Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 91
Found at i:1649259 original size:336 final size:337
Alignment explanation
Indices: 1648646--1649711 Score: 1770
Period size: 336 Copynumber: 3.2 Consensus size: 337
1648636 TCTTGATGAG
* *
1648646 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT-ATTATGAACTTTCTCT
* * * * *
1648710 GG-AAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTC-TCATTATGAAC
65 GGCAAA-GCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTCTTCATTATGAAC
* *
1648773 TTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
129 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
1648838 AGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
194 AGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
*
1648903 GATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCA
259 GAGGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCA
1648968 AAAGGTTGAACAAA
324 AAAGGTTGAACAAA
1648982 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
*
1649047 GCAAAGCTAATCCATCAAGCGATGGATTCAAGCAAAAGGTTGAACAAATTCTTC-TTATGAACTT
66 GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTCTTCATTATGAACTT
1649111 CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAG
131 CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAG
1649176 TGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
196 TGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1649241 GGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAA
261 GGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAA
1649306 AGGTTGAACAAA
326 AGGTTGAACAAA
*
1649318 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAGGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
*
1649383 GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTC-T-TCATTATGAAC
1649448 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
129 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
* *
1649513 AGTGATGTATTCAGGCAAAAGGTTGAACAAATTC-T-TC-TTATGAACTTCTTCTTCCTTCTTCA
194 AGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* * **** * * * * *
1649575 GAGGAGTTTTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATT-TGAAC
259 GAGGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAG-GC
*
1649639 AAAAGGTTGGACAAA
323 AAAAGGTTGAACAAA
* *
1649654 TTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT
1649712 CGAACTGGTA
Statistics
Matches: 692, Mismatches: 31, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
335 1 0.00
336 573 0.83
337 10 0.01
338 3 0.00
339 105 0.15
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (337 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTCTTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAG
TGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
GGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAA
AGGTTGAACAAA
Found at i:1649747 original size:113 final size:113
Alignment explanation
Indices: 1648646--1649711 Score: 1733
Period size: 113 Copynumber: 9.5 Consensus size: 113
1648636 TCTTGATGAG
* *
1648646 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT-ATTATGAACTTTCTCT
* * * *
1648710 GG-AAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA
65 GGCAAA-GCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
* * *
1648759 ---TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1648821 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
1648869 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1648934 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
1648982 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
* *
1649047 GCAAAGCTAATCCATCAAGCGATGGATTCAAGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
*
1649095 TTC-T-TC-TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1649157 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
*
1649205 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAGGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1649270 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
*
1649318 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAGGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
*
1649383 GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
1649431 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
*
1649496 GCAAAGCTAATCCATCAAGTGATGTATTCAGGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
* * * * ****
1649544 TTC-T-TC-TTATGAACTTCTTCTTCCTTCTTCAGAGGAGTTTTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
* * * * * *
1649606 GAAAAGATAATCCATCAAGTGATAGATT-TGAACAAAAGGTTGGACAAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAG-GCAAAAGGTTGAACAAA
* *
1649654 TTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT
1649712 CGAACTGGTA
Statistics
Matches: 901, Mismatches: 40, Indels: 24
0.93 0.04 0.02
Matches are distributed among these distances:
109 1 0.00
110 291 0.32
111 10 0.01
112 6 0.01
113 593 0.66
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
Found at i:1650228 original size:22 final size:22
Alignment explanation
Indices: 1650150--1650223 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
1650140 GATAAAGCTT
* *
1650150 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
*
1650172 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
1650194 TCATCTTTAAAGAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
1650216 TCATCTTT
1 TCATCTTT
1650224 GAAGAATGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:1653160 original size:83 final size:83
Alignment explanation
Indices: 1652886--1653511 Score: 1127
Period size: 83 Copynumber: 7.6 Consensus size: 83
1652876 CATACCGAAT
* * **
1652886 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCCTC-T-CAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1652949 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
* * **
1652967 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCCTC-T-CAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1653030 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1653048 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1653113 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1653131 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1653196 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1653214 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1653279 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1653297 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
1653362 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1653380 CAGATCA-ACTAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCA
1 CAGATCAGA-TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCA
1653444 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
*
1653463 CAGATCAGCTAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1653512 GCATTTATTC
Statistics
Matches: 536, Mismatches: 5, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
81 130 0.24
82 2 0.00
83 404 0.75
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAA
TGATTGGTTTTACCAAAC
Found at i:1657488 original size:16 final size:15
Alignment explanation
Indices: 1657464--1657513 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
1657454 TTTGATTCGG
1657464 TTTTA-ATTTTTAAT
1 TTTTATATTTTTAAT
*
1657478 TTTTATCATTTTTTAT
1 TTTTAT-ATTTTTAAT
*
1657494 TTTAAT-TTTTTAAT
1 TTTTATATTTTTAAT
1657508 CTTTTA
1 -TTTTA
1657514 GGTACCCGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 13 0.45
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATATTTTTAAT
Found at i:1657512 original size:22 final size:22
Alignment explanation
Indices: 1657471--1657513 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1657461 CGGTTTTAAT
*
1657471 TTTTAATTTTTATCATTTTTTA
1 TTTTAATTTTTATAATTTTTTA
*
1657493 TTTTAATTTTT-TAATCTTTTA
1 TTTTAATTTTTATAATTTTTTA
1657514 GGTACCCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTAATTTTTATAATTTTTTA
Found at i:1661235 original size:20 final size:20
Alignment explanation
Indices: 1661210--1661247 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1661200 TTATTTGCTG
1661210 GAATTATCT-GTTGATTGATA
1 GAATTAT-TAGTTGATTGATA
1661230 GAATTATTAGTTGATTGA
1 GAATTATTAGTTGATTGA
1661248 AATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (20 bp):
GAATTATTAGTTGATTGATA
Found at i:1668359 original size:18 final size:18
Alignment explanation
Indices: 1668338--1668393 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
1668328 TAATAGTGAG
1668338 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
1668356 TTATTAT-AATTA-ATTAT
1 TTATTATAAAATATATT-T
*
1668373 TTATTTTAAAATAT-TTT
1 TTATTATAAAATATATTT
1668390 TTAT
1 TTAT
1668394 ATTTTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 16 0.50
18 13 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:1668885 original size:29 final size:29
Alignment explanation
Indices: 1668843--1668899 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
1668833 TTTATTGACG
*
1668843 ATTTGGTAAGATATGTGTAATGAATTTAT
1 ATTTAGTAAGATATGTGTAATGAATTTAT
1668872 ATTTAGTAAGATATGTGTAATGAATTTA
1 ATTTAGTAAGATATGTGTAATGAATTTA
1668900 ATTGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (29 bp):
ATTTAGTAAGATATGTGTAATGAATTTAT
Found at i:1668972 original size:2 final size:2
Alignment explanation
Indices: 1668967--1669008 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1668957 ACACACACAC
1668967 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
1669009 GACTAAAATT
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:1669321 original size:5 final size:5
Alignment explanation
Indices: 1669311--1669356 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
1669301 GTTTAATCTC
1669311 TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA T
1 TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA T
1669357 GGCATCGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCCA
Found at i:1673108 original size:29 final size:30
Alignment explanation
Indices: 1673053--1673112 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
1673043 GAGAATATGA
*
1673053 AAAGAAGCTATGTGACTACATGTATATGTG
1 AAAGAAGCTATGAGACTACATGTATATGTG
*
1673083 AAAGAAGCTATGAG-CTTATATG-ATATGTG
1 AAAGAAGCTATGAGAC-TACATGTATATGTG
1673112 A
1 A
1673113 TATGAAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAGAAGCTATGAGACTACATGTATATGTG
Found at i:1673490 original size:32 final size:34
Alignment explanation
Indices: 1673415--1673490 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 34
1673405 GTGATATATA
* *
1673415 TATATATATAT-ATATATGTTTTGTGATATGAAT
1 TATATGTATATGATATATGTTGTGTGATATGAAT
*
1673448 TATATG-ATATGATATATG-TGTGTGTTAATG-AT
1 TATATGTATATGATATATGTTGTGTGAT-ATGAAT
1673480 TAT-TGTATATG
1 TATATGTATATG
1673491 TTTTAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 2 0.05
32 20 0.54
33 15 0.41
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (34 bp):
TATATGTATATGATATATGTTGTGTGATATGAAT
Found at i:1680784 original size:21 final size:21
Alignment explanation
Indices: 1680760--1680804 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1680750 CGTGTTGAGC
*
1680760 CTATCATCCACTGCATTGAAT
1 CTATCATCCACTGCATCGAAT
* *
1680781 CTATCATCCATTGCGTCGAAT
1 CTATCATCCACTGCATCGAAT
1680802 CTA
1 CTA
1680805 GATCGAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (21 bp):
CTATCATCCACTGCATCGAAT
Found at i:1682059 original size:15 final size:14
Alignment explanation
Indices: 1682030--1682066 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
1682020 CTACAAAGTT
*
1682030 AAAACAATTTGTGA
1 AAAACAATTTATGA
1682044 AAAACAGATTTATGA
1 AAAACA-ATTTATGA
1682059 AAAACAAT
1 AAAACAAT
1682067 AGTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.24
Consensus pattern (14 bp):
AAAACAATTTATGA
Found at i:1682655 original size:20 final size:20
Alignment explanation
Indices: 1682630--1682697 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
1682620 AACTAAGAAC
1682630 AGTATCAATACTATACGAGT
1 AGTATCAATACTATACGAGT
*
1682650 AGTATCAATACCA-AGCAAGAGT
1 AGTATCAATACTATA-C--GAGT
* **
1682672 AGTATCGATACTATGTGAGT
1 AGTATCAATACTATACGAGT
1682692 AGTATC
1 AGTATC
1682698 GATAACAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 23 0.59
22 15 0.38
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (20 bp):
AGTATCAATACTATACGAGT
Found at i:1685138 original size:14 final size:15
Alignment explanation
Indices: 1685107--1685139 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1685097 CAAAGAAACA
1685107 CACATATCATCATAT
1 CACATATCATCATAT
*
1685122 CACATAT-ATCATTT
1 CACATATCATCATAT
1685136 CACA
1 CACA
1685140 CCATAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
CACATATCATCATAT
Found at i:1685319 original size:23 final size:23
Alignment explanation
Indices: 1685292--1685345 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
1685282 AATTGCACCA
1685292 AAGTGCCACGTA-GAATTGCACTG
1 AAGTGCCACGTAGGAA-TGCACTG
* *
1685315 TAGTGCCGCGTAGGAATGCACTG
1 AAGTGCCACGTAGGAATGCACTG
1685338 AAGTGCCA
1 AAGTGCCA
1685346 TATAAGATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (23 bp):
AAGTGCCACGTAGGAATGCACTG
Found at i:1690526 original size:14 final size:15
Alignment explanation
Indices: 1690495--1690527 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1690485 CAAAAAAACA
1690495 CACATATCATCATAT
1 CACATATCATCATAT
*
1690510 CACATAT-ATCATTT
1 CACATATCATCATAT
1690524 CACA
1 CACA
1690528 CCATAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
CACATATCATCATAT
Found at i:1690708 original size:23 final size:22
Alignment explanation
Indices: 1690682--1690734 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
1690672 ATTGAACTGA
1690682 AGTGCCACGTA-GAATTGCACCG
1 AGTGCCACGTAGGAA-TGCACCG
*
1690704 TAGTGCCGCGTAGGAATGCACCG
1 -AGTGCCACGTAGGAATGCACCG
1690727 ACGTGCCA
1 A-GTGCCA
1690735 TATAAGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.85
24 3 0.12
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (22 bp):
AGTGCCACGTAGGAATGCACCG
Found at i:1693223 original size:19 final size:21
Alignment explanation
Indices: 1693180--1693231 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1693170 GAAACCCCTT
1693180 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1693201 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1693220 TGAAGATACATG
1 TGAAAATACATG
1693232 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1697153 original size:19 final size:21
Alignment explanation
Indices: 1697110--1697161 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1697100 GAAACCCCTT
1697110 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1697131 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1697150 TGAAGATACATG
1 TGAAAATACATG
1697162 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1701578 original size:2 final size:2
Alignment explanation
Indices: 1701571--1701603 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1701561 ATATAAATGC
1701571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1701604 CATACCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1708263 original size:13 final size:13
Alignment explanation
Indices: 1708245--1708272 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1708235 TCTAGTATAA
1708245 ATCTCAATTTTTC
1 ATCTCAATTTTTC
1708258 ATCTCAATTTTTC
1 ATCTCAATTTTTC
1708271 AT
1 AT
1708273 TAAGTAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (13 bp):
ATCTCAATTTTTC
Found at i:1712347 original size:22 final size:23
Alignment explanation
Indices: 1712321--1712367 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
1712311 AATCTTAGTT
* *
1712321 TTCTTGAATCCTC-TTTCTTCTA
1 TTCTTAAATCCTCATTTCCTCTA
*
1712343 TTCTTAAATCTTCATTTCCTCTA
1 TTCTTAAATCCTCATTTCCTCTA
1712366 TT
1 TT
1712368 TTTTTCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.17, C:0.26, G:0.02, T:0.55
Consensus pattern (23 bp):
TTCTTAAATCCTCATTTCCTCTA
Found at i:1712387 original size:24 final size:24
Alignment explanation
Indices: 1712358--1712408 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
1712348 AAATCTTCAT
* *
1712358 TTCCTCTATTTTTTTCTATTACTC
1 TTCCTCTATTTTCTTCGATTACTC
1712382 TTCCTCTATTTTCTTCGATTACTC
1 TTCCTCTATTTTCTTCGATTACTC
1712406 TTC
1 TTC
1712409 TTCTCTCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.02, T:0.59
Consensus pattern (24 bp):
TTCCTCTATTTTCTTCGATTACTC
Found at i:1713697 original size:16 final size:16
Alignment explanation
Indices: 1713676--1713707 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1713666 ATTATAATAA
1713676 TAATTATTATTATTAC
1 TAATTATTATTATTAC
*
1713692 TAATTATTTTTATTAC
1 TAATTATTATTATTAC
1713708 ATTTTATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTATTATTATTAC
Found at i:1714219 original size:21 final size:20
Alignment explanation
Indices: 1714178--1714228 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
1714168 AGGCATTCGG
*
1714178 AAGAACAAA-AAAAAAAGAAA
1 AAGAA-AAAGAAAAAAACAAA
1714198 AAGAAAAAGAAAATAAACAAA
1 AAGAAAAAGAAAA-AAACAAA
1714219 AAGAAAAAGA
1 AAGAAAAAGA
1714229 GAAGAATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.11
20 9 0.32
21 16 0.57
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAACAAA
Found at i:1714242 original size:21 final size:21
Alignment explanation
Indices: 1714178--1714234 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1714168 AGGCATTCGG
*
1714178 AAGAACAAA-AAAA-AAAGAAA
1 AAGAA-AAAGAAAAGAAACAAA
*
1714198 AAGAAAAAGAAAATAAACAAA
1 AAGAAAAAGAAAAGAAACAAA
*
1714219 AAGAAAAAGAGAAGAA
1 AAGAAAAAGAAAAGAA
1714235 TCGAAAAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 9 0.28
21 20 0.62
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.02
Consensus pattern (21 bp):
AAGAAAAAGAAAAGAAACAAA
Found at i:1718112 original size:24 final size:24
Alignment explanation
Indices: 1718080--1718129 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
1718070 AATCTTCATA
*
1718080 TCCTCTATTTTCTTCTATTACTCT
1 TCCTCTATTTTCTTCGATTACTCT
*
1718104 TCCTTTATTTTCTTCGATTACTCT
1 TCCTCTATTTTCTTCGATTACTCT
1718128 TC
1 TC
1718130 TTCTCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.02, T:0.58
Consensus pattern (24 bp):
TCCTCTATTTTCTTCGATTACTCT
Found at i:1724611 original size:3 final size:3
Alignment explanation
Indices: 1724605--1724654 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
1724595 TTTAAAAAAA
*
1724605 TAT TATT TAT TATT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1724651 TAT T
1 TAT T
1724655 TTTTATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.81
4 6 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1724660 original size:15 final size:15
Alignment explanation
Indices: 1724605--1724673 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
1724595 TTTAAAAAAA
*
1724605 TATTATTTATTA-TT
1 TATTTTTTATTATTT
*
1724619 TATTATTACTATTATTAT
1 TATT-TT-TTATTATT-T
*
1724637 TA-TTATTATTATTT
1 TATTTTTTATTATTT
1724651 TATTTTTTATT-TATT
1 TATTTTTTATTAT-TT
1724666 TATTTTTT
1 TATTTTTT
1724674 TTCTGATCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
14 8 0.18
15 25 0.57
16 6 0.14
17 2 0.05
18 3 0.07
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTTATTATTT
Found at i:1725023 original size:15 final size:15
Alignment explanation
Indices: 1725003--1725036 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1724993 ACCATGCAAG
1725003 CTCTTCAACCTTCAT
1 CTCTTCAACCTTCAT
* *
1725018 CTCTTCGAGCTTCAT
1 CTCTTCAACCTTCAT
1725033 CTCT
1 CTCT
1725037 AAACGACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.06, T:0.41
Consensus pattern (15 bp):
CTCTTCAACCTTCAT
Found at i:1726965 original size:3 final size:3
Alignment explanation
Indices: 1726959--1727079 Score: 72
Period size: 3 Copynumber: 39.7 Consensus size: 3
1726949 ATAACAGTAG
* * *
1726959 TAA TAA TAA TAG TAA TAA TGAA -AA TAA TAG TAA TAA TAA AAA TGAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * *
1727005 -AA GAA -AT TAA -CA TAA TATA TATA TATA TATA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TA-A TA-A TAA TAA TAA TAA TAA
*
1727051 TAA TAA TAA TAA T-A TAA TATA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
1727080 TAACGTAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
2 8 0.08
3 65 0.68
4 22 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1730409 original size:10 final size:10
Alignment explanation
Indices: 1730394--1730418 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1730384 CCCACCTTAT
1730394 TTTTTTATTC
1 TTTTTTATTC
1730404 TTTTTTATTC
1 TTTTTTATTC
1730414 TTTTT
1 TTTTT
1730419 CTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTATTC
Found at i:1730426 original size:18 final size:18
Alignment explanation
Indices: 1730390--1730427 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1730380 TGAACCCACC
1730390 TTATTTTTTTATTCTTTT
1 TTATTTTTTTATTCTTTT
*
1730408 TTATTCTTTTTCTT-TTTT
1 TTATT-TTTTTATTCTTTT
1730426 TT
1 TT
1730428 TTCAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (18 bp):
TTATTTTTTTATTCTTTT
Found at i:1740987 original size:20 final size:20
Alignment explanation
Indices: 1740942--1740990 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1740932 AGTAAGGATT
*
1740942 AAAATAAGACAAGAATAAAA
1 AAAATAAAACAAGAATAAAA
**
1740962 TTAATAAAACAA-AACTAAAA
1 AAAATAAAACAAGAA-TAAAA
1740982 AAAATAAAA
1 AAAATAAAA
1740991 ATAATATAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAATAAAACAAGAATAAAA
Found at i:1741132 original size:2 final size:2
Alignment explanation
Indices: 1741125--1741166 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1741115 ACGAAAAGAA
*
1741125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1741166 A
1 A
1741167 AATAAGTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1741291 original size:6 final size:6
Alignment explanation
Indices: 1741200--1741305 Score: 89
Period size: 6 Copynumber: 17.8 Consensus size: 6
1741190 ATAACATTAG
* * * *
1741200 TAATAA TAATAG TAATAA TGAA-AA TAATAG TAATAA TAAAAA TAAAAA
1 TAATAA TAATAA TAATAA T-AATAA TAATAA TAATAA TAATAA TAATAA
1741248 TAA-AA TAA-AA TAA-AA -AAT-A TACATATA TATATATA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TA-ATA-A TA-ATA-A TAATAA TAATAA
1741295 TAATAA TAATA
1 TAATAA TAATA
1741306 GAATATATAC
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
4 3 0.03
5 15 0.17
6 54 0.62
7 5 0.06
8 10 0.11
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (6 bp):
TAATAA
Found at i:1741304 original size:9 final size:9
Alignment explanation
Indices: 1741200--1741305 Score: 89
Period size: 9 Copynumber: 11.9 Consensus size: 9
1741190 ATAACATTAG
1741200 TAATAATAA
1 TAATAATAA
*
1741209 TAGTAATAA
1 TAATAATAA
1741218 TGAA-AATAA
1 T-AATAATAA
*
1741227 TAGTAATAA
1 TAATAATAA
*
1741236 TAAAAATAA
1 TAATAATAA
*
1741245 AAATAA-AA
1 TAATAATAA
1741253 TAA-AATAA
1 TAATAATAA
1741261 -AA-AAT-A
1 TAATAATAA
1741267 TACATATATATA
1 TA-ATA-ATA-A
1741279 TATATAATAA
1 TA-ATAATAA
1741289 TAATAATAA
1 TAATAATAA
1741298 TAATAATA
1 TAATAATA
1741306 GAATATATAC
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
6 1 0.01
7 8 0.10
8 8 0.10
9 47 0.59
10 6 0.08
11 3 0.04
12 6 0.08
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (9 bp):
TAATAATAA
Found at i:1741369 original size:18 final size:19
Alignment explanation
Indices: 1741339--1741374 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1741329 TATATTAAAT
1741339 AAAATAAATAAATTAAAAA
1 AAAATAAATAAATTAAAAA
1741358 AAAATAAA-AAATTAAAA
1 AAAATAAATAAATTAAAA
1741375 CACGAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAATAAATTAAAAA
Found at i:1743254 original size:2 final size:2
Alignment explanation
Indices: 1743247--1743287 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1743237 AATAAATTAG
1743247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1743288 GTTCAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1744048 original size:31 final size:31
Alignment explanation
Indices: 1743950--1744048 Score: 180
Period size: 31 Copynumber: 3.2 Consensus size: 31
1743940 TACAATAACC
*
1743950 AAAACAGAATATGGTGACTAGAATAATAAAT
1 AAAAAAGAATATGGTGACTAGAATAATAAAT
*
1743981 TAAAAAGAATATGGTGACTAGAATAATAAAT
1 AAAAAAGAATATGGTGACTAGAATAATAAAT
1744012 AAAAAAGAATATGGTGACTAGAATAATAAAT
1 AAAAAAGAATATGGTGACTAGAATAATAAAT
1744043 AAAAAA
1 AAAAAA
1744049 CAACCACCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (31 bp):
AAAAAAGAATATGGTGACTAGAATAATAAAT
Found at i:1745744 original size:19 final size:21
Alignment explanation
Indices: 1745699--1745748 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
1745689 AAATTTAGGG
1745699 ATTAATTTTTTTTTACTATTT
1 ATTAATTTTTTTTTACTATTT
1745720 CATTAATTTTTTTTTA-TATTT
1 -ATTAATTTTTTTTTACTATTT
1745741 -TTAATTTT
1 ATTAATTTT
1745749 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.29
21 5 0.18
22 15 0.54
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTAATTTTTTTTTACTATTT
Found at i:1749582 original size:20 final size:20
Alignment explanation
Indices: 1749540--1749587 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1749530 TCAAAATAAT
**
1749540 TTTTCAAAATTTCATTTTAC
1 TTTTCAAAATTAAATTTTAC
1749560 TTTTCAAAATCTAAATTTT-C
1 TTTTCAAAAT-TAAATTTTAC
1749580 -TTTCAAAA
1 TTTTCAAAA
1749588 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATTAAATTTTAC
Found at i:1753161 original size:54 final size:55
Alignment explanation
Indices: 1753019--1753184 Score: 219
Period size: 55 Copynumber: 3.0 Consensus size: 55
1753009 TTTTGCCTCC
* **
1753019 CAAAACTAAGAAATTCATAAT-AAGTTTATGAATTTTCGTAGGGGCACTATGTGTG
1 CAAAACTAAGAAATTCATAATGAA-TTTATGAATTTCCGTATTGGCACTATGTGTG
* * *
1753074 CAAAACTAAGAAATCCATAATGAGTTTATGAATTTCCGTATTGGCACTGTGTGTG
1 CAAAACTAAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACTATGTGTG
* * * *
1753129 C-AACCTAAGAAATTCATTATGAATTTATGAATTTCCGTATTGGCATTAGGTGTG
1 CAAAACTAAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACTATGTGTG
1753183 CA
1 CA
1753185 TCCCACGAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
54 47 0.49
55 48 0.50
56 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (55 bp):
CAAAACTAAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACTATGTGTG
Found at i:1753195 original size:54 final size:54
Alignment explanation
Indices: 1753026--1753196 Score: 184
Period size: 54 Copynumber: 3.1 Consensus size: 54
1753016 TCCCAAAACT
* ** * * *
1753026 AAGAAATTCATAAT-AAGTTTATGAATTTTCGTAGGGGCACTATGTGTGCAAAACT
1 AAGAAATTCATAATGAA-TTTATGAATTTCCGTATTGGCACTGTGTGTGC-AACCC
* * *
1753081 AAGAAATCCATAATGAGTTTATGAATTTCCGTATTGGCACTGTGTGTGCAACCT
1 AAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACTGTGTGTGCAACCC
* * *
1753135 AAGAAATTCATTATGAATTTATGAATTTCCGTATTGGCATTAG-GTGTGCATCCC
1 AAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACT-GTGTGTGCAACCC
*
1753189 ACGAAATT
1 AAGAAATT
1753197 TGTAATGAGG
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
54 57 0.57
55 42 0.42
56 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (54 bp):
AAGAAATTCATAATGAATTTATGAATTTCCGTATTGGCACTGTGTGTGCAACCC
Found at i:1753517 original size:49 final size:49
Alignment explanation
Indices: 1753421--1753520 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
1753411 CTAACTATGC
* ** *
1753421 TTTTTGGAAGAAAGGTGCCATTAATGCAAGTTAAATGCCCAATGGTGCA
1 TTTTTGGAAGAAAGGTGCCACTAATGCAAGTTAAATGAACAACGGTGCA
* * *
1753470 TTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAATAACGGTGCA
1 TTTTTGGAAGAAAGGTGCCACTAATGCAAGTTAAATGAACAACGGTGCA
1753519 TT
1 TT
1753521 ACCGGCATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (49 bp):
TTTTTGGAAGAAAGGTGCCACTAATGCAAGTTAAATGAACAACGGTGCA
Found at i:1758752 original size:22 final size:22
Alignment explanation
Indices: 1758727--1758772 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1758717 TTGAATATCC
*
1758727 ACGGACAGAGTTTTGGCACAAA
1 ACGGACAGAATTTTGGCACAAA
** *
1758749 ACGGGTAGAATTTTGGTACAAA
1 ACGGACAGAATTTTGGCACAAA
1758771 AC
1 AC
1758773 AAACATAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (22 bp):
ACGGACAGAATTTTGGCACAAA
Found at i:1760267 original size:32 final size:32
Alignment explanation
Indices: 1760231--1760293 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
1760221 AAGCGTAAGA
* *
1760231 AACCCGAACCAAAATTAACCCAAAACGAAAAC
1 AACCCGAAACAAAAGTAACCCAAAACGAAAAC
* * *
1760263 AACCCGAAACGAAAGTAACCCGAACCGAAAA
1 AACCCGAAACAAAAGTAACCCAAAACGAAAA
1760294 GACCTAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.54, C:0.30, G:0.11, T:0.05
Consensus pattern (32 bp):
AACCCGAAACAAAAGTAACCCAAAACGAAAAC
Found at i:1760282 original size:16 final size:16
Alignment explanation
Indices: 1760231--1760332 Score: 68
Period size: 16 Copynumber: 6.5 Consensus size: 16
1760221 AAGCGTAAGA
* * *
1760231 AACCCGAACCAAAATT
1 AACCCGAAACGAAAGT
* **
1760247 AACCCAAAACGAAAAC
1 AACCCGAAACGAAAGT
1760263 AACCCGAAACGAAAGT
1 AACCCGAAACGAAAGT
*
1760279 AACCCGAACCGAAA--
1 AACCCGAAACGAAAGT
*
1760293 AGA-CCTAAACCGAAAGT
1 A-ACCCGAAA-CGAAAGT
* *
1760310 AA-CCGAACCGAAAGC
1 AACCCGAAACGAAAGT
1760325 AACCCGAA
1 AACCCGAA
1760333 TTTAGTTTAC
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
14 5 0.07
15 14 0.21
16 47 0.70
17 1 0.01
ACGTcount: A:0.51, C:0.30, G:0.14, T:0.05
Consensus pattern (16 bp):
AACCCGAAACGAAAGT
Found at i:1760318 original size:15 final size:15
Alignment explanation
Indices: 1760266--1760328 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
1760256 CGAAAACAAC
*
1760266 CCGAAACGAAAGTAA
1 CCGAACCGAAAGTAA
1760281 CCCGAACCGAAA--AGA
1 -CCGAACCGAAAGTA-A
*
1760296 CCTAAACCGAAAGTAA
1 CC-GAACCGAAAGTAA
*
1760312 CCGAACCGAAAGCAA
1 CCGAACCGAAAGTAA
1760327 CC
1 CC
1760329 CGAATTTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.08
15 22 0.56
16 13 0.33
17 1 0.03
ACGTcount: A:0.48, C:0.30, G:0.17, T:0.05
Consensus pattern (15 bp):
CCGAACCGAAAGTAA
Found at i:1760374 original size:43 final size:43
Alignment explanation
Indices: 1760324--1760413 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
1760314 GAACCGAAAG
*
1760324 CAACCCGAATTTAGTTTACCCATACCCGACCTGAACCGAACTT
1 CAACCCGAATTTAGTTTACCCATACCCGACCCGAACCGAACTT
1760367 CAACCCGAATTTAGTTTACCCATACCCGACCCGAACCGAACTT
1 CAACCCGAATTTAGTTTACCCATACCCGACCCGAACCGAACTT
1760410 CAAC
1 CAAC
1760414 ATGATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.37, G:0.11, T:0.21
Consensus pattern (43 bp):
CAACCCGAATTTAGTTTACCCATACCCGACCCGAACCGAACTT
Found at i:1760974 original size:26 final size:26
Alignment explanation
Indices: 1760945--1760998 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
1760935 GACCCGAACT
* *
1760945 GAAATCAATCGATCCAATATTGACCC
1 GAAACCAATCGATCCAATATTAACCC
* **
1760971 GAAACCAGTCGATCTTATATTAACCC
1 GAAACCAATCGATCCAATATTAACCC
1760997 GA
1 GA
1760999 GCAAAACATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (26 bp):
GAAACCAATCGATCCAATATTAACCC
Found at i:1761260 original size:15 final size:16
Alignment explanation
Indices: 1761237--1761275 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1761227 AACATTTATA
1761237 TATTATTATCAC-ATT
1 TATTATTATCACTATT
*
1761252 TATTGTTATCACTATTT
1 TATTATTATCACTA-TT
1761269 TATTATT
1 TATTATT
1761276 TTAGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
16 1 0.05
17 8 0.40
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTATTATCACTATT
Found at i:1763428 original size:19 final size:20
Alignment explanation
Indices: 1763391--1763441 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1763381 ATTCAAAATC
*
1763391 ATTTTTCAAAATTTCATTTT
1 ATTTTTCAAAATCTCATTTT
1763411 ATTTTTCAAAATCT-ATTTT
1 ATTTTTCAAAATCTCATTTT
*
1763430 TTTCTTTCAAAA
1 ATT-TTTCAAAA
1763442 GAAAATCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTCAAAATCTCATTTT
Found at i:1763931 original size:3 final size:3
Alignment explanation
Indices: 1763923--1763960 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
1763913 TCTTACATCT
*
1763923 TTC TTC TTC TTC TTC -TC TTA TTC TTC TTCC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT
1763961 TTGTAGTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1764391 original size:3 final size:3
Alignment explanation
Indices: 1764383--1764416 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1764373 TTCCGACAAC
1764383 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1764417 ATTTATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:1772572 original size:2 final size:2
Alignment explanation
Indices: 1772567--1772605 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1772557 CATTCTTTAT
1772567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1772606 TATTTCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1776158 original size:11 final size:12
Alignment explanation
Indices: 1776139--1776176 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
1776129 AAAATTGAAA
1776139 AAAGAGAAAAAG
1 AAAGAGAAAAAG
1776151 AAAG-GAAAAAG
1 AAAGAGAAAAAG
*
1776162 AAAAAGAAAAGAG
1 AAAGAGAAAA-AG
1776175 AA
1 AA
1776177 TAAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 9 0.39
13 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAAAG
Found at i:1777437 original size:133 final size:133
Alignment explanation
Indices: 1777201--1777917 Score: 751
Period size: 133 Copynumber: 5.4 Consensus size: 133
1777191 AAAGACAAGA
* * * * * * * * * *
1777201 GGAACAAATCTACCTCGATTTAATCTTCCCTTAAGAACAGTGTAATGAATCAACGTCTCTAGATC
1 GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAATGTCTCCAGATC
** * * * * * *
1777266 CAATTTTCCTTGAAGAAACAACAGAACATATCCCCTCTTTCCATATTTGATCTTCCCTGAGTAGC
66 TGATTTTCCCTGAAGAAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
*
1777331 AAT
131 AGT
* * * * * * * * *
1777334 AGAACAAGTATGCCTC-ATTCAATCTTCCTTGAAGAACAATAGAATTAATCAACGACGTCCAGAT
1 GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAATGTC-TCCAGAT
* *
1777398 ATGATTTTCCCTG-AGAAAACAACGGAACAGATCCCCTCTTT-CAGATTTGATCTTCCCTGAGTA
65 CTGATTTTCCCTGAAG-AAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTA
1777461 GTAGT
129 GTAGT
* * * *
1777466 GGAACTAGTCTGCCTCGATT-ATATCTTCCCTGAAGGATAATGGAATGAATCAATGTCTCTAGAT
1 GGAACAAGTCTGCCCCGATTCA-ATCTTCCCTGAAGGACAATGGAATGAATCAATGTCTCCAGAT
* ** * * *
1777530 CTGATATTCCCTGAAGATGCAGCGGAATAGATCTCATCTTTCCAGATTTGATCTTCCCTGAGTAG
65 CTGATTTTCCCTGAAGAAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTAG
*
1777595 CAGT
130 TAGT
* * * * * *
1777599 GGAATAAGTCTACCCCGATTCAATATTCCCTAAAGAACAGTGGAATGAATCAATGTCTCCAGATC
1 GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAATGTCTCCAGATC
* * * * * *
1777664 TAATTTTCCATGAAAAAATAGTGGAACAGATCCCCTCTTTCCAAATTTGATCTTCCCTTG-GTAG
66 TGATTTTCCCTGAAGAAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCC-TGAGTAG
1777728 TAGT
130 TAGT
* * * * *
1777732 GGAACAAGTCTGTCCCGATTCAGTCTTCCATGAAGGACAATGGAATAAATAAATGTCTCCAGATC
1 GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAATGTCTCCAGATC
* * ** * * *
1777797 TGATTTTCCTTGAAGAAATAGCATAACAGATCCCCTCTTTCTAGATTTGATCTTCCCTAAGTAAT
66 TGATTTTCCCTGAAGAAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
1777862 AGT
131 AGT
* * *
1777865 GGAATAAGTCTGCCCCGATTCAATCTTCCTTGAAGGACATTGGAATGAATCAA
1 GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAA
1777918 CATTTCCCGA
Statistics
Matches: 482, Mismatches: 93, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
132 109 0.23
133 370 0.77
134 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (133 bp):
GGAACAAGTCTGCCCCGATTCAATCTTCCCTGAAGGACAATGGAATGAATCAATGTCTCCAGATC
TGATTTTCCCTGAAGAAACAGCGGAACAGATCCCCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
AGT
Found at i:1779667 original size:62 final size:62
Alignment explanation
Indices: 1779551--1779671 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
1779541 TTCATTCAAT
* * * **
1779551 TTTGCATTTTATTTTGTTTTAATTTTTGACATGATGATTTGTTTGTTTTTATTTTAGTCATA
1 TTTGCATGTTATTTTATTTTAATTTTTGACATGATCATTTGCATGTTTTTATTTTAGTCATA
1779613 TTTGCATGTTATTTTATTTTAATTTTTG-CATG-TCACTTT-CATGTTATTTCATTTTAGTC
1 TTTGCATGTTATTTTATTTTAATTTTTGACATGATCA-TTTGCATGTT-TTT-ATTTTAGTC
1779672 CCTAATTAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
60 6 0.12
61 10 0.20
62 35 0.69
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.61
Consensus pattern (62 bp):
TTTGCATGTTATTTTATTTTAATTTTTGACATGATCATTTGCATGTTTTTATTTTAGTCATA
Found at i:1780353 original size:131 final size:131
Alignment explanation
Indices: 1780113--1780478 Score: 473
Period size: 131 Copynumber: 2.8 Consensus size: 131
1780103 CTCAATATTG
* * * * * *
1780113 AAAATAGTAATAACTTTTCATTTCGGTTGGAGTAATAAATTATTGCTTTAAGGCATAATAGGTCA
1 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCA
* * * *
1780178 TTTATTTTCGATTAGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
*
1780243 C
131 A
* * * *
1780244 GAAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGATTGCTTTAAGGCATTAGATGTCA
1 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCA
* * ** *
1780309 TTTATTCTCGATGGGAAATCATTTTATATTATCGTTTTCACTCGAATTAATATTGAATTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
1780374 A
131 A
* * * * * *
1780375 AAAAT-GATGATATCTCTTTATTTCGATTGGGGTAATAAATGAGTGGTTTAAGGCATGAGAGGTT
1 AAAATAG-TGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTC
*
1780439 ATTTATTCTCGTTTGGAAATAATTAGATATTATCGTTTTC
65 ATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC
1780479 TCTCTTAAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
130 1 0.00
131 199 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (131 bp):
AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCA
TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
A
Found at i:1784648 original size:17 final size:17
Alignment explanation
Indices: 1784626--1784658 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1784616 TATGTGTTTT
1784626 TATATTTTTGGGATAAA
1 TATATTTTTGGGATAAA
1784643 TATATTTTTGGGATAA
1 TATATTTTTGGGATAA
1784659 CTAACAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
TATATTTTTGGGATAAA
Found at i:1784837 original size:2 final size:2
Alignment explanation
Indices: 1784826--1784868 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
1784816 TTATATTAAA
*
1784826 AT AT -T AT AT AT AC 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
1784867 AT
1 AT
1784869 TATTACGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1788777 original size:25 final size:25
Alignment explanation
Indices: 1788749--1788804 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
1788739 AACAAATAAG
1788749 AGTAAAATTATAATGAATTCAAACT
1 AGTAAAATTATAATGAATTCAAACT
**
1788774 AGTAAAATTATAATGTCTTCAAACT
1 AGTAAAATTATAATGAATTCAAACT
1788799 ATGTAA
1 A-GTAA
1788805 TAATCGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (25 bp):
AGTAAAATTATAATGAATTCAAACT
Found at i:1789580 original size:14 final size:14
Alignment explanation
Indices: 1789524--1789582 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
1789514 ATATCATATA
1789524 TTTTATATATTT-T
1 TTTTATATATTTAT
* * *
1789537 TATTAAAAATTTAT
1 TTTTATATATTTAT
* *
1789551 TTTTATTTATTAAT
1 TTTTATATATTTAT
*
1789565 TTTTATATGTTTAT
1 TTTTATATATTTAT
1789579 TTTT
1 TTTT
1789583 CTAAAATTTT
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
13 9 0.26
14 25 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTATATATTTAT
Found at i:1791408 original size:39 final size:39
Alignment explanation
Indices: 1791354--1791434 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
1791344 TTCTCGCACA
1791354 TAAAGAGATTACATAGAATAAAACTTGAGTTCCAATGCT
1 TAAAGAGATTACATAGAATAAAACTTGAGTTCCAATGCT
*
1791393 TAAAGAGATTGCATAGAATAAAACTTGAGTTCCAATGCT
1 TAAAGAGATTACATAGAATAAAACTTGAGTTCCAATGCT
1791432 TAA
1 TAA
1791435 CATTTTAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (39 bp):
TAAAGAGATTACATAGAATAAAACTTGAGTTCCAATGCT
Found at i:1799089 original size:105 final size:104
Alignment explanation
Indices: 1798955--1799173 Score: 260
Period size: 105 Copynumber: 2.1 Consensus size: 104
1798945 CTGATGGAGT
* * * * *
1798955 TATTGTTAATAATATCGAACATTTGGTCACTAAAAACCACTTACTGTGACAACATTGATAATCAC
1 TATTGATAATAATATCAAACATTTCGTCACTAAAAAACACTTACTGTGACAACATTGATAATAAC
* * * * *
1799020 AAAATATACTTTTAGTGTCAAATAAA-TTTATCACAATTTC
66 AAAATATACTTTTAGAGT-AAA-AAAGATCATCACAATCTA
* * * * **
1799060 TATTGATAATAGTATCAAACATTTCGTCACTAAAAAATACTTAGTGTGACAATATTGATGGTAAC
1 TATTGATAATAATATCAAACATTTCGTCACTAAAAAACACTTACTGTGACAACATTGATAATAAC
*
1799125 AAAATATATTTTTAGAGTAAAAAAGATCATCACAATCTA
66 AAAATATACTTTTAGAGTAAAAAAGATCATCACAATCTA
1799164 TATTGATAAT
1 TATTGATAAT
1799174 TGTGTCGAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
103 3 0.03
104 23 0.24
105 70 0.73
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (104 bp):
TATTGATAATAATATCAAACATTTCGTCACTAAAAAACACTTACTGTGACAACATTGATAATAAC
AAAATATACTTTTAGAGTAAAAAAGATCATCACAATCTA
Found at i:1799816 original size:15 final size:15
Alignment explanation
Indices: 1799788--1799820 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1799778 TTATAAAAAT
1799788 AAAATAAAATCCATA
1 AAAATAAAATCCATA
1799803 AAAATTAAAA-CCATA
1 AAAA-TAAAATCCATA
1799818 AAA
1 AAA
1799821 GCCATCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATCCATA
Found at i:1804407 original size:22 final size:21
Alignment explanation
Indices: 1804356--1804408 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1804346 TGTACTCTTT
1804356 TTCCTATAATTGATACATTAA
1 TTCCTATAATTGATACATTAA
* * **
1804377 TGTCATATAATTTATATTTCTAA
1 T-TCCTATAATTGATACAT-TAA
1804400 TTCCTATAA
1 TTCCTATAA
1804409 CATCCTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (21 bp):
TTCCTATAATTGATACATTAA
Found at i:1807027 original size:2 final size:2
Alignment explanation
Indices: 1807022--1807046 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1807012 CAAGCATAAT
1807022 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1807047 TACATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1807521 original size:24 final size:23
Alignment explanation
Indices: 1807494--1807555 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
1807484 CTCGTATAAA
*
1807494 TGCACCGAAGTGCCACGTAGAATT
1 TGCACCGTAGTGCCACGTAGAA-T
**
1807518 TGCACCGTAGTGCCGTGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
1807541 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
1807556 TACAAGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:1807565 original size:23 final size:23
Alignment explanation
Indices: 1807494--1807562 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
1807484 CTCGTATAAA
* *
1807494 TGCACCGAAGTGCCA-CGTAGAATT
1 TGCACCGTAGTGCCATC-AAGAA-T
* **
1807518 TGCACCGTAGTGCCGTGTAGAAT
1 TGCACCGTAGTGCCATCAAGAAT
1807541 TGCACCGTAGTGCCATACAAGA
1 TGCACCGTAGTGCCAT-CAAGA
1807563 TTGTCCCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 16 0.43
24 21 0.57
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
TGCACCGTAGTGCCATCAAGAAT
Found at i:1808200 original size:22 final size:21
Alignment explanation
Indices: 1808149--1808201 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1808139 TGTACTCATT
1808149 TTCCTATAATTGACACATTAA
1 TTCCTATAATTGACACATTAA
* * **
1808170 TGTCATATAATTGATATTTCTAA
1 T-TCCTATAATTGACACAT-TAA
1808193 TTCCTATAA
1 TTCCTATAA
1808202 CATCCTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (21 bp):
TTCCTATAATTGACACATTAA
Found at i:1810824 original size:2 final size:2
Alignment explanation
Indices: 1810819--1810843 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1810809 CAAGCATAAT
1810819 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1810844 TATATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1811314 original size:24 final size:23
Alignment explanation
Indices: 1811287--1811348 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
1811277 CTCGTATAAA
*
1811287 TGCACCGAAGTGCCACGTAGAATT
1 TGCACCGTAGTGCCACGTAGAA-T
**
1811311 TGCACCGTAGTGCCGTGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
1811334 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
1811349 TACAAGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:1811358 original size:23 final size:23
Alignment explanation
Indices: 1811287--1811355 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
1811277 CTCGTATAAA
* *
1811287 TGCACCGAAGTGCCA-CGTAGAATT
1 TGCACCGTAGTGCCATC-AAGAA-T
* **
1811311 TGCACCGTAGTGCCGTGTAGAAT
1 TGCACCGTAGTGCCATCAAGAAT
1811334 TGCACCGTAGTGCCATACAAGA
1 TGCACCGTAGTGCCAT-CAAGA
1811356 TTGTCCCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 16 0.43
24 21 0.57
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
TGCACCGTAGTGCCATCAAGAAT
Found at i:1811994 original size:22 final size:21
Alignment explanation
Indices: 1811943--1811995 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1811933 TGTACTCATT
1811943 TTCCTATAATTGACACATTAA
1 TTCCTATAATTGACACATTAA
* * **
1811964 TGTCATATAATTGATATTTCTAA
1 T-TCCTATAATTGACACAT-TAA
1811987 TTCCTATAA
1 TTCCTATAA
1811996 CATCCTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (21 bp):
TTCCTATAATTGACACATTAA
Found at i:1814610 original size:2 final size:2
Alignment explanation
Indices: 1814605--1814659 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
1814595 CAAGCATAAT
*
1814605 AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1814647 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
1814660 TATATATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1814664 original size:2 final size:2
Alignment explanation
Indices: 1814659--1814691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1814649 ACACACACAC
1814659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1814692 CACTTCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1814987 original size:2 final size:2
Alignment explanation
Indices: 1814980--1815011 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1814970 GTTACAATTC
1814980 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
1815012 CATACGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1815738 original size:22 final size:21
Alignment explanation
Indices: 1815687--1815739 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1815677 TGTACTCCTT
1815687 TTCCTATAATTGATACATTAA
1 TTCCTATAATTGATACATTAA
* * **
1815708 TGTCATATAATTTATATTTCTAA
1 T-TCCTATAATTGATACAT-TAA
1815731 TTCCTATAA
1 TTCCTATAA
1815740 CATCCTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (21 bp):
TTCCTATAATTGATACATTAA
Found at i:1817879 original size:15 final size:17
Alignment explanation
Indices: 1817859--1817898 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1817849 AGATCATGAG
1817859 AAGAAG-GAT-GATAAA
1 AAGAAGAGATGGATAAA
1817874 AAGAAGGAGATGGATAAA
1 AAGAA-GAGATGGATAAA
1817892 AAGAAGA
1 AAGAAGA
1817899 ACGTTGGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 1 0.05
17 5 0.23
18 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (17 bp):
AAGAAGAGATGGATAAA
Found at i:1821872 original size:21 final size:20
Alignment explanation
Indices: 1821828--1821873 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1821818 TGCTAGGTAT
* *
1821828 CGATACTACTAGCATAGTAT
1 CGATACTACTAGAATAGTAC
*
1821848 CGATACTACTTGAATGAGTAC
1 CGATACTACTAGAAT-AGTAC
1821869 CGATA
1 CGATA
1821874 TTGTTCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (20 bp):
CGATACTACTAGAATAGTAC
Found at i:1828300 original size:2 final size:2
Alignment explanation
Indices: 1828293--1828317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1828283 TCAATCTACA
1828293 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1828318 ATTTACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1828697 original size:85 final size:85
Alignment explanation
Indices: 1828377--1828685 Score: 390
Period size: 85 Copynumber: 3.6 Consensus size: 85
1828367 GACGTGTGCA
* * * * * *
1828377 TCAATGACACGCAATGTAAGTCATATATGCATGTCATAAATTTATGACACACAAATGTATGTCAA
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATATGTGTC-A
* * *
1828442 GCAT-ATTTACGACGGGGGCT
65 TCTTAATTTATGACGGGGGCT
* * *
1828462 TCAATGACGCACAATGTAAGTCATACATGCGTGTCATAAATTTATGACGTACAAATGTGTGTCAT
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATATGTGTCAT
*
1828527 CTTAATTTATGACGGGGGAT
66 CTTAATTTATGACGGGGGCT
* *
1828547 TCAATGACGCGCAATGTAAGTCATACATGAGTGTCATAAATTTATGATGCACAAATATGTGTCAT
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATATGTGTCAT
1828612 CTTAATTTATGACGGGGGCT
66 CTTAATTTATGACGGGGGCT
* * * * *
1828632 TCAATGACACGCAAAG-AACGTCATTA-ATGCGCGTCATAGATTTATGACACACAA
1 TCAATGACGCGCAATGTAA-GTCA-TACATGCGTGTCATAAATTTATGACGCACAA
1828686 TTACGCGTCA
Statistics
Matches: 197, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
84 5 0.03
85 190 0.96
86 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (85 bp):
TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATATGTGTCAT
CTTAATTTATGACGGGGGCT
Found at i:1831190 original size:54 final size:54
Alignment explanation
Indices: 1830701--1831173 Score: 537
Period size: 54 Copynumber: 8.8 Consensus size: 54
1830691 CTAAATAGGA
* * *
1830701 ACTAAGTGTGCAACTCACGAAATTCATCATATGTTGGTGAACAACCGTTTCGGC
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
* ** *
1830755 ACTATGTGTGCAACTTACATAATTCATCATATGTTGATGAACAACCGTTTCAGC
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
** * **
1830809 ACTATGTGTGCAACTCATAGAATTCATCATATCTTGATGAACAACCGTTTCAAC
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
* * *
1830863 ACTATATGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCATTTAGGC
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
* * * *
1830917 ACTATGTGTGCAACTCACAGAATTCATCATATGTTGATTAACAACCATTTCGAC
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
* *
1830971 ACTATGTGTGCAACTCACGGAATTCATCATGA-GTTGATGAACAACCG-TACAGGT
1 ACTATGTGTGCAACTCACGGAATTCATCAT-ATGTTGATGAACAACCGTTTC-GGC
* * * *
1831025 ACTATGTGTGCAA-TCTACGGAATTCATCATGA-GATGATGAACAACC-ATACATGC
1 ACTATGTGTGCAACTC-ACGGAATTCATCAT-ATGTTGATGAACAACCGTTTC-GGC
* * * * *
1831079 ACTATGTGTGCAACCCACGAAATTCATCATGA-GATGATGAACAACCG-TACATGC
1 ACTATGTGTGCAACTCACGGAATTCATCAT-ATGTTGATGAACAACCGTTTC-GGC
* * *
1831133 ACTATGTGTTCAACCCACGGAATTCATGATATGTTGATGAA
1 ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAA
1831174 TGACCATATT
Statistics
Matches: 373, Mismatches: 39, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
53 5 0.01
54 366 0.98
55 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (54 bp):
ACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGGC
Found at i:1832767 original size:12 final size:12
Alignment explanation
Indices: 1832750--1832789 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1832740 TATAATTTTT
*
1832750 TATTATTGAAAA
1 TATTATAGAAAA
1832762 TATTATAGAAAA
1 TATTATAGAAAA
1832774 TAATATATAGAAAA
1 T-AT-TATAGAAAA
1832788 TA
1 TA
1832790 ATGTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
13 3 0.12
14 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (12 bp):
TATTATAGAAAA
Found at i:1832784 original size:14 final size:13
Alignment explanation
Indices: 1832751--1832791 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
1832741 ATAATTTTTT
*
1832751 ATTATTGAAAAT-
1 ATTATAGAAAATA
1832763 ATTATAGAAAATA
1 ATTATAGAAAATA
1832776 ATATATAGAAAATA
1 AT-TATAGAAAATA
1832790 AT
1 AT
1832792 GTAATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (13 bp):
ATTATAGAAAATA
Found at i:1843791 original size:4 final size:4
Alignment explanation
Indices: 1843762--1843830 Score: 67
Period size: 4 Copynumber: 18.0 Consensus size: 4
1843752 AAAATAAAAT
* *
1843762 TAAA TGAA TAAA TTAA TAATA TAAA TAAA T-AA TAAA T-AA TAAA T-AA
1 TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1843808 TAATA TAAA T-AA TAAA T-AA TAAA
1 TAA-A TAAA TAAA TAAA TAAA TAAA
1843831 AAACTATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 15 0.28
4 31 0.57
5 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (4 bp):
TAAA
Found at i:1843797 original size:7 final size:7
Alignment explanation
Indices: 1843762--1843830 Score: 88
Period size: 7 Copynumber: 9.6 Consensus size: 7
1843752 AAAATAAAAT
1843762 TAAATGAA
1 TAAAT-AA
1843770 TAAATTAA
1 TAAA-TAA
1843778 TAATATAAA
1 TAA-AT-AA
1843787 TAAATAA
1 TAAATAA
1843794 TAAATAA
1 TAAATAA
1843801 TAAATAA
1 TAAATAA
1843808 T-AAT-A
1 TAAATAA
1843813 TAAATAA
1 TAAATAA
1843820 TAAATAA
1 TAAATAA
1843827 TAAA
1 TAAA
1843831 AAACTATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
5 2 0.04
6 6 0.11
7 29 0.52
8 12 0.21
9 7 0.12
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (7 bp):
TAAATAA
Found at i:1843811 original size:30 final size:31
Alignment explanation
Indices: 1843753--1843826 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 31
1843743 AACTTGAAAA
*
1843753 AAATAAAATTAAATGAATAAATTAATAATAT
1 AAATAAAAATAAATGAATAAATTAATAATAT
1843784 AAATAAATAATAAAT-AATAAA-TAATAATAT
1 AAATAAA-AATAAATGAATAAATTAATAATAT
1843814 AAATAATAAATAA
1 AAATAA-AAATAA
1843827 TAAAAAACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 20 0.50
31 14 0.35
32 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAAAAATAAATGAATAAATTAATAATAT
Found at i:1843839 original size:26 final size:26
Alignment explanation
Indices: 1843750--1843841 Score: 93
Period size: 26 Copynumber: 3.5 Consensus size: 26
1843740 TTGAACTTGA
*
1843750 AAAAAATAAAATTAAATGAATAAAT--T
1 AAAAAATAATA-TAAAT-AATAAATAAT
*
1843776 AATAATATAA-ATAAATAATAAATAAT
1 AA-AAAATAATATAAATAATAAATAAT
*
1843802 AAATAATAATATAAATAATAAATAAT
1 AAAAAATAATATAAATAATAAATAAT
1843828 AAAAAACT-ATATAA
1 AAAAAA-TAATATAA
1843842 CATATATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.12
25 10 0.18
26 33 0.58
27 7 0.12
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (26 bp):
AAAAAATAATATAAATAATAAATAAT
Found at i:1843841 original size:19 final size:17
Alignment explanation
Indices: 1843782--1843833 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
1843772 AATTAATAAT
*
1843782 ATAAATAAATAATAAATA
1 ATAAAT-AATAAAAAATA
1843800 ATAAATAATAATATAAATA
1 ATAAATAATAA-A-AAATA
1843819 ATAAATAATAAAAAA
1 ATAAATAATAAAAAA
1843834 CTATATAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 8 0.26
18 7 0.23
19 16 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAATAATAAAAAATA
Found at i:1843918 original size:41 final size:42
Alignment explanation
Indices: 1843873--1843953 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
1843863 TTAAATAATA
*
1843873 TGTTTTAAAAAATTATATATAT-TATATATGTTTTCAAAAGT
1 TGTTTTAAAAAACTATATATATATATATATGTTTTCAAAAGT
1843914 TGTTTTAAAAAACTATATATATATATATATGTTTTCAAAA
1 TGTTTTAAAAAACTATATATATATATATATGTTTTCAAAA
1843954 CTATATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 21 0.55
42 17 0.45
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (42 bp):
TGTTTTAAAAAACTATATATATATATATATGTTTTCAAAAGT
Found at i:1843964 original size:23 final size:24
Alignment explanation
Indices: 1843931--1843977 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
1843921 AAAAACTATA
1843931 TATATATATATATGTTTTCAAAAC
1 TATATATATATATGTTTTCAAAAC
1843955 TATAT-TATATATGTTTTCAAAAC
1 TATATATATATATGTTTTCAAAAC
1843978 CGTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TATATATATATATGTTTTCAAAAC
Found at i:1843996 original size:37 final size:37
Alignment explanation
Indices: 1843943--1844203 Score: 262
Period size: 37 Copynumber: 6.9 Consensus size: 37
1843933 TATATATATA
*
1843943 TGTTTTCAAAACTATAT-TATATATGTTTTCAAAACCG
1 TGTTTTCAAAACTATATAT-TATATGTTTTCAAAAACG
* * * *
1843980 TTTTTTTAAAACTATATATTATACGTCTTT-AAAAATG
1 TGTTTTCAAAACTATATATTATATGT-TTTCAAAAACG
* **
1844017 TGTTTTTAAAACTATATATTATACATTTTCAAAAACG
1 TGTTTTCAAAACTATATATTATATGTTTTCAAAAACG
*
1844054 TGTTTTCAAAACTATATATATTATACGTTTTCAAAAACG
1 TGTTTTCAAAAC--TATATATTATATGTTTTCAAAAACG
* *
1844093 TGTTTTCAAAACCATAT-TATATATATTTTCAAAAATC-
1 TGTTTTCAAAACTATATAT-TATATGTTTTCAAAAA-CG
* * * *
1844130 TCTTTTTAAAAACTATATATTATATGCTTTCAAAAATCA
1 T-GTTTTCAAAACTATATATTATATGTTTTCAAAAA-CG
*
1844169 T-TTTCTAAAAACTATATATTATATGTTTTCAAAAA
1 TGTTT-TCAAAACTATATATTATATGTTTTCAAAAA
1844204 TATTTTCAAA
Statistics
Matches: 194, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
36 4 0.02
37 89 0.46
38 63 0.32
39 38 0.20
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (37 bp):
TGTTTTCAAAACTATATATTATATGTTTTCAAAAACG
Found at i:1844154 original size:38 final size:38
Alignment explanation
Indices: 1843945--1844204 Score: 259
Period size: 38 Copynumber: 6.9 Consensus size: 38
1843935 TATATATATG
*
1843945 TTTTCAAAACTATAT-TATATATGTTTTC-AAAACCGTT
1 TTTTCAAAACTATATAT-TATATGTTTTCAAAAATCGTT
* *
1843982 TTTTTAAAACTATATATTATACGTCTTT-AAAAAT-GTGT
1 TTTTCAAAACTATATATTATATGT-TTTCAAAAATCGT-T
** *
1844020 TTTT-AAAACTATATATTATACATTTTCAAAAA-CGTG
1 TTTTCAAAACTATATATTATATGTTTTCAAAAATCGTT
* *
1844056 TTTTCAAAACTATATATATTATACGTTTTCAAAAA-CGTG
1 TTTTCAAAAC--TATATATTATATGTTTTCAAAAATCGTT
* *
1844095 TTTTCAAAACCATAT-TATATATATTTTCAAAAATC-TCT
1 TTTTCAAAACTATATAT-TATATGTTTTCAAAAATCGT-T
* * *
1844133 TTTTAAAAACTATATATTATATGCTTTCAAAAATCATT
1 TTTTCAAAACTATATATTATATGTTTTCAAAAATCGTT
* *
1844171 TTCTAAAAACTATATATTATATGTTTTCAAAAAT
1 TTTTCAAAACTATATATTATATGTTTTCAAAAAT
1844205 ATTTTCAAAA
Statistics
Matches: 193, Mismatches: 16, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
36 8 0.04
37 71 0.37
38 76 0.39
39 38 0.20
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (38 bp):
TTTTCAAAACTATATATTATATGTTTTCAAAAATCGTT
Found at i:1847062 original size:17 final size:17
Alignment explanation
Indices: 1847019--1847070 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1847009 GATACAGTAG
*
1847019 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
1847036 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
1847051 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
1847068 AAA
1 AAA
1847071 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:1849643 original size:29 final size:30
Alignment explanation
Indices: 1849601--1849657 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
1849591 ATGTTCATTT
1849601 TTTTAATTTAATGTCTAAT-GTTTATTTCG
1 TTTTAATTTAATGTCTAATAGTTTATTTCG
* * *
1849630 TTTTAGTTTGATGTCTAATATTTTATTT
1 TTTTAATTTAATGTCTAATAGTTTATTT
1849658 TATTACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (30 bp):
TTTTAATTTAATGTCTAATAGTTTATTTCG
Found at i:1856778 original size:7 final size:7
Alignment explanation
Indices: 1856766--1856908 Score: 88
Period size: 7 Copynumber: 20.4 Consensus size: 7
1856756 ATTTGAAATG
1856766 AACCCTA
1 AACCCTA
1856773 AACCCTA
1 AACCCTA
* *
1856780 AATCATA
1 AACCCTA
**
1856787 AATACTA
1 AACCCTA
1856794 AACCCTA
1 AACCCTA
*
1856801 AACTCTA
1 AACCCTA
*
1856808 ATCCCTA
1 AACCCTA
*
1856815 AACCTTA
1 AACCCTA
** *
1856822 GGCCATA
1 AACCCTA
**
1856829 AATACTA
1 AACCCTA
*
1856836 AACCCTG
1 AACCCTA
1856843 AACCCTA
1 AACCCTA
*
1856850 AACCTTA
1 AACCCTA
* **
1856857 ATCTTTA
1 AACCCTA
1856864 AACCCTA
1 AACCCTA
* *
1856871 AACCATT
1 AACCCTA
* *
1856878 AGCACTA
1 AACCCTA
1856885 AACCCTA
1 AACCCTA
*
1856892 AAACCTA
1 AACCCTA
1856899 AACCCTA
1 AACCCTA
1856906 AAC
1 AAC
1856909 TCAGTTATAT
Statistics
Matches: 97, Mismatches: 39, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
7 97 1.00
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:1858362 original size:11 final size:11
Alignment explanation
Indices: 1858346--1858406 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
1858336 TCGAGCTCAA
1858346 AATTGAGCTTG
1 AATTGAGCTTG
*
1858357 AATTGAGCTCG
1 AATTGAGCTTG
*
1858368 AGTTTCGAGCTTG
1 A-ATT-GAGCTTG
*
1858381 AATTGAGCTTAA
1 AATTGAGCTT-G
*
1858393 AATCGAGCTTG
1 AATTGAGCTTG
1858404 AAT
1 AAT
1858407 CGAGTTTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 20 0.50
12 13 0.32
13 7 0.17
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (11 bp):
AATTGAGCTTG
Found at i:1858364 original size:23 final size:23
Alignment explanation
Indices: 1858338--1858406 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1858328 ACTTGTTTTC
1858338 GAGCTCAAAATTGAGCTTGAATT
1 GAGCTCAAAATTGAGCTTGAATT
* **
1858361 GAGCTCGAGTTTCGAGCTTGAATT
1 GAGCTCAAAATT-GAGCTTGAATT
* *
1858385 GAGCTTAAAATCGAGCTTGAAT
1 GAGCTCAAAATTGAGCTTGAAT
1858407 CGAGTTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (23 bp):
GAGCTCAAAATTGAGCTTGAATT
Found at i:1858407 original size:11 final size:11
Alignment explanation
Indices: 1858372--1858410 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1858362 AGCTCGAGTT
1858372 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
1858383 TTGAGCTTAAAA
1 TCGAGCTT-GAA
1858395 TCGAGCTTGAA
1 TCGAGCTTGAA
1858406 TCGAG
1 TCGAG
1858411 TTTTGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:1858994 original size:23 final size:22
Alignment explanation
Indices: 1858964--1859006 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1858954 AGGAGTTTTA
*
1858964 ATTGTTCTTAAAATTGAATTAT
1 ATTGTTCTTAAAATAGAATTAT
*
1858986 ATTGATTCTTTAAATAGAATT
1 ATTG-TTCTTAAAATAGAATT
1859007 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTGTTCTTAAAATAGAATTAT
Found at i:1859753 original size:2 final size:2
Alignment explanation
Indices: 1859746--1859785 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1859736 TTTATTATTA
1859746 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
1859786 TTCTAGATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1869547 original size:2 final size:2
Alignment explanation
Indices: 1869540--1869582 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1869530 TAAGTGGAAC
1869540 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
1869582 A
1 A
1869583 GGGTTAGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1872345 original size:13 final size:13
Alignment explanation
Indices: 1872327--1872362 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1872317 CAAATCGGAT
*
1872327 ATCCGAATATCTG
1 ATCCGAACATCTG
1872340 ATCCGAACATCTG
1 ATCCGAACATCTG
1872353 ATCCGAACAT
1 ATCCGAACAT
1872363 AATATGCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (13 bp):
ATCCGAACATCTG
Found at i:1873782 original size:51 final size:51
Alignment explanation
Indices: 1873713--1873829 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
1873703 TTAGGATTAG
* * * *
1873713 ATTTATTATTTTATTAGGAATTAAGATAGAGTTAAAATATTATCTTTAGTTT
1 ATTT-TTATTTTATTAGGAATTAAGATAGAATCAAAAGATTAACTTTAGTTT
* *
1873765 ATTTTTATTTTATTAGGAATTGAGATATAATCAAAAGATTAACTTTAGTTT
1 ATTTTTATTTTATTAGGAATTAAGATAGAATCAAAAGATTAACTTTAGTTT
*
1873816 ATTATTATTTTATT
1 ATTTTTATTTTATT
1873830 CAGTAGTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (51 bp):
ATTTTTATTTTATTAGGAATTAAGATAGAATCAAAAGATTAACTTTAGTTT
Found at i:1874258 original size:15 final size:15
Alignment explanation
Indices: 1874238--1874272 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1874228 TATATACTTT
* *
1874238 ATCTTCATTTTCTTA
1 ATCTTCATTGTCCTA
1874253 ATCTTCATTGTCCTA
1 ATCTTCATTGTCCTA
1874268 ATCTT
1 ATCTT
1874273 GATCTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (15 bp):
ATCTTCATTGTCCTA
Found at i:1878032 original size:48 final size:50
Alignment explanation
Indices: 1877976--1878086 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 50
1877966 TTTAGGAATA
* * * * * *
1877976 AATTTATTATTCTCTTA-T-GAATTAAGATAGAGTTAAAACATTATCTTT
1 AATTTATTATTATCTTATTAAAATTAAGATAAAATCAAAACATTAACTTT
*
1878024 AATTTATTATTATTTTATTAAAAATTAAGATAAAATCAAAACATTAACTTT
1 AATTTATTATTATCTTATT-AAAATTAAGATAAAATCAAAACATTAACTTT
*
1878075 AGTTTATTATTA
1 AATTTATTATTA
1878087 ATTTATTTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
48 15 0.29
49 1 0.02
51 36 0.69
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (50 bp):
AATTTATTATTATCTTATTAAAATTAAGATAAAATCAAAACATTAACTTT
Found at i:1878052 original size:51 final size:51
Alignment explanation
Indices: 1877995--1878093 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
1877985 TTCTCTTATG
* * * * *
1877995 AATTAAGATAGAGTTAAAACATTATCTTTAATTTATTATTATTTTATTAAA
1 AATTAAGATAAAATCAAAACATTAACTTTAATTTATTATTAATTTATTAAA
*
1878046 AATTAAGATAAAATCAAAACATTAACTTTAGTTTATTATTAATTTATT
1 AATTAAGATAAAATCAAAACATTAACTTTAATTTATTATTAATTTATT
1878094 TAGTAATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (51 bp):
AATTAAGATAAAATCAAAACATTAACTTTAATTTATTATTAATTTATTAAA
Found at i:1884305 original size:135 final size:135
Alignment explanation
Indices: 1883803--1884851 Score: 1253
Period size: 135 Copynumber: 7.7 Consensus size: 135
1883793 ATTCAACTCC
* ** *
1883803 AAATGCGATGAATCGAGCAAAGGTTGAACAAG-TCATTCTCATTATGAACTTTTTCTCCGTCTAT
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTC-TTCTCATTATGAACTTCCTCTCCCTCTAT
* * *
1883867 CAGATGAGTTTTTTTCATTATGAACTCTCCATTGGAAATGTTAATTCCTCAAGTGAGGCGTCGCT
65 CAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCT
1883932 GATTCA
130 GATTCA
* * ** * ** *
1883938 ACTCCATTTACGATGATGAATCGAGCAAAGGTCAAACAATTTCTTCTCATTATGAACTTTTTTTC
1 A----A-ATGCG--G-TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTC
** * * * *
1884003 CCTCTATTGGATGAGTTCCTCTTATTATGAACTCTCCATTGAAAATGTTAATCCCTCAAGTGAGA
58 CCTCTATCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGG
* *
1884068 CATCACTGATTCA
123 CGTCGCTGATTCA
* * * * *
1884081 ACTCCATATGCGATGAATCGAGCAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT
1 A----A-ATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCT
* * * * *
1884146 TTATCGGATGAGTTCTTCTAATTATGAACTCTCCATTGGAAATGTTAATCCCTTAAGTGAGGTGT
61 CTATCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGT
*
1884211 CACTGATTCA
126 CGCTGATTCA
* *
1884221 AAATGCGGTGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATT
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATC
* * *
1884286 GGATGAGTTCTTCTCATTATGAACTCCCCATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
66 AGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
*
1884351 ATTTA
131 ATTCA
* * * * * * *
1884356 AAGTACCGTGAAT-TATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCGTCTAT
1 AAATGCGGTGAATCGA-GCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTAT
* * ** *
1884420 -AGATGAGTTATTCTCATTATAAACTCTTTATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCT
65 CAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCT
1884484 GATTCA
130 GATTCA
* * *
1884490 AAATACGGTGAATCGAG-AGAAGGTTGAATAAGTTCTTTTCATTATGAACTTCCTCTCCCTCTAT
1 AAATGCGGTGAATCGAGCA-AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTAT
* * * * *
1884554 CAGATGAGTTCTTCTCATTATGAACTCTCTATTAGAAATATTAATCCCTTAAGTGAGCCGTCGCT
65 CAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCT
1884619 GATTCA
130 GATTCA
* * * *
1884625 AAATGTGGTGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTGTGAACTTTCTCTCCCTCTATC
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATC
* * * * * *
1884690 AGATGAGTTCTTATCATTATGAACTCTCTATTGGAAATGATAATCCCTTAAGTGAGGTGTCGCTT
66 AGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
1884755 ATTCA
131 ATTCA
* *
1884760 AAATGTC-ATGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCCTCTCCCTCTAT
1 AAATG-CGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTAT
*
1884824 CGGATGAGTTCTTCTCATTATGAACTCT
65 CAGATGAGTTCTTCTCATTATGAACTCT
1884852 TCACTCGATA
Statistics
Matches: 797, Mismatches: 102, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
133 1 0.00
134 114 0.14
135 442 0.55
136 2 0.00
139 1 0.00
140 117 0.15
143 118 0.15
144 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (135 bp):
AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATC
AGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
ATTCA
Found at i:1884525 original size:269 final size:269
Alignment explanation
Indices: 1883811--1884851 Score: 1268
Period size: 269 Copynumber: 3.8 Consensus size: 269
1883801 CCAAATGCGA
* *
1883811 TGAATCGAGCAAAGGTTGAACAAG-TCATTCTCATTATGAACTTTTTCTCCGTCTATCAGATGAG
1 TGAATCGAGCAAAGGTTGAACAAGTTC-TTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
* * *
1883875 TTTTTTTCATTATGAACTCTCCATTGGAAATGTTAATTCCTCAAGTGAGGCGTCGCTGATTCAAC
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAA-
* ** * ** *
1883940 TCCATTTACGATGATGAATCGAGCAAAGGTCAAACAATTTCTTCTCATTATGAACTTTTTTTCCC
129 ---A-ATACG--G-TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCC
* * *
1884005 TCTATTGGATGAGTTCCTCTTATTATGAACTCTCCATT-GAAAATGTTAATCCCTCAAGTGAGAC
187 TCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTAG-AAATGTTAATCCCTCAAGTGAGAC
* * *
1884069 ATCACTGATTCAACTCCATATGCG
251 GTCGCTGATTCAA----ATA-CCG
* * * * *
1884093 ATGAATCGAGCAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTATCGGATGAG
1 -TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
* * * *
1884158 TTCTTCTAATTATGAACTCTCCATTGGAAATGTTAATCCCTTAAGTGAGGTGTCACTGATTCAAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAAA
* * *
1884223 ATGCGGTGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATTGG
130 ATACGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATCGG
* *
1884288 ATGAGTTCTTCTCATTATGAACTCCCCATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGAT
195 ATGAGTTCTTCTCATTATGAACTCTCCATTAGAAATGTTAATCCCTCAAGTGAGACGTCGCTGAT
*
1884353 TTAAAGTACCG
260 TCAAA-TACCG
* * * *
1884364 TGAAT-TATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCGTCTAT-AGATGAG
1 TGAATCGA-GCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAG
* * ** *
1884427 TTATTCTCATTATAAACTCTTTATTGGAAATGTTAATCCCTCAAGTGAGGCATCGCTGATTCAAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAAA
* * *
1884492 ATACGGTGAATCGAG-AGAAGGTTGAATAAGTTCTTTTCATTATGAACTTCCTCTCCCTCTATCA
130 ATACGGTGAATCGAGCA-AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATCG
* * * *
1884556 GATGAGTTCTTCTCATTATGAACTCTCTATTAGAAATATTAATCCCTTAAGTGAGCCGTCGCTGA
194 GATGAGTTCTTCTCATTATGAACTCTCCATTAGAAATGTTAATCCCTCAAGTGAGACGTCGCTGA
***
1884621 TTCAAAATGTGG
259 TTC-AAATACCG
* *
1884633 TGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTGTGAACTT-TCTCTCCCTCTATCAGATGAG
1 TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT-TCTCCCTCTATCAGATGAG
* * * * * *
1884697 TTCTTATCATTATGAACTCTCTATTGGAAATGATAATCCCTTAAGTGAGGTGTCGCTTATTCAAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAAA
* * *
1884762 ATGTC-ATGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCCTCTCCCTCTATCG
130 AT-ACGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATCG
1884826 GATGAGTTCTTCTCATTATGAACTCT
194 GATGAGTTCTTCTCATTATGAACTCT
1884852 TCACTCGATA
Statistics
Matches: 666, Mismatches: 81, Indels: 35
0.85 0.10 0.04
Matches are distributed among these distances:
269 231 0.35
270 197 0.30
271 5 0.01
272 2 0.00
275 112 0.17
276 2 0.00
278 3 0.00
279 1 0.00
283 111 0.17
284 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (269 bp):
TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
TCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCAAAA
TACGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATCGGA
TGAGTTCTTCTCATTATGAACTCTCCATTAGAAATGTTAATCCCTCAAGTGAGACGTCGCTGATT
CAAATACCG
Found at i:1884650 original size:404 final size:406
Alignment explanation
Indices: 1883803--1884854 Score: 1324
Period size: 404 Copynumber: 2.6 Consensus size: 406
1883793 ATTCAACTCC
* * *
1883803 AAATGCGATGAATCGAGCAAAGGTTGAACAAG-TCATTCTCATTATGAACTTTTTCTCCGTCTAT
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTC-TTCTCATTATGAACTTTCTCTCCCTCTAT
* * *
1883867 CAGATGAGTTTTTTTCATTATGAACTCTCCATTGGAAATGTTAATTCCTCAAGTGAGGCGTCGCT
65 CAGATGAGTTCTTATCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCT
* * ** *
1883932 GATTCAACTCCATTTACGATGATGAATCGAGCAAAGGTCAAACAATTTCTTCTCATTATGAACTT
130 GATTCAA----A-ATAC--CG-TGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* * * * *
1883997 -TTTTTCCCTCTATTGGATGAGTTCCTCTTATTATGAACTCTCCATTGAAAATGTTAATCCCTCA
187 CATCTT-CCTCTA-TGGATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTTAATCCCTCA
*
1884061 AGTGAGACATCACTGATTCAACTCCATATGCGATGAATCGAGCAAAGGTCGAACAAATTCTTCTC
250 AGTGAGACATCACTGATTCAA---CATATACGATGAATCGAGCAAAGGTCGAACAAATTCTTCTC
* * * * * *
1884126 ATTATGAACTTCTTCTTCCTTTATCGGATGAGTTCTTCTAATTATGAACTCTCCATTGGAAATGT
312 ATTATGAACTTCCTCTCCCTCTATCAGATGAGTTCTTCTAATTATGAACTCTCCATTAGAAATAT
**
1884191 TAATCCCTTAAGTGAGGTGTCACTGATTCA
377 TAATCCCTTAAGTGAGCCGTCACTGATTCA
* * *
1884221 AAATGCGGTGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTATT
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTCCCTCTATC
* * * *
1884286 GGATGAGTTCTTCTCATTATGAACTCCCCATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
66 AGATGAGTTCTTATCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
* * * *
1884351 ATTTAAAGTACCGTGAAT-TATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCG
131 ATTCAAAATACCGTGAATCGA-GCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCC
* * * * * *
1884415 TCTATAGATGAGTTATTCTCATTATAAACTCTTTATTGGAAATGTTAATCCCTCAAGTGAGGCAT
195 TCTATGGATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTTAATCCCTCAAGTGAGACAT
* * * * * *
1884480 CGCTGATTCAA-A-ATACGGTGAATCGAG-AGAAGGTTGAATAAGTTCTTTTCATTATGAACTTC
260 CACTGATTCAACATATACGATGAATCGAGCA-AAGGTCGAACAAATTCTTCTCATTATGAACTTC
* *
1884542 CTCTCCCTCTATCAGATGAGTTCTTCTCATTATGAACTCTCTATTAGAAATATTAATCCCTTAAG
324 CTCTCCCTCTATCAGATGAGTTCTTCTAATTATGAACTCTCCATTAGAAATATTAATCCCTTAAG
*
1884607 TGAGCCGTCGCTGATTCA
389 TGAGCCGTCACTGATTCA
* * *
1884625 AAATGTGGTGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTGTGAACTTTCTCTCCCTCTATC
1 AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTCCCTCTATC
* * * * *
1884690 AGATGAGTTCTTATCATTATGAACTCTCTATTGGAAATGATAATCCCTTAAGTGAGGTGTCGCTT
66 AGATGAGTTCTTATCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
** * * * *
1884755 ATTCAAAATGTCATGAATCGAGCAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCCTCTCCCT
131 ATTCAAAATACCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCCT
1884820 CTATCGGATGAGTTCTTCTCATTATGAACTCTTCA
196 CTAT-GGATGAGTTCTTCTCATTATGAACTCTTCA
1884855 CTCGATATGT
Statistics
Matches: 550, Mismatches: 78, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
403 1 0.00
404 286 0.52
405 28 0.05
409 63 0.11
410 42 0.08
411 4 0.01
413 3 0.01
414 1 0.00
418 120 0.22
419 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (406 bp):
AAATGCGGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTCCCTCTATC
AGATGAGTTCTTATCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGCTG
ATTCAAAATACCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCATCTTCCT
CTATGGATGAGTTCTTCTCATTATGAACTCTTCATTGAAAATGTTAATCCCTCAAGTGAGACATC
ACTGATTCAACATATACGATGAATCGAGCAAAGGTCGAACAAATTCTTCTCATTATGAACTTCCT
CTCCCTCTATCAGATGAGTTCTTCTAATTATGAACTCTCCATTAGAAATATTAATCCCTTAAGTG
AGCCGTCACTGATTCA
Found at i:1892943 original size:641 final size:639
Alignment explanation
Indices: 1891550--1893103 Score: 1569
Period size: 641 Copynumber: 2.4 Consensus size: 639
1891540 ATCAAGGCAG
* * * * * *
1891550 TGATCCACTCTAAGTTACCCTCACGGGTAAGATGAAGTT-GTTTCAAGGTGTGAATGG-TCTCAC
1 TGATGCACTCTAAGTTACCCTCAAGGGTAACATAAAGTTAGTTT-AAGGTGCGAA-GGCTCTCGC
* * * * * * * * * *
1891613 GGAGCCACTGGTCAGCAGCCACAGGATCTTTATCACTATAACCCA-AAAGGTCGGTGGTCTTGTA
64 GGAGCCACTGGTCAACAACCATAGAATCGTCATCACCAGAACCCAGAAA-GTCAGTGGTCTTATA
* * * * * * * * * * * * **
1891677 GTGGCGGAGTCCCTCGGA-AAG-GGATTCTT-CTGAGGCTATCGAGGGTAGAGTAGATTGTGTAG
128 TTAGCGGAGTCTCTC-GACAGGTGGACTCTTGC-GAGGCTACCGAGAGTGGAGCAAATGGGGCGG
* * * *
1891739 GAGTAGTGGGTACTATAGGGATAGCCCTAACTATATGCCTCAATGCCTGTTTGAGGTTTCAAAAG
191 GTGTAGTGGGTACTCTAGGGATAGCCCTAACTATATGCCTCAATGCCTGTGTGAGGTCTCAAAAG
* * * *
1891804 AAAGTCTCTTCGTCTATCCCTACTTAGGACTCACTCAATGGCCTTGGTTTAATAGGTTAGATCTG
256 AAAGTCTCTTCGTCTATCCCTACTAAGGACTCACTCAAAGGCCTTGATCTAATAGGTTAGATCTG
* * * * * * * *
1891869 TGAATACTTTGTTGGATCGTCAACTAGAGAGTTAGAATGTCGATATGGAGGCCTTTATTAAACCT
321 CGAATACTTGGGTGGATCGTCAACTAGAGAGTCAGAATATCGATATGCAGGCCCTCATTAAACCT
* * * * * *
1891934 CCTATAGTGGTGCTTCTCCGTCGAAACTAGCTCCGATGCATAGAAGCTTAAACATAAGAACTCAA
386 CCTATAGTAGTGCTCCTCCATCGAAACTAGCTCCAATACATAGAAGCTCAAACATAAGAACTCAA
* * ** *
1891999 TCTCATACTCATAAACGGAGTGGTCACCCTGAGTTAAATAAAAAAATTGGTCTATTAGATCATCG
451 TCTCATACTCATAAACGGAGCGGTCACCCTGAGTCAAATAAAAAAATCAGTCTATTAGATCACCG
* * *
1892064 GTATGGACTCGCCGATGTACTTCGCACAAAACTCTGACAAAAAAGACCCTAAATTGGTCGTTCAA
516 GTATGGACTCGACGATGTACTTC-CACAAAACTCTAACAAAAAAGACCCTAAATTGGTCATTCAA
* * ** * *
1892129 GCTCCAACACCAACTCGATGGTTTTCCACCAGTCTATTGCATCATCCTTCAGTAAGGCAG
580 GCTCCAACACCAACTCCATGGTTTCCCACCAGTCTATCACATCATCCTTCAGTAAGGAAA
* * * *
1892189 TGATGCACTCTAAGTTACCCTCAGGGGTAACATGAAGTTATTTTAAGGTGCGAAGGCTCTCGTGG
1 TGATGCACTCTAAGTTACCCTCAAGGGTAACATAAAGTTAGTTTAAGGTGCGAAGGCTCTCGCGG
* *
1892254 ATCCACTGGTCAACAATCATAGAATCGTCATCACCAGAACCCAGAAAGTCAGTGGTCTTATATTA
66 AGCCACTGGTCAACAACCATAGAATCGTCATCACCAGAACCCAGAAAGTCAGTGGTCTTATATTA
* *
1892319 GCGGAGTCTCTCGACAGG-GGACTCTTGCGAGGCTACC-AGGGGTGGAGCAAATGGGGTGGGTGT
131 GCGGAGTCTCTCGACAGGTGGACTCTTGCGAGGCTACCGA-GAGTGGAGCAAATGGGGCGGGTGT
* * * * * *
1892382 AGCGGGTACTCTAGGGATAACCCTAACTACAAGTCTCAATGCCTGTGTGAGGTCTCGAAAGAAAG
195 AGTGGGTACTCTAGGGATAGCCCTAACTATATGCCTCAATGCCTGTGTGAGGTCTCAAAAGAAAG
* * * * *
1892447 TCTCTTTGTCTATCCCTACTAAGGATTCACTCAAAGGCCTTGATCTGATGGGTTAGCTCTGCGAA
260 TCTCTTCGTCTATCCCTACTAAGGACTCACTCAAAGGCCTTGATCTAATAGGTTAGATCTGCGAA
* * * * * *
1892512 TACTCTGGGTGGATTGGT-AACTAGGTGAGTCAGAATATTGATATGCAGTCCCTCCTTGAA-CTG
325 TACT-TGGGTGGA-TCGTCAACTA-GAGAGTCAGAATATCGATATGCAGGCCCTCATTAAACCT-
* * ** * *
1892575 TCT-TCAGTAGTGCTCCTCCATCGACACTAGCTCCAATACATAGCGGCTCAAGCATAAGAACTCC
386 CCTAT-AGTAGTGCTCCTCCATCGAAACTAGCTCCAATACATAGAAGCTCAAACATAAGAACTCA
* ** * * * * **
1892639 ATCGT-ATACTCATAAATGGAGCGGTCACCCTGAGTCAAATGCAGAAATCAGTTTTTTAGGTTGC
450 ATC-TCATACTCATAAACGGAGCGGTCACCCTGAGTCAAATAAAAAAATCAGTCTATTAGATCAC
* * * * * * *
1892703 CTGTATAGGTCTCTACGATGTACTT-CATTAGAAACT-TCAACAAAAAA-TCTCCTGAATTGGTT
514 CGGTAT-GGACTCGACGATGTACTTCCA-CA-AAACTCT-AACAAAAAAGAC-CCTAAATTGGTC
* * * *
1892765 ATTGAAGCTCCAACGCCAACTCCATGG-TTCCCACCGGTCTATCACATCA-CCATTTAGTAAGGA
574 ATTCAAGCTCCAACACCAACTCCATGGTTTCCCACCAGTCTATCACATCATCC-TTCAGTAAGGA
1892828 AA
638 AA
* * * * * * *
1892830 TGATGCACTCTAAGTTACCCTCAAGGGTAAGATAAAGTTGGTTTAATGTGTGAAGGGTTTTGCGG
1 TGATGCACTCTAAGTTACCCTCAAGGGTAACATAAAGTTAGTTTAAGGTGCGAAGGCTCTCGCGG
* * * *
1892895 AGCCACTGGTTAGA-AACCATATAATCGTCATCACCAGAGCCCAGAAAGTCAGTGGTCTTGTATT
66 AGCCACTGGTCA-ACAACCATAGAATCGTCATCACCAGAACCCAGAAAGTCAGTGGTCTTATATT
* * *
1892959 AGCGGAGTCTCTCGATAGGTGGACTCTTGTGAGGCTACCGAGAGTGGAGCAGATGGGGCGGGTGT
130 AGCGGAGTCTCTCGACAGGTGGACTCTTGCGAGGCTACCGAGAGTGGAGCAAATGGGGCGGGTGT
* * * * *
1893024 AGTGGGTAGTCTAGGGATAGCCCTAACTATATGCCTCAACGCCAGCGTGAGGTCTCAAAAGAAAA
195 AGTGGGTACTCTAGGGATAGCCCTAACTATATGCCTCAATGCCTGTGTGAGGTCTCAAAAGAAAG
*
1893089 TATCTTCGTCTATCC
260 TCTCTTCGTCTATCC
1893104 TTGCCTCCTC
Statistics
Matches: 749, Mismatches: 145, Indels: 39
0.80 0.16 0.04
Matches are distributed among these distances:
638 5 0.01
639 258 0.34
640 25 0.03
641 291 0.39
642 169 0.23
643 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (639 bp):
TGATGCACTCTAAGTTACCCTCAAGGGTAACATAAAGTTAGTTTAAGGTGCGAAGGCTCTCGCGG
AGCCACTGGTCAACAACCATAGAATCGTCATCACCAGAACCCAGAAAGTCAGTGGTCTTATATTA
GCGGAGTCTCTCGACAGGTGGACTCTTGCGAGGCTACCGAGAGTGGAGCAAATGGGGCGGGTGTA
GTGGGTACTCTAGGGATAGCCCTAACTATATGCCTCAATGCCTGTGTGAGGTCTCAAAAGAAAGT
CTCTTCGTCTATCCCTACTAAGGACTCACTCAAAGGCCTTGATCTAATAGGTTAGATCTGCGAAT
ACTTGGGTGGATCGTCAACTAGAGAGTCAGAATATCGATATGCAGGCCCTCATTAAACCTCCTAT
AGTAGTGCTCCTCCATCGAAACTAGCTCCAATACATAGAAGCTCAAACATAAGAACTCAATCTCA
TACTCATAAACGGAGCGGTCACCCTGAGTCAAATAAAAAAATCAGTCTATTAGATCACCGGTATG
GACTCGACGATGTACTTCCACAAAACTCTAACAAAAAAGACCCTAAATTGGTCATTCAAGCTCCA
ACACCAACTCCATGGTTTCCCACCAGTCTATCACATCATCCTTCAGTAAGGAAA
Found at i:1894529 original size:22 final size:23
Alignment explanation
Indices: 1894486--1894532 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
1894476 AGTATCGATG
* *
1894486 CCTTCTTAAGGGTATTGGTACTCC
1 CCTTCTT-AGGGTATCGATACTCC
1894510 CCTTCTT-GGGTATCGATACTCC
1 CCTTCTTAGGGTATCGATACTCC
1894532 C
1 C
1894533 TTGAGTACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
24 7 0.33
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (23 bp):
CCTTCTTAGGGTATCGATACTCC
Found at i:1896236 original size:12 final size:12
Alignment explanation
Indices: 1896219--1896243 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1896209 CAACAGAAAA
1896219 AGCAGGTTATGC
1 AGCAGGTTATGC
1896231 AGCAGGTTATGC
1 AGCAGGTTATGC
1896243 A
1 A
1896244 ATTCCTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
AGCAGGTTATGC
Found at i:1915345 original size:20 final size:20
Alignment explanation
Indices: 1915303--1915345 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1915293 AACTTCAAGT
* *
1915303 AAAGTTTTGAAACTCTTGTG
1 AAAGTTTCGAAACTCTTGAG
*
1915323 AAAGTTTCGAAACTTTTGAG
1 AAAGTTTCGAAACTCTTGAG
1915343 AAA
1 AAA
1915346 CTTCAAAAAT
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:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
AAAGTTTCGAAACTCTTGAG
Done.