTG
971539 ATATGATACTTGACCTGGATTTTT
1 ATATGATACTTGACCTGGATTTTT
971563 ATATGATACTTGACCTGGATTTTT
1 ATATGATACTTGACCTGGATTTTT
*
971587 ATATGATACTTGACATGGATT
1 ATATGATACTTGACCTGGATT
971608 CTGATTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (24 bp):
ATATGATACTTGACCTGGATTTTT
Found at i:977791 original size:29 final size:29
Alignment explanation
Indices: 977759--977962 Score: 188
Period size: 29 Copynumber: 7.2 Consensus size: 29
977749 GTTGACCGGG
* *
977759 TGATATTTTAGTAATTATTTTGAAAATGA
1 TGATATTTTGGTAATTATTTTAAAAATGA
977788 TGATATTTTGGTAATTATTTTAAAAAT-A
1 TGATATTTTGGTAATTATTTTAAAAATGA
* * *
977816 GTGTTATTTTCGTAATTTTTTTAAAAAT-A
1 -TGATATTTTGGTAATTATTTTAAAAATGA
* * * *
977845 --ATATTTTTGCAATTTTTTTAAAAAAG-
1 TGATATTTTGGTAATTATTTTAAAAATGA
*
977871 TGATATTTTGGTAATTA-TTTATAAAA-GG
1 TGATATTTTGGTAATTATTTTA-AAAATGA
* * *
977899 TGATATTTTGGTAATCATTTTTAAAATGG
1 TGATATTTTGGTAATTATTTTAAAAATGA
* * *
977928 TGATATTTTGGAAATTTATTTTGAAAATGG
1 TGATATTTTGGTAA-TTATTTTAAAAATGA
977958 TGATA
1 TGATA
977963 ATTGTGTAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
26 21 0.14
27 5 0.03
28 37 0.25
29 68 0.46
30 18 0.12
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.49
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTTAAAAATGA
Found at i:977920 original size:83 final size:84
Alignment explanation
Indices: 977761--977924 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 84
977751 TGACCGGGTG
* * * *
977761 ATATTTTAGTAATTATTTTGAAAATGATGATATTTTGGTAATTATTTTAAAAATAGTGTTATTTT
1 ATATTTTAGCAATTATTTTAAAAAAGATGATATTTTGGTAATTATTTTAAAAATAGTGATATTTT
*
977826 CGTAATTTTTTTAAAAATA
66 CGTAATATTTTTAAAAATA
* * *
977845 ATATTTTTGCAATTTTTTTAAAAAAG-TGATATTTTGGTAATTA-TTTATAAAA-GGTGATATTT
1 ATATTTTAGCAATTATTTTAAAAAAGATGATATTTTGGTAATTATTTTA-AAAATAGTGATATTT
*
977907 TGGTAATCATTTTTAAAA
65 TCGTAAT-ATTTTTAAAA
977925 TGGTGATATT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
82 18 0.26
83 30 0.43
84 21 0.30
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.50
Consensus pattern (84 bp):
ATATTTTAGCAATTATTTTAAAAAAGATGATATTTTGGTAATTATTTTAAAAATAGTGATATTTT
CGTAATATTTTTAAAAATA
Found at i:978695 original size:24 final size:24
Alignment explanation
Indices: 978663--978814 Score: 207
Period size: 24 Copynumber: 6.3 Consensus size: 24
978653 TATCTGGTTT
*
978663 TTGACCTGGATCTTGATATGATAC
1 TTGACCTGGATTTTGATATGATAC
978687 TTGACCTGGA-TTTGTATATGATAC
1 TTGACCTGGATTTTG-ATATGATAC
* *
978711 TTGACCTGGATTTTTATATGATAT
1 TTGACCTGGATTTTGATATGATAC
*
978735 TTGACCTGGATTTTCATATGATAC
1 TTGACCTGGATTTTGATATGATAC
*
978759 TTGACCTGGATTTTTATATGATAC
1 TTGACCTGGATTTTGATATGATAC
* * * *
978783 TTGACATGGATTCTGATCTGCTAC
1 TTGACCTGGATTTTGATATGATAC
978807 TTGACCTG
1 TTGACCTG
978815 AATTATGTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.03
24 108 0.95
25 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
TTGACCTGGATTTTGATATGATAC
Found at i:982670 original size:16 final size:16
Alignment explanation
Indices: 982634--982671 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
982624 TGTGAATATC
*
982634 ATTATTTTTTGTGACA
1 ATTATTTTTTGTAACA
*
982650 A-TATTTTTTGTAATA
1 ATTATTTTTTGTAACA
982665 ATTATTT
1 ATTATTT
982672 ATACCTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTATTTTTTGTAACA
Found at i:982761 original size:178 final size:178
Alignment explanation
Indices: 982559--983014 Score: 464
Period size: 177 Copynumber: 2.6 Consensus size: 178
982549 AGAAAAATAG
* *
982559 TTATGACAATATATGTTATCACTATAATTAAAATTTATAACTACAAATATAATTTTTCACAAAAA
1 TTATGACAATATATTTTGTCACTATAATTAAAATTTATAACTACAAATATAATTTTTCACAAAAA
* * *
982624 TGTGAATATCATTATTTTTTGTGACAATATTTTTTGTAATAATTATTTATAC-C-TATAGTTACA
66 T-TGAATCTCATTATTTTTTGTGACAATATTTTTT-TAACAA-TAATTAT-CGCTTATAGTTACA
** * *
982687 AAATTTATCTCTATATGA-TTT-TTTTGC-ACAAAAAA-TATGAACATAA-ATCT
127 AAACATATCACTATATGATTTTGTTTTGCTACAAAAAATTA-G-ACATAATA-AT
* *
982737 TTATGACAATATATTTTGTCACTATAATTAAAATTTATAACTATAAATAT--TTTTTCAATAAAA
1 TTATGACAATATATTTTGTCACTATAATTAAAATTTATAACTACAAATATAATTTTTC-ACAAAA
* * * *
982800 ACTTGAATCTCATTATTTGTTGTGGCAA-CTTTTTTTAACAATAATTATCGCTTATATTTACAAA
65 A-TTGAATCTCATTATTTTTTGTGACAATATTTTTTTAACAATAATTATCGCTTATAGTTACAAA
* * * * *
982864 ACATGTCACTATATGATTTTGTTTTTCTACCAAAACTTAGAGATAATAAT
129 ACATATCACTATATGATTTTGTTTTGCTACAAAAAATTAGACATAATAAT
* * * * * * * *
982914 TTGTGACAATACATTTTGTCACTAAAATTAAAATATATAATTACAAATAAAACTTGTCACAACAA
1 TTATGACAATATATTTTGTCACTATAATTAAAATTTATAACTACAAATATAATTTTTCACAA-AA
* * *
982979 ATCTAAATCTCAATATTTTTTGTGATAATATTTTTT
65 AT-TGAATCTCATTATTTTTTGTGACAATATTTTTT
983015 AGTCATAGTT
Statistics
Matches: 228, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
173 1 0.00
174 7 0.03
175 28 0.12
176 15 0.07
177 82 0.36
178 60 0.26
179 29 0.13
180 6 0.03
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (178 bp):
TTATGACAATATATTTTGTCACTATAATTAAAATTTATAACTACAAATATAATTTTTCACAAAAA
TTGAATCTCATTATTTTTTGTGACAATATTTTTTTAACAATAATTATCGCTTATAGTTACAAAAC
ATATCACTATATGATTTTGTTTTGCTACAAAAAATTAGACATAATAAT
Found at i:987262 original size:21 final size:21
Alignment explanation
Indices: 987233--987276 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
987223 AATCTAGTTA
*
987233 ATTAGTTTGTTAGTATAAATT
1 ATTACTTTGTTAGTATAAATT
* *
987254 ATTACTTTGTTAGTTTAAGTT
1 ATTACTTTGTTAGTATAAATT
987275 AT
1 AT
987277 ATTATATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (21 bp):
ATTACTTTGTTAGTATAAATT
Found at i:987277 original size:28 final size:28
Alignment explanation
Indices: 987246--987311 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
987236 AGTTTGTTAG
987246 TATAAATTATTACTTTGTTAGTTTAAGT
1 TATAAATTATTACTTTGTTAGTTTAAGT
* *
987274 TAT-ATTATATTAGTTTGTTAGTTTAAGT
1 TATAAAT-TATTACTTTGTTAGTTTAAGT
*
987302 TATATATTAT
1 TATAAATTAT
987312 ATTATATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.91
29 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (28 bp):
TATAAATTATTACTTTGTTAGTTTAAGT
Found at i:987830 original size:22 final size:23
Alignment explanation
Indices: 987795--987837 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
987785 TAAAAAAAAT
987795 TATTGTGTTT-AAAAATATTTAG
1 TATTGTGTTTAAAAAATATTTAG
987817 TATTGT-TTTAAAAAAATATTT
1 TATTGTGTTT-AAAAAATATTT
987838 TGTTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 6 0.32
23 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
TATTGTGTTTAAAAAATATTTAG
Found at i:987848 original size:22 final size:23
Alignment explanation
Indices: 987805--987848 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
987795 TATTGTGTTT
**
987805 AAAAATATTTAGTATTGTTTTAA
1 AAAAATATTTAGTATTAATTTAA
*
987828 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTATTAATTTA
987849 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTATTAATTTAA
Found at i:991134 original size:49 final size:49
Alignment explanation
Indices: 991064--991251 Score: 358
Period size: 49 Copynumber: 3.8 Consensus size: 49
991054 GGCACCCATC
991064 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
991113 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
*
991162 TATTATTAATATTTAATGATTTGATAGTAATGATTATTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
*
991211 TATTATTAATATTTAATTATTTGATAGTAATGATTAGTAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAT
991252 TATTAATAAT
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 136 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (49 bp):
TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
Found at i:991201 original size:31 final size:32
Alignment explanation
Indices: 991065--991203 Score: 90
Period size: 31 Copynumber: 4.3 Consensus size: 32
991055 GCACCCATCT
* *
991065 ATTATTAATATTTAATGATTTGATA-GTAATG
1 ATTATTAATATGTAATGATTTAATATGTAATG
* * * *
991096 ATTAGTAATAATGAAATTATTATTAATATTTAATG
1 ATTATTAAT-ATGTAATGA-T-TTAATATGTAATG
* * *
991131 A-T-TTGATA-GTAATGATTAGTAATAATGAAATT
1 ATTATTAATATGTAATGATT--TAAT-ATGTAATG
* *
991163 ATTATTAATATTTAATGATTTGATA-GTAATG
1 ATTATTAATATGTAATGATTTAATATGTAATG
991194 ATTATTAATA
1 ATTATTAATA
991204 ATGAAATTAT
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 31 0.39
32 14 0.17
33 8 0.10
34 11 0.14
35 14 0.17
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (32 bp):
ATTATTAATATGTAATGATTTAATATGTAATG
Found at i:991263 original size:20 final size:20
Alignment explanation
Indices: 991238--991285 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
991228 TATTTGATAG
*
991238 TAATGATTAGTAATTAT-TAA
1 TAATGATT-GAAATTATATAA
991258 TAATGA-TGAAATTATAATAA
1 TAATGATTGAAATTAT-ATAA
991278 TAATGATT
1 TAATGATT
991286 TACTAATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 1 0.04
20 15 0.62
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
TAATGATTGAAATTATATAA
Found at i:991275 original size:17 final size:18
Alignment explanation
Indices: 991249--991283 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
991239 AATGATTAGT
*
991249 AATTATTAATAATGATGA
1 AATTATTAATAATAATGA
991267 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
991284 TTTACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:991489 original size:12 final size:11
Alignment explanation
Indices: 991463--991625 Score: 83
Period size: 12 Copynumber: 13.5 Consensus size: 11
991453 ATAAAAATAT
991463 TTTAATAATGA
1 TTTAATAATGA
991474 TTTAATAATGA
1 TTTAATAATGA
*
991485 CTTTAATAATAAA
1 -TTTAATAAT-GA
* *
991498 TTTAATATTTA
1 TTTAATAATGA
* * * *
991509 ATGATTTGATGA
1 TTTA-ATAATGA
*
991521 TTTAGTAATGA
1 TTTAATAATGA
*
991532 TTTGATAATAATCA
1 -TT--TAATAATGA
*
991546 TTATAGTAATGA
1 TT-TAATAATGA
*
991558 TTTGATAATAATCA
1 -TT--TAATAATGA
991572 TTATAATAATGA
1 TT-TAATAATGA
*
991584 TTTAGTAATAATCA
1 -TT--TAATAATGA
991598 TTATAATAATGA
1 TT-TAATAATGA
991610 TTTAATAATGA
1 TTTAATAATGA
991621 TTTAA
1 TTTAA
991626 ATATTTAATG
Statistics
Matches: 118, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
11 33 0.28
12 51 0.43
13 11 0.09
14 23 0.19
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (11 bp):
TTTAATAATGA
Found at i:991552 original size:26 final size:25
Alignment explanation
Indices: 991526--991699 Score: 155
Period size: 26 Copynumber: 6.9 Consensus size: 25
991516 GATGATTTAG
*
991526 TAATGATTTGATAATAATCATTATAG
1 TAATGATTT-ATAATAATCATTATAA
991552 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
991578 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
*
991604 TAATGA-TT-TAATAATGATT-T-A
1 TAATGATTTATAATAATCATTATAA
* * * *
991625 -AAT-ATTTAATGATTTGATGATT-TAG
1 TAATGATTT-AT-A-ATAATCATTATAA
*
991650 TAATGATTTGATAATAATAATTATAA
1 TAATGATTT-ATAATAATCATTATAA
*
991676 TAATGATTTAGTATTAATCATTAT
1 TAATGATTTA-TAATAATCATTAT
991700 TGTTGAAAAC
Statistics
Matches: 125, Mismatches: 12, Indels: 22
0.79 0.08 0.14
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
21 1 0.01
22 2 0.02
23 11 0.09
24 8 0.06
25 10 0.08
26 81 0.65
27 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (25 bp):
TAATGATTTATAATAATCATTATAA
Found at i:991616 original size:124 final size:124
Alignment explanation
Indices: 991465--991699 Score: 377
Period size: 124 Copynumber: 1.9 Consensus size: 124
991455 AAAAATATTT
*
991465 TAATAATGATTTAATAATGACTTTAATAATAAATTT-AATATTTAATGATTTGATGATTTAGTAA
1 TAATAATCATTTAATAATGACTTTAATAAT-AATTTAAATATTTAATGATTTGATGATTTAGTAA
* *
991529 TGATTTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTTAG
65 TGATTTGATAATAATAATTATAATAATGATTTAG-TAATAATCATTATAATAATGATTTAG
*
991589 TAATAATCATTATAATAATGA-TTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
1 TAATAATCATT-TAATAATGACTTTAATAATAATTTAAATATTTAATGATTTGATGATTTAGTAA
*
991653 TGATTTGATAATAATAATTATAATAATGATTTAGTATTAATCATTAT
65 TGATTTGATAATAATAATTATAATAATGATTTAGTAATAATCATTAT
991700 TGTTGAAAAC
Statistics
Matches: 103, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
123 4 0.04
124 89 0.86
125 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATAATCATTTAATAATGACTTTAATAATAATTTAAATATTTAATGATTTGATGATTTAGTAAT
GATTTGATAATAATAATTATAATAATGATTTAGTAATAATCATTATAATAATGATTTAG
Found at i:1000813 original size:11 final size:11
Alignment explanation
Indices: 1000797--1000832 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
1000787 TCAAGCAATT
1000797 AGAATCAAGAG
1 AGAATCAAGAG
1000808 AGAATCAAGAG
1 AGAATCAAGAG
1000819 AGAATCAA-AG
1 AGAATCAAGAG
1000829 AGAA
1 AGAA
1000833 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:1001312 original size:14 final size:14
Alignment explanation
Indices: 1001293--1001408 Score: 90
Period size: 14 Copynumber: 9.0 Consensus size: 14
1001283 CTCAACAATT
1001293 ATAATAATGATTTA
1 ATAATAATGATTTA
1001307 ATAATAATG-----
1 ATAATAATGATTTA
1001316 ATAATAATGATTTA
1 ATAATAATGATTTA
* *
1001330 ATAATAAT-A-ATG
1 ATAATAATGATTTA
1001342 ATAATAATGATTTA
1 ATAATAATGATTTA
* *
1001356 ATAGTAATTA-TT-
1 ATAATAATGATTTA
* *
1001368 -TAGTAATGATTTT
1 ATAATAATGATTTA
*
1001381 ATAATAATAATTTA
1 ATAATAATGATTTA
*
1001395 ATATTAATGATTTA
1 ATAATAATGATTTA
1001409 TAAATTATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
9 9 0.11
11 8 0.10
12 11 0.14
13 4 0.05
14 48 0.60
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (14 bp):
ATAATAATGATTTA
Found at i:1001321 original size:9 final size:9
Alignment explanation
Indices: 1001307--1001352 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
1001297 TAATGATTTA
1001307 ATAATAATG
1 ATAATAATG
1001316 ATAATAATG
1 ATAATAATG
* *
1001325 AT-TTAATA
1 ATAATAATG
1001333 ATAATAATG
1 ATAATAATG
1001342 ATAATAATG
1 ATAATAATG
1001351 AT
1 AT
1001353 TTAATAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (9 bp):
ATAATAATG
Found at i:1001334 original size:26 final size:26
Alignment explanation
Indices: 1001293--1001391 Score: 125
Period size: 26 Copynumber: 4.0 Consensus size: 26
1001283 CTCAACAATT
1001293 ATAATAATGA-TT--TAATAATAATG
1 ATAATAATGATTTAATAATAATAATG
1001316 ATAATAATGATTTAATAATAATAATG
1 ATAATAATGATTTAATAATAATAATG
* *
1001342 ATAATAATGATTTAATAGTAATTAT-
1 ATAATAATGATTTAATAATAATAATG
* * *
1001367 TTAGTAATGATTTTATAATAATAAT
1 ATAATAATGATTTAATAATAATAAT
1001392 TTAATATTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.15
24 2 0.03
25 20 0.30
26 34 0.52
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
ATAATAATGATTTAATAATAATAATG
Found at i:1001357 original size:17 final size:17
Alignment explanation
Indices: 1001311--1001343 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1001301 GATTTAATAA
*
1001311 TAATGATAATAATGATT
1 TAATAATAATAATGATT
1001328 TAATAATAATAATGAT
1 TAATAATAATAATGAT
1001344 AATAATGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TAATAATAATAATGATT
Found at i:1001402 original size:11 final size:11
Alignment explanation
Indices: 1001289--1001337 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
1001279 TTAACTCAAC
1001289 AATTATAATAAT
1 AATT-TAATAAT
*
1001301 GATTTAATAAT
1 AATTTAATAAT
*
1001312 AATGATAATAAT
1 AAT-TTAATAAT
*
1001324 GATTTAATAAT
1 AATTTAATAAT
1001335 AAT
1 AAT
1001338 AATGATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 18 0.60
12 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:1001578 original size:24 final size:24
Alignment explanation
Indices: 1001530--1001574 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1001520 GATTTGATAC
*
1001530 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATTAATATTAA
*
1001554 TAATGATTTA-TTATTAATATT
1 TAATGATTTACTAATTAATATT
1001575 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATGATTTACTAATTAATATTAA
Found at i:1001581 original size:17 final size:17
Alignment explanation
Indices: 1001541--1001582 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1001531 AATGATTTAC
1001541 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
1001558 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
1001575 TAATTATT
1 TAATTATT
1001583 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:1003866 original size:16 final size:16
Alignment explanation
Indices: 1003833--1003879 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1003823 CAAAAAAAAT
*
1003833 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
*
1003848 TAATATATTAAACTAA
1 TAATATAATAAACTAA
1003864 TAA-ACTAATAAACTAA
1 TAATA-TAATAAACTAA
1003880 CAAACTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:1003869 original size:8 final size:8
Alignment explanation
Indices: 1003856--1003887 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
1003846 TATAATATAT
1003856 TAAACTAA
1 TAAACTAA
1003864 TAAACTAA
1 TAAACTAA
1003872 TAAACTAA
1 TAAACTAA
*
1003880 CAAACTAA
1 TAAACTAA
1003888 ACTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAACTAA
Found at i:1003962 original size:22 final size:22
Alignment explanation
Indices: 1003937--1003985 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1003927 ACAACTAATA
*
1003937 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
1003959 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
1003981 AACTA
1 AACTA
1003986 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:1003963 original size:30 final size:30
Alignment explanation
Indices: 1003929--1004054 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
1003919 TCCCTTAAAC
1003929 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
1003957 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
1003981 AACTAATAAACTATTTTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
1004011 AACTAATAAA-TGATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
1004040 ATTACTAAAAAACTA
1 A--ACTAATAAACTA
1004055 ATTAACTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.12
30 37 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:1004013 original size:22 final size:22
Alignment explanation
Indices: 1003935--1004015 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
1003925 AAACAACTAA
*
1003935 TAAACTATTCTTTAATATAACT
1 TAAACTATTTTTTAATATAACT
* *
1003957 TTAACTATTCTTTAATATAACGTTAACT
1 TAAACTATT-TTTTA-AT-A---TAACT
1003985 AATAAACTATTTTTTAATATAACT
1 --TAAACTATTTTTTAATATAACT
1004009 TAAACTA
1 TAAACTA
1004016 ATAAATGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
22 15 0.33
23 3 0.07
24 7 0.15
25 1 0.02
27 1 0.02
28 7 0.15
29 4 0.09
30 8 0.17
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAACTATTTTTTAATATAACT
Found at i:1004331 original size:29 final size:29
Alignment explanation
Indices: 1004299--1004392 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 29
1004289 TTTTTTACCC
1004299 TAATTTATAATAATAAACTAATTAACTAA
1 TAATTTATAATAATAAACTAATTAACTAA
* *
1004328 TAATTTATAACAATAAACTAATTTAAATAA
1 TAATTTATAATAATAAACTAA-TTAACTAA
* *
1004358 TTATTCTTTTATATAACTTAAACTAATTAACTAA
1 -TAAT-TTATA-ATAA--TAAACTAATTAACTAA
1004392 T
1 T
1004393 TTTTTTATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 20 0.38
30 7 0.13
31 3 0.06
32 4 0.08
33 4 0.08
34 7 0.13
35 8 0.15
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (29 bp):
TAATTTATAATAATAAACTAATTAACTAA
Found at i:1004351 original size:18 final size:18
Alignment explanation
Indices: 1004298--1004352 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
1004288 TTTTTTTACC
*
1004298 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
1004316 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
1004328 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
1004345 CTAATTTA
1 CTAATTTA
1004353 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:1004381 original size:35 final size:31
Alignment explanation
Indices: 1004341--1004404 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 31
1004331 TTTATAACAA
1004341 TAAACTAATTTAAATAATTATTCTTTTATATAACT
1 TAAACTAA-TTAAATAA-T-TT-TTTTATATAACT
*
1004376 TAAACTAATTAACTAATTTTTTTATATAA
1 TAAACTAATTAAATAATTTTTTTATATAA
1004405 TATAAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.36
32 2 0.07
33 1 0.04
34 7 0.25
35 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAACTAATTAAATAATTTTTTTATATAACT
Found at i:1004990 original size:11 final size:11
Alignment explanation
Indices: 1004974--1005031 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
1004964 CTGAAGGACT
1004974 GCAATAATGCA
1 GCAATAATGCA
* *
1004985 GCAATAAGGGCT
1 GCAATAA-TGCA
1004997 GCAATAATGCA
1 GCAATAATGCA
*
1005008 GCAATAAGTGCT
1 GCAATAA-TGCA
1005020 GCAATAATGCA
1 GCAATAATGCA
1005031 G
1 G
1005032 TTGTATTCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 20 0.51
12 19 0.49
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (11 bp):
GCAATAATGCA
Found at i:1004998 original size:23 final size:23
Alignment explanation
Indices: 1004967--1005031 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
1004957 ACGTGAGCTG
*
1004967 AAGGACTGCAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
1004990 AAGGGCTGCAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
*
1005013 AAGTGCTGCAATAATGCAG
1 AAGGGCTGCAATAATGCAG
1005032 TTGTATTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAGCAAT
Found at i:1005002 original size:12 final size:12
Alignment explanation
Indices: 1004972--1005026 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
1004962 AGCTGAAGGA
1004972 CTGCAATAA-TG
1 CTGCAATAAGTG
* *
1004983 CAGCAATAAGGG
1 CTGCAATAAGTG
1004995 CTGCAATAA-TG
1 CTGCAATAAGTG
*
1005006 CAGCAATAAGTG
1 CTGCAATAAGTG
1005018 CTGCAATAA
1 CTGCAATAA
1005027 TGCAGTTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 17 0.47
12 19 0.53
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (12 bp):
CTGCAATAAGTG
Found at i:1012308 original size:3 final size:3
Alignment explanation
Indices: 1012300--1012356 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
1012290 CCATATTGAT
* *
1012300 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1012348 TTA TTA TTA
1 TTA TTA TTA
1012357 AATATATTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Done.