Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 6 of 318
Found at i:1613966 original size:60 final size:59
Alignment explanation
Indices: 1613843--1613977 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
1613833 GTGTTAACTA
* *
1613843 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
1613904 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
1613964 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
1613978 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:1613995 original size:20 final size:20
Alignment explanation
Indices: 1613970--1614015 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1613960 ATTGGGCCTT
1613970 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
1613990 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
1614009 GCCCATA
1 GCCCATA
1614016 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:1617102 original size:14 final size:15
Alignment explanation
Indices: 1617083--1617138 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
1617073 AATCTTCAAT
1617083 GATATG-CAATCTTA
1 GATATGACAATCTTA
1617097 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
1617114 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
1617132 GATATGA
1 GATATGA
1617139 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:1617109 original size:17 final size:17
Alignment explanation
Indices: 1617089--1617152 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
1617079 CAATGATATG
1617089 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
1617106 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
1617124 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
1617143 CAATCTTAGA
1 CAATCTTAGA
1617153 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:1617127 original size:35 final size:37
Alignment explanation
Indices: 1617081--1617159 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
1617071 ATAATCTTCA
1617081 ATGATATGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
1617117 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
1617153 A-GATATG
1 ATGATATG
1617160 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 19 0.47
36 8 0.20
37 13 0.32
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:1617820 original size:17 final size:18
Alignment explanation
Indices: 1617795--1617852 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 18
1617785 ATCTTGTATA
1617795 TAAACATTAA-ATTAAAT
1 TAAACATTAATATTAAAT
* *
1617812 TAAATATTAATATTAATT
1 TAAACATTAATATTAAAT
*
1617830 TAATCACTTTAATATTAAAT
1 TAA--ACATTAATATTAAAT
1617850 TAA
1 TAA
1617853 TAAAATACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 9 0.27
18 9 0.27
20 15 0.45
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAACATTAATATTAAAT
Found at i:1617891 original size:37 final size:36
Alignment explanation
Indices: 1617844--1617913 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
1617834 CACTTTAATA
*
1617844 TTAAATTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
1617881 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
1617914 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:1621618 original size:24 final size:23
Alignment explanation
Indices: 1621587--1621632 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
1621577 AATTTTGGGC
*
1621587 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
1621610 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
1621633 ACCCAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:1622480 original size:25 final size:26
Alignment explanation
Indices: 1622446--1622552 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
1622436 TGATACAAAT
1622446 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1622471 TGATAATAGGTTAGGTAAATG-TCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
1622496 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1622522 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
1622547 TGATAA
1 TGATAA
1622553 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 68 0.87
26 10 0.13
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1624571 original size:135 final size:136
Alignment explanation
Indices: 1624325--1624596 Score: 510
Period size: 135 Copynumber: 2.0 Consensus size: 136
1624315 GAGTAGTCTC
1624325 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
1624390 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAA-GGCTTTGGCCCAGTTCCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
1624454 CTGTTA
131 CTGTTA
1624460 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1624525 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
1624590 CTGTTA
131 CTGTTA
1624596 C
1 C
1624597 TGAATGGGCT
Statistics
Matches: 133, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
135 110 0.83
136 23 0.17
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:1625960 original size:3 final size:3
Alignment explanation
Indices: 1625952--1626200 Score: 98
Period size: 3 Copynumber: 80.7 Consensus size: 3
1625942 GAATTAAATA
*
1625952 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TGA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * * *
1625997 TGT TAT CT-T TAT TAC TAT TAC TAT TGT TAT TAC TACT TCCAT TAT TTT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T--AT TAT TAT
* * *
1626045 TAT T-T CTAAC TAT TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT CAT
1 TAT TAT -T-AT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT
** * * * *
1626090 CGT TAT TAT TAC TAT TAT TAAA TAT CT-T TAT TAT TAC TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * *
1626136 TGT TCCT T-T TAT TAT TGTT TAT CAT CAT TA- TAT TAT TAT TAT TAC
1 TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** *
1626181 TCC TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TA
1626201 CTTCTTTTTT
Statistics
Matches: 184, Mismatches: 42, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
2 8 0.04
3 156 0.85
4 17 0.09
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1626319 original size:18 final size:17
Alignment explanation
Indices: 1626297--1626347 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1626287 ATTACCCACT
1626297 TATTATAATTACTATTG
1 TATTATAATTACTATTG
* *
1626314 TCATTAT-TTTACAATTG
1 T-ATTATAATTACTATTG
*
1626331 TATTTTAATGTACTATT
1 TATTATAAT-TACTATT
1626348 AATATTACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (17 bp):
TATTATAATTACTATTG
Found at i:1626629 original size:13 final size:13
Alignment explanation
Indices: 1626611--1626637 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1626601 TGAAAATTTT
1626611 TTATTTTGTTTCA
1 TTATTTTGTTTCA
1626624 TTATTTTGTTTCA
1 TTATTTTGTTTCA
1626637 T
1 T
1626638 ATAATACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATTTTGTTTCA
Found at i:1628986 original size:27 final size:25
Alignment explanation
Indices: 1628922--1628996 Score: 60
Period size: 28 Copynumber: 2.8 Consensus size: 25
1628912 CATACATATA
*
1628922 ATATGGTTATTAAGAAAATATATACAAT
1 ATATGG-TATTAAG--AATATACACAAT
**
1628950 ATATAATATTAAGAATATACACAAT
1 ATATGGTATTAAGAATATACACAAT
*
1628975 ACATATGGTATTTAAAAATATA
1 --ATATGGTA-TTAAGAATATA
1628997 GTATTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 11 0.29
27 13 0.34
28 14 0.37
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
ATATGGTATTAAGAATATACACAAT
Found at i:1631638 original size:34 final size:34
Alignment explanation
Indices: 1631587--1631653 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
1631577 CATTTTTTAC
* *
1631587 ATTGTACTGAGATGGGCTAAGGCCCAA-ACTGTT
1 ATTGTACTGAAAAGGGCTAAGGCCCAAGACTGTT
*
1631620 ATTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 ATTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
1631654 CAACTGTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.14
34 20 0.69
35 5 0.17
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (34 bp):
ATTGTACTGAAAAGGGCTAAGGCCCAAGACTGTT
Found at i:1633257 original size:2 final size:2
Alignment explanation
Indices: 1633250--1633274 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1633240 CGTATACGTA
1633250 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
1633275 ATAAAAAAAC
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:1633725 original size:15 final size:16
Alignment explanation
Indices: 1633707--1633739 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1633697 AATAAATACA
1633707 AACAATAATAATA-AT
1 AACAATAATAATAGAT
1633722 AACAATAATAATAGAT
1 AACAATAATAATAGAT
1633738 AA
1 AA
1633740 ATAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (16 bp):
AACAATAATAATAGAT
Found at i:1635346 original size:33 final size:33
Alignment explanation
Indices: 1635309--1635375 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1635299 CTTGTGCTTG
1635309 AATTTCAGTCCCTACACTACAAAAAAATAATAT
1 AATTTCAGTCCCTACACTACAAAAAAATAATAT
* *
1635342 AATTTTAGTCCCTACACTACAAAAAAATTATAT
1 AATTTCAGTCCCTACACTACAAAAAAATAATAT
1635375 A
1 A
1635376 TATATAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (33 bp):
AATTTCAGTCCCTACACTACAAAAAAATAATAT
Found at i:1635593 original size:19 final size:20
Alignment explanation
Indices: 1635562--1635607 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
1635552 ATCAAAGGAC
1635562 AAATTAATCATTT-TTGTTA
1 AAATTAATCATTTATTGTTA
1635581 AAATT-ATCTATTTGAATTGTTA
1 AAATTAATC-ATTT--ATTGTTA
1635603 AAATT
1 AAATT
1635608 TATCGTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 9 0.39
22 11 0.48
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (20 bp):
AAATTAATCATTTATTGTTA
Found at i:1638199 original size:14 final size:14
Alignment explanation
Indices: 1638180--1638221 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1638170 TAAATGTGAG
1638180 TATATATATATTTT
1 TATATATATATTTT
1638194 TATATATATATATTT
1 TATATATATAT-TTT
*
1638209 TAAATATTATATT
1 TATATA-TATATT
1638222 CGAATATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:1638201 original size:16 final size:16
Alignment explanation
Indices: 1638180--1638221 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
1638170 TAAATGTGAG
1638180 TATATATATATTTTTA
1 TATATATATATTTTTA
1638196 TATATATATA-TTTTA
1 TATATATATATTTTTA
*
1638211 AATAT-TATATT
1 TATATATATATT
1638222 CGAATATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATATATTTTTA
Found at i:1643198 original size:16 final size:16
Alignment explanation
Indices: 1643179--1643231 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
1643169 AGCAAAAAAA
1643179 GAAAAAATCAAATATT
1 GAAAAAATCAAATATT
****
1643195 GAAAAAGGGGAAT-TT
1 GAAAAAATCAAATATT
*
1643210 TAAAAAATCAAATATT
1 GAAAAAATCAAATATT
1643226 GAAAAA
1 GAAAAA
1643232 GGGGAATTTT
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.23
Consensus pattern (16 bp):
GAAAAAATCAAATATT
Found at i:1643218 original size:31 final size:31
Alignment explanation
Indices: 1643180--1643242 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1643170 GCAAAAAAAG
1643180 AAAAAATCAAATATTGAAAAAGGGGAATTTT
1 AAAAAATCAAATATTGAAAAAGGGGAATTTT
1643211 AAAAAATCAAATATTGAAAAAGGGGAATTTT
1 AAAAAATCAAATATTGAAAAAGGGGAATTTT
1643242 A
1 A
1643243 CCACTGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.03, G:0.16, T:0.25
Consensus pattern (31 bp):
AAAAAATCAAATATTGAAAAAGGGGAATTTT
Found at i:1644720 original size:10 final size:10
Alignment explanation
Indices: 1644701--1644742 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1644691 CATAAAATAT
1644701 AAATATATTTA
1 AAATA-ATTTA
1644712 AAATAATTTA
1 AAATAATTTA
*
1644722 AAATAATATA
1 AAATAATTTA
*
1644732 AAATAAGTTA
1 AAATAATTTA
1644742 A
1 A
1644743 TGTTTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 23 0.82
11 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATAATTTA
Found at i:1649716 original size:7 final size:7
Alignment explanation
Indices: 1649704--1649733 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
1649694 AAAAGGAAAT
1649704 AGGGGAG
1 AGGGGAG
1649711 AGGGGAG
1 AGGGGAG
1649718 AGGGGAG
1 AGGGGAG
1649725 AGGGGAG
1 AGGGGAG
1649732 AG
1 AG
1649734 TTTAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (7 bp):
AGGGGAG
Found at i:1655851 original size:2 final size:2
Alignment explanation
Indices: 1655844--1655872 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1655834 AGCCCGAGTA
1655844 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1655873 GTACTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1657957 original size:14 final size:14
Alignment explanation
Indices: 1657938--1657967 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1657928 AAAAAGAAAT
1657938 AGGGGAGAGGGCAG
1 AGGGGAGAGGGCAG
1657952 AGGGGAGAGGGCAG
1 AGGGGAGAGGGCAG
1657966 AG
1 AG
1657968 TTTGGAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.63, T:0.00
Consensus pattern (14 bp):
AGGGGAGAGGGCAG
Found at i:1682632 original size:21 final size:21
Alignment explanation
Indices: 1682607--1682659 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1682597 CGTTGTTTCT
*
1682607 AATCTCACCGCTACACTATCC
1 AATCTCACCGCTACACTAACC
* *
1682628 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACACTAACC
1682649 AATCTCACCGC
1 AATCTCACCGC
1682660 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.40, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACACTAACC
Found at i:1686566 original size:25 final size:25
Alignment explanation
Indices: 1686538--1686593 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1686528 GTACGTCAGA
1686538 TAAAAAAATAAATTAGTTCTTT-TAT
1 TAAAAAAATAAATTA-TTCTTTCTAT
* * *
1686563 TAAAAAAATTATTTATTTTTTCTAT
1 TAAAAAAATAAATTATTCTTTCTAT
1686588 TAAAAA
1 TAAAAA
1686594 CTAGTCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
TAAAAAAATAAATTATTCTTTCTAT
Found at i:1687722 original size:3 final size:3
Alignment explanation
Indices: 1687714--1687759 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1687704 TGTATTTCAA
1687714 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1687760 GTACTTTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1687917 original size:124 final size:126
Alignment explanation
Indices: 1687735--1687966 Score: 303
Period size: 124 Copynumber: 1.9 Consensus size: 126
1687725 TTATTATTAT
* * * * * * *
1687735 TATTATTATTATTATTATTATTATTGTACTTTAGTGTATATCTTCATGTATGTATATATATATGT
1 TATTATTATTATTATTATTATCATTGAACGTTACTATATATCTTCATGTATGTATATATACATAT
* *
1687800 AGTAATGTTTTT-ATTACTTTATTTTAATAT-TTTTTATTATAATAGCTTTTGTATTTCAA
66 AGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGCTTTTGTATTTCAA
1687859 TATTATTATTATTATTATTATCATT-AACGTTACTATATATTCTT-AT-TAGATGTATATATACA
1 TATTATTATTATTATTATTATCATTGAACGTTACTATATA-TCTTCATGT--ATGTATATATACA
* *
1687921 TATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
63 TATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
1687967 TTTACTTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
122 1 0.01
123 12 0.13
124 52 0.57
125 17 0.18
126 10 0.11
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (126 bp):
TATTATTATTATTATTATTATCATTGAACGTTACTATATATCTTCATGTATGTATATATACATAT
AGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGCTTTTGTATTTCAA
Found at i:1688279 original size:11 final size:11
Alignment explanation
Indices: 1688263--1688289 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1688253 GTACGTATTG
1688263 TATATGTTCTA
1 TATATGTTCTA
1688274 TATATGTTCTA
1 TATATGTTCTA
1688285 TATAT
1 TATAT
1688290 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:1693905 original size:27 final size:27
Alignment explanation
Indices: 1693874--1693927 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1693864 GAGAAAGAGA
1693874 ATGTCCTCATTGCAAAAGCTAAAGGAT
1 ATGTCCTCATTGCAAAAGCTAAAGGAT
1693901 ATGTCCTCATTGCAAAAGCTAAAGGAT
1 ATGTCCTCATTGCAAAAGCTAAAGGAT
1693928 TTATAAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
ATGTCCTCATTGCAAAAGCTAAAGGAT
Found at i:1697676 original size:25 final size:25
Alignment explanation
Indices: 1697642--1697691 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1697632 AACAATGGAG
1697642 CATATTTTGCAATGTTAATTGTTAT
1 CATATTTTGCAATGTTAATTGTTAT
1697667 CATATTTTGCAATGTTAATTGTTAT
1 CATATTTTGCAATGTTAATTGTTAT
1697692 TATCCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (25 bp):
CATATTTTGCAATGTTAATTGTTAT
Found at i:1697700 original size:25 final size:25
Alignment explanation
Indices: 1697642--1697700 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
1697632 AACAATGGAG
*
1697642 CATATTTTGCAATGTTAATTGTTAT
1 CATACTTTGCAATGTTAATTGTTAT
*
1697667 CATATTTTGCAATGTTAATTGTTAT
1 CATACTTTGCAATGTTAATTGTTAT
* *
1697692 TATCCTTTG
1 CATACTTTG
1697701 TCATTCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (25 bp):
CATACTTTGCAATGTTAATTGTTAT
Found at i:1700242 original size:11 final size:11
Alignment explanation
Indices: 1700198--1700246 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
1700188 CTAAAGGTGA
1700198 TTTTATCTTT-T
1 TTTTAT-TTTAT
*
1700209 TTATTATTTTAC
1 TT-TTATTTTAT
*
1700221 TCTTATTTTAT
1 TTTTATTTTAT
1700232 TTTTATTTTAT
1 TTTTATTTTAT
1700243 TTTT
1 TTTT
1700247 TCCCCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1700327 original size:15 final size:14
Alignment explanation
Indices: 1700296--1700339 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1700286 TAATAAAAGA
*
1700296 ATATAATAAAAATAT
1 ATATAA-AAAAAAAT
1700311 ATATAAAAAACAAAT
1 ATATAAAAAA-AAAT
*
1700326 ATTTAAAAAAAAAT
1 ATATAAAAAAAAAT
1700340 TACCTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATAAAAAAAAAT
Found at i:1702159 original size:10 final size:11
Alignment explanation
Indices: 1702146--1702171 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1702136 TCAAAATTTC
1702146 AAAAAAATTAA
1 AAAAAAATTAA
1702157 AAAAAAATTAA
1 AAAAAAATTAA
1702168 AAAA
1 AAAA
1702172 TAAAAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:1702209 original size:30 final size:29
Alignment explanation
Indices: 1702175--1702303 Score: 100
Period size: 30 Copynumber: 4.4 Consensus size: 29
1702165 TAAAAAATAA
1702175 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTGCATTTTGACCCCTAAAC-TTTCCT
* * * *
1702205 AAATTTCATTTTAACCCTTAAACTTTCTTT
1 AAATTGCATTTTGACCCCTAAACTTTC-CT
* * * * *
1702235 AAATTTCACTTAGACCCCTAAACCTCCCT
1 AAATTGCATTTTGACCCCTAAACTTTCCT
* * *
1702264 TAATTGCATTTT-AACCCTAAA-TTTTCT
1 AAATTGCATTTTGACCCCTAAACTTTCCT
1702291 AAAAATTGCATTT
1 --AAATTGCATTT
1702304 AGCCCTAGAA
Statistics
Matches: 76, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
27 3 0.04
28 8 0.11
29 23 0.30
30 42 0.55
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (29 bp):
AAATTGCATTTTGACCCCTAAACTTTCCT
Found at i:1703002 original size:31 final size:34
Alignment explanation
Indices: 1702934--1703006 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
1702924 GGGTGATATG
* *
1702934 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
1702970 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
1703004 TTA
1 TTA
1703007 TTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:1703004 original size:3 final size:3
Alignment explanation
Indices: 1702996--1703023 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1702986 GGTTGGTTTG
1702996 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1703024 TTAAATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1703601 original size:5 final size:5
Alignment explanation
Indices: 1703575--1703632 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
1703565 ATGTGTTAAA
* *
1703575 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
1703624 ATATT ATAT
1 ATATT ATAT
1703633 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:1703611 original size:10 final size:9
Alignment explanation
Indices: 1703576--1703633 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
1703566 TGTGTTAAAA
1703576 TATATATAT
1 TATATATAT
*
1703585 TAAAT-TAT
1 TATATATAT
1703593 TAT-TATAT
1 TATATATAT
1703601 TATAGTATAT
1 TATA-TATAT
1703611 TATAT-TA-
1 TATATATAT
1703618 TATATTATAT
1 TATA-TATAT
1703628 TATATA
1 TATATA
1703634 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:1703623 original size:12 final size:12
Alignment explanation
Indices: 1703578--1703633 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
1703568 TGTTAAAATA
*
1703578 TATATATTAAAT
1 TATATATTATAT
1703590 TAT-TATTATATT
1 TATATATTATA-T
1703602 ATAGTATATTATAT
1 -TA-TATATTATAT
1703616 TATATATTATAT
1 TATATATTATAT
1703628 TATATA
1 TATATA
1703634 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:1704970 original size:18 final size:19
Alignment explanation
Indices: 1704949--1704987 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1704939 ATATATAGAT
1704949 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
1704967 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
1704986 AT
1 AT
1704988 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:1705337 original size:39 final size:39
Alignment explanation
Indices: 1705227--1705361 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
1705217 GACCTCGAGT
* * * *
1705227 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
1705268 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
1705306 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
1705345 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
1705362 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:1705505 original size:18 final size:19
Alignment explanation
Indices: 1705484--1705524 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1705474 AATGAAATGA
1705484 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
1705502 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
1705521 GAAA
1 GAAA
1705525 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:1708167 original size:1 final size:1
Alignment explanation
Indices: 1708161--1708185 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1708151 GTTTTGATGC
1708161 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
1708186 TGAAGTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1709995 original size:5 final size:5
Alignment explanation
Indices: 1709969--1710026 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
1709959 ATGTGTTAAA
* *
1709969 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
1710018 ATATT ATAT
1 ATATT ATAT
1710027 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:1710005 original size:10 final size:9
Alignment explanation
Indices: 1709970--1710027 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
1709960 TGTGTTAAAA
1709970 TATATATAT
1 TATATATAT
*
1709979 TAAAT-TAT
1 TATATATAT
1709987 TAT-TATAT
1 TATATATAT
1709995 TATAGTATAT
1 TATA-TATAT
1710005 TATAT-TA-
1 TATATATAT
1710012 TATATTATAT
1 TATA-TATAT
1710022 TATATA
1 TATATA
1710028 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:1710017 original size:12 final size:12
Alignment explanation
Indices: 1709972--1710027 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
1709962 TGTTAAAATA
*
1709972 TATATATTAAAT
1 TATATATTATAT
1709984 TAT-TATTATATT
1 TATATATTATA-T
1709996 ATAGTATATTATAT
1 -TA-TATATTATAT
1710010 TATATATTATAT
1 TATATATTATAT
1710022 TATATA
1 TATATA
1710028 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:1711364 original size:18 final size:19
Alignment explanation
Indices: 1711343--1711381 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1711333 ATATATAGAT
1711343 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
1711361 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
1711380 AT
1 AT
1711382 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:1711730 original size:39 final size:39
Alignment explanation
Indices: 1711620--1711754 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
1711610 GACCTCGAGT
* * * *
1711620 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
1711661 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
1711699 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
1711738 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
1711755 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:1711898 original size:18 final size:19
Alignment explanation
Indices: 1711877--1711917 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1711867 AATGAAATGA
1711877 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
1711895 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
1711914 GAAA
1 GAAA
1711918 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:1713079 original size:18 final size:18
Alignment explanation
Indices: 1713058--1713102 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
1713048 AAAATTCAGG
1713058 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
1713076 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
1713093 TTT-AAAAATT
1 TTTCAAAAATT
1713103 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:1716438 original size:1 final size:1
Alignment explanation
Indices: 1716427--1716483 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
1716417 GACAGTCATG
* * * * * * *
1716427 AAAAGAAAAAAACAAAAAAAACAAAAAACAAAAAATAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1716484 GAGAGATCAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:1716446 original size:9 final size:9
Alignment explanation
Indices: 1716432--1716483 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
1716422 TCATGAAAAG
1716432 AAAAAAACA
1 AAAAAAACA
1716441 AAAAAAAC-
1 AAAAAAACA
1716449 -AAAAAAC-
1 AAAAAAACA
*
1716456 -AAAAAA-T
1 AAAAAAACA
1716463 AAAAAAACA
1 AAAAAAACA
1716472 AAAAAAACA
1 AAAAAAACA
1716481 AAA
1 AAA
1716484 GAGAGATCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 13 0.33
8 6 0.15
9 20 0.51
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:1717089 original size:14 final size:15
Alignment explanation
Indices: 1717064--1717102 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
1717054 TCATTCATTC
1717064 AAAAGCAAAAAGAAAG
1 AAAAG-AAAAAGAAAG
1717080 -AAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
1717094 AAAAGAAAA
1 AAAAGAAAA
1717103 TGGAGAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:1718766 original size:71 final size:73
Alignment explanation
Indices: 1718675--1718841 Score: 275
Period size: 71 Copynumber: 2.3 Consensus size: 73
1718665 TATTTTGATG
* * *
1718675 TTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGT
1 TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1718740 TGAGGTAT
66 TGAGGTAT
*
1718748 TTTCAA-TT-TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGT
1 TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1718811 TGAGGTAT
66 TGAGGTAT
*
1718819 TTTCAATTTCTATCTTTCAAAAA
1 TTTCAATTTCTATTTTTCAAAAA
1718842 AACAATCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 65 0.75
72 4 0.05
73 18 0.21
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (73 bp):
TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAT
Found at i:1718913 original size:85 final size:83
Alignment explanation
Indices: 1718762--1718999 Score: 307
Period size: 85 Copynumber: 2.8 Consensus size: 83
1718752 AATTTATTTT
1718762 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC--GTTGAGGTATTTTCAATT
1718827 TCTATCTT-TCAAAAAAACAA
64 TCTAT-TTATCAAAAAAACAA
* *
1718847 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATT
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGTTGAGGTATTTTCAATT
** *** ****
1718912 TCCGTTTATCAATTTATTTT
64 TCTATTTATCAAAAAAACAA
1718932 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGTTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGTTGAGGTATTTTCAATT
1718997 TCT
64 TCT
1719000 GCTTATATTG
Statistics
Matches: 134, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 40 0.30
84 2 0.01
85 50 0.37
87 42 0.31
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (83 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGTTGAGGTATTTTCAATTTC
TATTTATCAAAAAAACAA
Found at i:1719008 original size:58 final size:58
Alignment explanation
Indices: 1718946--1719058 Score: 217
Period size: 58 Copynumber: 1.9 Consensus size: 58
1718936 AAATCAACTC
*
1718946 ATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGTTGAGGTATTTTCAATTTCTGCTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1719004 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1719059 TCTTTCAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (58 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
Found at i:1719083 original size:228 final size:225
Alignment explanation
Indices: 1718773--1720056 Score: 1169
Period size: 228 Copynumber: 5.6 Consensus size: 225
1718763 CAAAAATCAA
* *
1718773 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTCTATCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC-
*
1718838 AAAAAACAATCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTA
65 AAAAAA-AAT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTA
1718903 TTTTCAATTTCCGTTTATCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
128 TTTTCAATTTCCGTTTATCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
1718968 CCTCAAGTCACGTTGAGGTATTTTCAATTTCTG
193 CCTCAAGACACGTTGAGGTATTTTCAATTTCTG
*
1719001 CTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC-
*
1719066 AAAAAAAAATAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTA
65 -AAAAAAAAT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTA
*
1719131 TTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
128 TTTTCAATTTCCGTTTATCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
1719196 CCTCAAGACACGTTGAGGTATTTTCAATTTTTG
193 CCTCAAGACACGTTGAGGTATTTTCAATTTCTG
* * * *
1719229 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTGTCTTTC
* *
1719293 -------A-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
65 AAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTA
***
1719350 TTTTCAATTT-C---TATC--TTTCA---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
128 TTTTCAATTTCCGTTTATCAATTT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* ** * *
1719406 GCCTCAGGACACACTGAGGTAATTTCAATTTTTGTTTG
192 GCCTCAAGACACGTTGAGGTATTTTCAA---TT-TCTG
*
1719444 TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATT
1 -----------CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
* *
1719509 TCTGTCTTTC---------AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGACG
55 TCTGTCTTTCAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACG
* * * * *
1719565 CTGAGGTCTTTTCCATTTCTGTTCT-TCAATTTCTGTTTTTCAAAAAAAATCAATTCATATTGCG
120 CTGAGGTATTTTCAATTTCCGTT-TATCAA-TT-TATTTTTC---AAAAATCAACTCATATTGCG
* * * *
1719629 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTATTTTTCAAAAATCAA
179 AGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC-A---A--TTTC-----T--G
*
1719689 CTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC-
**
1719754 AAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTA
65 AAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTA
* *
1719819 -TTTCTAA------TTTATC-A-TCA------AAAAATCAACTCATATTGCAAGAGGTGAGTTGA
128 TTTTC-AATTTCCGTTTATCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
1719869 GCCTTAAGACACGTTGAGGTATTTTCAATTTCTG
192 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
** * * *
1719903 TTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCA
1 --------------CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
* * * ** *** **
1719968 ATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
52 ATTTCTGTCTTTCAA-AAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
**
1720033 GTCACATTGAGGTATTTTCAATTT
116 G--ACGCTGAGGTATTTTCAATTT
1720057 ATCATAAAAA
Statistics
Matches: 898, Mismatches: 78, Indels: 157
0.79 0.07 0.14
Matches are distributed among these distances:
211 57 0.06
213 3 0.00
214 3 0.00
215 7 0.01
216 1 0.00
217 41 0.05
218 1 0.00
219 21 0.02
221 4 0.00
223 19 0.02
225 47 0.05
226 54 0.06
227 57 0.06
228 378 0.42
229 16 0.02
230 2 0.00
231 1 0.00
234 62 0.07
236 55 0.06
237 2 0.00
238 1 0.00
239 6 0.01
240 5 0.01
243 1 0.00
244 41 0.05
245 4 0.00
246 9 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (225 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCA
AAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTT
TCAATTTCCGTTTATCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACACGTTGAGGTATTTTCAATTTCTG
Found at i:1719216 original size:85 final size:86
Alignment explanation
Indices: 1719004--1719225 Score: 299
Period size: 85 Copynumber: 2.6 Consensus size: 86
1718994 ATTTCTGCTT
*
1719004 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAA
1 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCCGTCTTTC-AAA
*
1719069 AAAAAATAAAAAAAATCAGCTC
65 AAAAAATAAAAAAAATCAACTC
*
1719091 ATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCCGT-TTGTC-AA
1 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCCGTCTT-TCAAA
*** ** ***
1719152 TTTATTTTTCAAAAATCAACTC
65 AAAAAATAAAAAAAATCAACTC
1719174 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1719226 TTGCTCACAT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
83 44 0.37
84 2 0.02
85 45 0.38
87 29 0.24
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (86 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCCGTCTTTCAAAA
AAAAATAAAAAAAATCAACTC
Found at i:1719238 original size:58 final size:58
Alignment explanation
Indices: 1719171--1719283 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 58
1719161 CAAAAATCAA
* *
1719171 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTTTG
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTTTTG
*
1719229 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTT
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTT
1719284 CTGTTTTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 46 0.90
59 5 0.10
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (58 bp):
CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTTTG
Found at i:1719593 original size:73 final size:73
Alignment explanation
Indices: 1719229--1720182 Score: 474
Period size: 73 Copynumber: 12.4 Consensus size: 73
1719219 TCAATTTTTG
* * *
1719229 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACGCTGAGGT-ATTTTCAATTTCTGTTCTTC
1719293 AAAAAAAATCAA
63 -AAAAAAATCAA
* * *
1719305 CTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT-ATCTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCTGTTC-TTC
1719369 AAAAAAAAATCAA
63 --AAAAAAATCAA
* * * *
1719382 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTTTGTT-TGT-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACGCTGAGGTATTTTCAATTTCTGTTCT-TC
1719445 -AAAAAATCAA
63 AAAAAAATCAA
*
1719455 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTCTG-TCTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC--GCTGAGGTATTTTCAATTTCTGTTC-TTC
1719519 AAAAAAATCAA
63 AAAAAAATCAA
* * * *
1719530 CTCATATTGTGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTCTTTTCCATTTCTGTTCTTCAAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCTGTTCTTCAA-
1719595 TTCTGTTTTTCAAAAA--AA
65 -----------AAAAATCAA
* * * * ** * * *** *
1719613 ATCA-ATT-C-ATATTGCGAGAGGTGAG--TTGAG-C-CTCAGGGCACGCTGAGGTATTTTCAAT
1 CTCATATTGCGAGA--G-GTGAGTTGAGCCTCAAGACGCTGA-GGTATTTTCA---A-TTTC---
* *
1719671 TTATTTTTC--AAAAATCAA
55 -TGTTCTTCAAAAAAATCAA
* *
1719689 CTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TCTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCTGTTC-TTC
1719753 AAAAAAAAATAAAAAAATCAA
63 ----------AAAAAAATCAA
** * *
1719774 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTA-TTTCTAA-TT-T-ATCATC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTC-AATTTCTGTTCTTC
1719835 -AAAAAATCAA
63 AAAAAAATCAA
* * *
1719845 CTCATATTGCAAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCTGTT-TT--
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCTGTTCTTCA
**
1719907 TTAAAATCAA
64 AAAAAATCAA
** * * * *
1719917 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC-AAG-ACGCTGAGGTATTTTCAATTTCTGT-TCTTC
1719982 ATTTATTTTTCAAAAATCAA
63 A---A------AAAAATCAA
** * **
1720002 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAA-TT-T-ATCATAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCTGTTC-TTC
1720064 AAAAAAATCAA
63 AAAAAAATCAA
* * * *
1720075 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTTCAATTTTTGTGT-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC----AAGACGCTGAGGT-ATTTTCAATTTCTGT-TC
*
1720139 TTAAAAAAAAATCAA
60 TT-CAAAAAAATCAA
*
1720154 CTCATATTGCGAGAGGTGAGTTCAGCCTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC
1720183 GGGTCATATT
Statistics
Matches: 688, Mismatches: 94, Indels: 189
0.71 0.10 0.19
Matches are distributed among these distances:
71 56 0.08
72 66 0.10
73 129 0.19
74 12 0.02
75 56 0.08
76 67 0.10
77 72 0.10
78 8 0.01
79 47 0.07
80 7 0.01
81 10 0.01
82 11 0.02
83 17 0.02
84 13 0.02
85 111 0.16
88 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCTGTTCTTCAAA
AAAATCAA
Found at i:1719663 original size:313 final size:315
Alignment explanation
Indices: 1719279--1721254 Score: 1134
Period size: 313 Copynumber: 6.0 Consensus size: 315
1719269 AGGTAATTTT
* * *
1719279 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
1719344 GAGGTATTTTCAATTTCTATCTTTCAAA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 GAGGTATTTTCAATTTCTATTTTTCAAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * **
1719408 CTCAGGACACACTGAGGTAATTTCAATTTTTGTTT-GTAAAAAATCAACTCATATTGCGAGAGGT
131 CTCAAGACACACTGAGGTATTTTCAATTTTTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGT
* * *
1719472 GAGTTGAGCCTCAAG-ACATGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATA
196 GAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTTCTATCTTTCAAAAAAATCAACTCATA
* *
1719536 TTGTGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTCTTTTCCATTTCTGTTCTTC
261 TTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGT-TTTTCCATTTCTGTTCTTC
* *
1719592 AATTTCTGTTTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
1719657 GAGGTATTTTCAA-TT-TATTTTTC-----AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGC
66 GAGGTATTTTCAATTTCTATTTTTCAAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
**
1719715 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAATAAAAAAATCAACTCATA
131 CTCAAGACACACTGAGGTATTTTCAATTT-T-TCTTT--------AA-AAAAAAATCAACTCATA
** *
1719780 TTGCGAGAGGTGAGTTGAGCCTCAAGT-CACATTGAGGTA-TTTCTAA-TT-TATC-ATC-AAAA
185 TTGCGAGAGGTGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTC-AATTTCTATCTTTCAAAAA
* * *
1719839 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTAAGACACGTTGAGG----T--A------TT
249 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTTTTTCCATTTCTGTT
1719892 -TTC
312 CTTC
* * *
1719895 AATTTCTGTTTTT----TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * * *
1719956 GAGGTATTGTCAATTTTTGTGTTTT-AATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTG
66 GAGGTATTTTCAATTTCTAT-TTTTCAA---A----TAAAAAATCAACTCATATTGCGAGAGGTG
* * * *
1720020 AGTTGAGCCTCAAGTCACATTGAGGTATTTTCAATTTATC-ATAAAAAAAAATCAACTCATATTG
123 AGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTTTCTTTAAAAAAAAATCAACTCATATTG
** * * * * *
1720084 CGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTTCAATTTTTGTGTTTAAAAAAAA
188 CGAGAGGTGAGTTGAGCCTCAAGT-ACACGCTGAGGT-ATTTTCAATTTCTATCTTT-CAAAAAA
* * * **
1720149 ATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCGGGTCATATTCTGAGGTGTTTTCCATTTCTG
250 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC----AAGACGCTGAGGT-TTTTCCATTTCTG
*
1720214 TTCTTT
310 TTCTTC
* * * * *
1720220 AATTTTTGTGTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACAC
1 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACAC
* *
1720284 GCTGAGGTATTTTCAAATTCTGTTTTTCAAATTCTATTTTTTTTTAAAAAGTCAACTCATATTGC
63 GCTGAGGTATTTTCAATTTCTATTTTTCAAA---TA---------AAAAA-TCAACTCATATTGC
* * * *
1720349 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAGTTTT-AATTTCTGTTCATAAAAAAAAATC
115 GAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTA-TTTTCAATTTTTCTT--TAAAAAAAAATC
* *
1720413 AACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACGTGCTGAGGTATTTTCAATTTCTATT
177 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTACAC--GCTGAGGTATTTTCAATTTCTATC
* *
1720477 TTTCAATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
240 TTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AG-ACGCT
*
1720542 GAGGTATTTTCAATTTCTGCTTTTCAATTTC
292 GAGGT-TTTTCCATTTCTG---TTC---TTC
* * * * *
1720573 TACTTTTCAATTTATATTCTTCAAAAAAAAATCAACTCTTATTGCGAAAGGTGAGTTGAGCCTCG
1 -A-ATTTC----TGT-TT-TTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * ** **
1720638 GGTCATATG-TCGAGGTATTTTCAAAGTCTGCTTTTCAAATTAAGTTTCAAAAAAATCAACTCAT
57 GG--ACACGCT-GAGGTATTTTCAATTTCTATTTTTC--A--AA---T--AAAAAATCAACTCAT
* * * * *
1720702 ATTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTTCAATTT
110 ATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAA-TT-T-TTCTTT-AA---
* **
1720767 ATGTTTGTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTC-AGGGCACGCTGAGGTA
168 A--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTACACGCTGAGGTA
1720831 TTTTCAATTTCTGCTTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
225 TTTTCAA-TT-T-C---T--A--TC---TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* ** * ** *
1720895 TGAGCCTC-AG--G-TCA---CATGCCGA--GGTATT-TTC
276 TGAGCCTCAAGACGCTGAGGTTTTTCC-ATTTCTGTTCTTC
* *
1720926 AATTTATG--TTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACG
1 AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACG
* * * * * **
1720988 CCGAGGTATTTTCAATTAATATTTTTTTCAATTTATGCTTTTCAAAAATCAACTTATATTTTGAG
64 CTGAGGTATTTTCAATT--TCTATTTTTCAA---A------TAAAAAATCAACTCATATTGCGAG
* *
1721053 AGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTATTTTCAATTAATGTT-TTTCAATTTATGCTT
118 AGGTGAGTTGAGCCTCAAGACACAC-T-GAGGTATTTTCAATT--T-TTCTTT-AA---A-----
* * * * * *
1721117 TTCAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTC-GGGACACGCTGAGGTATTGTCAA
169 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAA
* *
1721181 TTTTTCGTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCT
232 --TTTC-TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA--CGCT
1721244 GAGGTATTTTC
292 GAGGT-TTTTC
1721255 AAAAAAAAAT
Statistics
Matches: 1328, Mismatches: 163, Indels: 316
0.73 0.09 0.17
Matches are distributed among these distances:
299 57 0.04
300 2 0.00
301 44 0.03
302 6 0.00
303 25 0.02
304 4 0.00
305 6 0.00
306 2 0.00
307 60 0.05
308 1 0.00
309 40 0.03
310 2 0.00
311 15 0.01
312 3 0.00
313 135 0.10
315 38 0.03
316 3 0.00
317 11 0.01
318 7 0.01
319 54 0.04
324 2 0.00
325 13 0.01
327 3 0.00
328 3 0.00
329 34 0.03
330 4 0.00
331 63 0.05
332 3 0.00
333 2 0.00
336 7 0.01
337 53 0.04
338 10 0.01
339 18 0.01
340 52 0.04
341 60 0.05
342 2 0.00
343 109 0.08
344 17 0.01
345 20 0.02
347 21 0.02
349 36 0.03
350 3 0.00
351 3 0.00
352 1 0.00
353 5 0.00
354 1 0.00
355 3 0.00
357 6 0.00
358 49 0.04
359 10 0.01
360 5 0.00
361 9 0.01
362 65 0.05
363 3 0.00
364 1 0.00
365 2 0.00
366 5 0.00
368 1 0.00
369 17 0.01
370 2 0.00
371 81 0.06
372 1 0.00
375 1 0.00
377 1 0.00
379 1 0.00
382 3 0.00
383 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (315 bp):
AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTATTTTTCAAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAAGACACACTGAGGTATTTTCAATTTTTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTTCTATCTTTCAAAAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTTTTTCCATTTCTGTTCTTC
Found at i:1719681 original size:88 final size:86
Alignment explanation
Indices: 1719500--1719681 Score: 249
Period size: 88 Copynumber: 2.1 Consensus size: 86
1719490 TGTTGAGGTA
*
1719500 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGACG
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACG
* * *
1719565 CTGAGGTCTTTTCCATTTCTG
66 CTGAGGTATTTTCAATTTATG
* * * *
1719586 TTCTTCAATTTCTGTTTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
1 TT-TTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-AG
1719651 CACGCTGAGGTATTTTCAATTTAT-
63 -ACGCTGAGGTATTTTCAATTTATG
1719675 TTTTCAA
1 TTTTCAA
1719682 AAATCAACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
86 2 0.02
87 16 0.19
88 43 0.51
89 3 0.04
90 20 0.24
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (86 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACG
CTGAGGTATTTTCAATTTATG
Found at i:1719710 original size:71 final size:73
Alignment explanation
Indices: 1719589--1720182 Score: 507
Period size: 71 Copynumber: 7.8 Consensus size: 73
1719579 ATTTCTGTTC
* * * *
1719589 TTCAATTTCTGTTTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTCAATTTATG-TTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
1719654 GCTGAGGTATT
63 GTTGAGGTATT
*
1719665 TTCAATTTAT-TTTTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1719728 GAGGTATT
66 GAGGTATT
*
1719736 TTCAATTTCTGTCTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTCAATTTATGT-TTTC-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
1719801 TCAAGTCACATTGAGGTA-T
54 TCAAGACACGTTGAGGTATT
** * *
1719820 TTCTAATTTA--TCATCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTAAGACACGT
1 TTC-AATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1719883 TGAGGTATT
65 TGAGGTATT
* ** ** * *
1719892 TTCAATTTCTGTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1719956 GAGGTATT
66 GAGGTATT
* * *
1719964 GTCAATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTCAA--TTTATG--TT--TTCA------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
1720029 TCAAGTCACATTGAGGTATT
54 TCAAGACACGTTGAGGTATT
** *** **
1720049 TTCAATTTATCATAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACG
* *
1720114 CTGAGGTGTTT
64 TTGAGGT-ATT
* * *
1720125 TTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC
1 TTCAATTTATGT-TTT--CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1720183 GGGTCATATT
Statistics
Matches: 425, Mismatches: 56, Indels: 71
0.77 0.10 0.13
Matches are distributed among these distances:
71 116 0.27
72 58 0.14
73 45 0.11
74 10 0.02
75 9 0.02
76 22 0.05
77 1 0.00
78 2 0.00
79 40 0.09
81 1 0.00
82 2 0.00
83 5 0.01
84 4 0.01
85 110 0.26
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (73 bp):
TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTATT
Found at i:1719816 original size:156 final size:150
Alignment explanation
Indices: 1719589--1720182 Score: 562
Period size: 156 Copynumber: 3.9 Consensus size: 150
1719579 ATTTCTGTTC
*
1719589 TTCAATTTCTGTTTTTC--A-AAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
1 TTCAATTTCTG-TTTTCAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
* *
1719651 CACGCTGAGGT-ATTTTCAATTTATTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGC
65 CACACTGAGGTAATTTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1719715 CTCAAGACACGTTGAGGTATT
130 CTCAAGACACGTTGAGGTATT
1719736 TTCAATTTCTGTCTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTCAATTTCTGT-TTTC------AAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * ** *
1719801 TCAAGTCACATTGAGGT-A-TTTCTAATTTA-TCATCAAAAAATCAACTCATATTGCAAGAGGTG
59 TCAGGGCACACTGAGGTAATTTTC-AATTTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTG
*
1719863 AGTTGAGCCTTAAGACACGTTGAGGTATT
122 AGTTGAGCCTCAAGACACGTTGAGGTATT
* *
1719892 TTCAATTTCTGTTTT----T--TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC
1 TTCAATTTCTGTTTTCAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* *
1719951 ACGCTGAGGTATTGTCAATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATATTGCGAGA
66 ACACTGA-G----GT-AA------T-TTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGA
* *
1720016 GGTGAGTTGAGCCTCAAGTCACATTGAGGTATT
118 GGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
*
1720049 TTCAA----T-TTATCATAA-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGG
1 TTCAATTTCTGTTTTCA-AATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
** * *
1720107 TCACACGCTGAGGTGTTTTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTG
65 -CACA--CTGAGGTAATTTTCAATTTAT-T-TTT---CAAAAATCAACTCATATTGCGAGAGGTG
*
1720172 AGTTCAGCCTC
122 AGTTGAGCCTC
1720183 GGGTCATATT
Statistics
Matches: 372, Mismatches: 32, Indels: 81
0.77 0.07 0.17
Matches are distributed among these distances:
143 44 0.12
144 1 0.00
145 1 0.00
146 1 0.00
147 24 0.06
148 4 0.01
149 3 0.01
150 1 0.00
152 40 0.11
153 1 0.00
155 13 0.03
156 122 0.33
157 66 0.18
158 46 0.12
159 1 0.00
160 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (150 bp):
TTCAATTTCTGTTTTCAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
ACACTGAGGTAATTTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAAGACACGTTGAGGTATT
Found at i:1719999 original size:384 final size:389
Alignment explanation
Indices: 1719229--1720150 Score: 1162
Period size: 384 Copynumber: 2.4 Consensus size: 389
1719219 TCAATTTTTG
* *
1719229 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAA-TT-TATTTTTC
*
1719293 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
63 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
* *
1719358 TTCTATCTTTC-------AA-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
125 TTCTGTCTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* ** * *
1719415 CACACTGAGGTAATTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
190 CACACTGAGGTAATTTCAATTTATGCATGCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
* *
1719480 CCTCAAGACATGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAG
255 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTT-AAAAAAATCAACTCATATTGCGAGAG
* * * *
1719545 GTGAGTTGAACCTCAAGACGCTGAGGTCTTTTCCATTTCTGTTCTTCAATTTCTGTTTTTCAAAA
319 GTGAGTTGAACCTCAAGACGCTGAGGTATTGTCAATTTCTGTTCTTCAATTTCTATTTTTC--AA
1719610 AAAATCAA
382 AAAATCAA
* *
1719618 TTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTATTTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTCAAA
*
1719683 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGT
66 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGT
* *
1719748 CTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATT
131 CTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACT
*
1719813 GAGGT-ATTTCTAATTTAT-CAT-CAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTA
196 GAGGTAATTTC-AATTTATGCATGCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA
**
1719875 AGACACGTTGAGGTATTTTCAATTTCTGT-TTT-TTAAAATCAACTCATATTGCGAGAGGTGAGT
260 AGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* ** * *
1719938 TGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTTTGTGT-TTTAA-TT-TATTTTTC-AAAAAT
325 TGAACCTC-AAG-ACGCTGAGGTATTGTCAATTTCTGT-TCTTCAATTTCTATTTTTCAAAAAAT
1719999 CAA
387 CAA
* * ** ****
1720002 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAATTTATCATAAAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT--TTTTCA
** * *
1720067 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTTCAATT
64 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGT-ATTTTCAATT
* *
1720132 TTTGTGTTT-AAAAAAAAAT
126 TCTGTCTTTCAAAAAAAAAT
1720151 CAACTCATAT
Statistics
Matches: 470, Mismatches: 45, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
384 131 0.28
386 39 0.08
387 49 0.10
388 31 0.07
389 87 0.19
390 67 0.14
391 8 0.02
392 58 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (389 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTCAAA
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGT
CTTTCAAAAAAAAATAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACT
GAGGTAATTTCAATTTATGCATGCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAACCTCAAGACGCTGAGGTATTGTCAATTTCTGTTCTTCAATTTCTATTTTTCAAAAAATCAA
Found at i:1720058 original size:228 final size:229
Alignment explanation
Indices: 1719296--1720554 Score: 1046
Period size: 228 Copynumber: 5.3 Consensus size: 229
1719286 GTTTTTCAAA
* * ** *
1719296 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTATTTTCAAATT-
* *
1719361 TATCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT
65 TATC-ATC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* * * * *
1719426 AATTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAT
126 ATTTTCAATTTCTGTTT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
* * *
1719491 GTTGAGGTATTTTCAATTTCTGTCTTTCA---A-------
190 GCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGTTTTC
* * *
1719521 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTCTTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGG-----T--A----
* * ** *
1719584 TGTTCTTCAATTTCTGTTTTTCAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAG
55 --TT-TTCAAATT-T-ATCATC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * *
1719649 GGCACGCTGAGGTATTTTCAATTTAT-TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
113 GACACGCTGAGGTATTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * ** **** **
1719713 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAA-AAAAAAATAA
178 GCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT-TTTTAATTTATGTTTTC
* *
1719765 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTA-TTTCTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTATTTTCAAATTT
* * * *
1719829 ATCATCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTT
66 ATCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
** * *
1719894 CAATTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
131 CAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
* *
1719959 GTATTGTCAATTTTTGTGTTTTAATTTAT-TTTTC
196 GTATTTTCAATTTCTGT-TTTTAATTTATGTTTTC
*
1719993 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTC-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTATTTTCAAATTT
* *
1720057 ATCATAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTG
66 ATCAT--CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGT-
* * * *
1720122 TTTTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCGGGT
126 ATTTTCAATTTCTGT-TTT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
** * * *
1720187 CATATTCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTTTGTGTTTC
187 C--ACGCTGAGGTATTTTCAATTTCTGTT-TTTAATTTATGT-TTTC
* * **
1720234 AAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-TCACA--CTGAGGTATTTTC
*
1720298 AAATTCTGTTTTTCAAATTCTATTTTTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGA
60 AAA-----TTTATC--A-TC-A---------AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
*
1720363 GCCTCAGGACACGCTGAGGTAGTTTT-AATTTCTGTTCATAAAAAAAAATCAACTCATATTGCGA
106 GCCTCAGGACACGCTGAGGTA-TTTTCAATTTCTGTT--T--TAAAAAATCAACTCATATTGCGA
* * *
1720427 GAGGTGAGTTGAGCCTCAGTTCACGTGCTGAGGTATTTTCAATTTCTATTTTTCAATTTCTGTTT
166 GAGGTGAGTTGAGCCTCAGGTCAC--GCTGAGGTATTTTCAATTTCTGTTTTT-AATTTATGTTT
1720492 GTC
228 -TC
* * *
1720495 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTATTTTCAA
1720555 TTTCTGCTTT
Statistics
Matches: 861, Mismatches: 93, Indels: 130
0.79 0.09 0.12
Matches are distributed among these distances:
223 8 0.01
225 40 0.05
227 60 0.07
228 135 0.16
229 8 0.01
230 40 0.05
231 6 0.01
232 12 0.01
233 13 0.02
234 70 0.08
235 6 0.01
236 66 0.08
237 54 0.06
238 2 0.00
239 29 0.03
240 1 0.00
241 5 0.01
243 1 0.00
244 79 0.09
246 19 0.02
247 2 0.00
252 5 0.01
254 2 0.00
255 16 0.02
257 37 0.04
258 2 0.00
259 1 0.00
260 6 0.01
261 79 0.09
262 17 0.02
263 5 0.01
264 35 0.04
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (229 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTATTTTCAAATTT
ATCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
CAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
GTATTTTCAATTTCTGTTTTTAATTTATGTTTTC
Found at i:1720221 original size:79 final size:76
Alignment explanation
Indices: 1719993--1720221 Score: 284
Period size: 79 Copynumber: 3.0 Consensus size: 76
1719983 TTTATTTTTC
** * *
1719993 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACAT-TGAGGTATTTT-CAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCTGAGGTGTTTTCCATTT
* *
1720056 TATC-ATAAAA
66 TGTCTTTAAAA
* *
1720066 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-TCTGAGGTG-TTTTCCA-
*
1720131 TTTTGTGTTTAAAA
63 TTTTGTCTTTAAAA
* *
1720145 AAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCGGGTCATATTCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-TCTGAGGTGTTTTCCATT
1720210 TCTGTTCTTTAA
65 T-TG-TCTTTAA
1720222 TTTTTGTGTT
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
73 44 0.33
75 6 0.05
76 4 0.03
77 4 0.03
78 12 0.09
79 63 0.47
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCTGAGGTGTTTTCCATTT
TGTCTTTAAAA
Found at i:1720289 original size:92 final size:91
Alignment explanation
Indices: 1720120--1720398 Score: 300
Period size: 92 Copynumber: 3.0 Consensus size: 91
1720110 CACGCTGAGG
* *
1720120 TGTTTTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCGG
1 TGTTTTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AG
* ** *
1720185 GTCATATTCTGAGGTGTTTTCCATTTC
65 GTCACACGCTGAGGTGTTTTCAATTTC
* * * *
1720212 TGTTCTTT-AATTTTTGTGTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTTG
1 TGTT-TTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
* *
1720276 GCTCACACGCTGAGGTATTTTCAAATTC
65 G-TCACACGCTGAGGTGTTTTCAATTTC
*** *
1720304 TGTTTTTCAAATTCTATT-T-TTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TGTTTTTC-AATT-T-TTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1720367 CAGG--ACACGCTGAGGTAGTTTT-AATTTC
63 -AGGTCACACGCTGAGGT-GTTTTCAATTTC
1720395 TGTT
1 TGTT
1720399 CATAAAAAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
91 26 0.16
92 82 0.52
93 45 0.28
94 4 0.03
95 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (91 bp):
TGTTTTTCAATTTTTGTGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG
TCACACGCTGAGGTGTTTTCAATTTC
Found at i:1720312 original size:14 final size:14
Alignment explanation
Indices: 1720293--1720324 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1720283 CGCTGAGGTA
*
1720293 TTTTCAAATTCTGT
1 TTTTCAAATTCTAT
1720307 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
1720321 TTTT
1 TTTT
1720325 TTTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:1720431 original size:169 final size:164
Alignment explanation
Indices: 1720234--1721256 Score: 481
Period size: 169 Copynumber: 5.9 Consensus size: 164
1720224 TTTGTGTTTC
* * **
1720234 AAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* * * *
1720299 AATTCTGTTTTTCAAATTCTATTTTTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAG
66 AATTCTATTTTTC-AA-T-T-TCTGTTTGTAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAG
1720364 CCTCAGGACACGCTGAGGTAGTTTT-AATTTCTGTTCATA
126 CCTCAGGACACGCTGAGGTA-TTTTCAATTTCTGTTCATA
* **
1720403 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACGTGCTGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* *
1720468 ATTTCTATTTTTCAATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 AATTCTATTTTTCAATTTCTGTTTGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
1720533 GGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATT
131 GGACACGCTGAGGTATTTTCAATTTCTG---TTC-ATA
*** **** * * * * * ** * * * *** * * *
1720571 TCTACTTTTCAATTTATATTCTTCAAAAAAAAATCAACTCTTATTGCGAAAGGTGAGTTGA-GCC
1 AAAAAAAATCAACTCATA-T-TGC---GAGAGGT-GAGT-TGA--GCCTCAGCTCA---CACG-C
* * * * ** **
1720635 TCG-GGTCATATGTCGAGGTATTTTCAAAGTCTGCTTTTCAAATTAAGTTTCAAAAAAATCAACT
53 T-GAGGT-AT-TTTC-A---AATT-C----TAT--TTTTCAATTTCTGTTT-GTAAAAATCAACT
* *
1720699 CATATTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTTCAA
103 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG----TTC-A
1720764 TTTA
163 --TA
** * **
1720768 TGTTTGTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAG--GGCACGCTGAGGTA
1 ------AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTA
* **
1720831 TTTTCAATTTCTGCTTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
60 TTTTCAAATTCTATTTTTCAATTTCTGTTTGT--AAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
1720896 GAGCCTCAGGTCACATGCCGAGGTATTTTCAATTTATGTT--T-
123 GAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCTGTTCATA
* * * *
1720937 CAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC-
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
* * * **
1721001 AATTAATATTTTTTTCAATTTATGCTTT-TCAAAAATCAACTTATATTTTGAGAGGTGAGTTGAG
66 AATT-CTA--TTTTTCAATTTCTG-TTTGT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
1721065 CCTCAGGTCACACG-TCGAGGTATTTTCAATTAATGTTTTTCAATTTA
126 CCTCAGG--ACACGCT-GAGGTATTTTCAATT--T-CTGTTC-A--TA
*** * * **
1721112 TGCTTTTCAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTC-G-GGACACGCTGAGGTAT
1 -----AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTAT
* * * *
1721175 TGTC--A----ATTTTTC---GTATGTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
61 TTTCAAATTCTATTTTTCAATTTCTGTTTGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
1721230 CCTCAGGACGCGCTGAGGTATTTTCAA
126 CCTCAGGACACGCTGAGGTATTTTCAA
1721257 AAAAAAATCA
Statistics
Matches: 664, Mismatches: 120, Indels: 146
0.71 0.13 0.16
Matches are distributed among these distances:
163 60 0.09
164 60 0.09
165 65 0.10
166 63 0.09
167 21 0.03
168 17 0.03
169 73 0.11
170 9 0.01
172 1 0.00
173 3 0.00
174 3 0.00
175 4 0.01
176 13 0.02
177 46 0.07
178 17 0.03
179 25 0.04
180 42 0.06
181 3 0.00
182 4 0.01
183 5 0.01
186 5 0.01
187 4 0.01
188 3 0.00
189 6 0.01
190 1 0.00
191 2 0.00
192 1 0.00
193 13 0.02
194 67 0.10
195 7 0.01
196 2 0.00
197 3 0.00
198 3 0.00
201 2 0.00
202 1 0.00
203 10 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (164 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCA
AATTCTATTTTTCAATTTCTGTTTGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACGCTGAGGTATTTTCAATTTCTGTTCATA
Found at i:1720567 original size:14 final size:14
Alignment explanation
Indices: 1720548--1720585 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1720538 CGCTGAGGTA
*
1720548 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
1720562 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
1720576 TTTTCAATTT
1 TTTTCAATTT
1720586 ATATTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:1720686 original size:105 final size:105
Alignment explanation
Indices: 1720495--1720687 Score: 250
Period size: 105 Copynumber: 1.8 Consensus size: 105
1720485 TCTGTTTGTC
* **
1720495 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAAGTCT
* **
1720560 GCTTTTCAATTTCTACTTTTCAATTTATATTCTTCAAAAA
66 GCTTTTCAATATCTAAGTTTCAATTTATATTCTTCAAAAA
* *
1720600 AAAATCAACTCTTATTGCGAAAGGTGAGTTGAGCCTC-GGGTCATATG-TCGAGGTATTTTCAAA
1 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGG-C--ACGCT-GAGGTATTTTCAAA
1720663 GTCTGCTTTTCAA-AT-TAAGTTTCAA
62 GTCTGCTTTTCAATATCTAAGTTTCAA
1720688 AAAAATCAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
104 3 0.04
105 44 0.58
106 2 0.03
107 27 0.36
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (105 bp):
AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAAGTCT
GCTTTTCAATATCTAAGTTTCAATTTATATTCTTCAAAAA
Found at i:1720762 original size:15 final size:15
Alignment explanation
Indices: 1720742--1720772 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1720732 CGCTGAGGTA
*
1720742 TTTTCAATTTCTGTT
1 TTTTCAATTTATGTT
1720757 TTTTCAATTTATGTT
1 TTTTCAATTTATGTT
1720772 T
1 T
1720773 GTCAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTCAATTTATGTT
Found at i:1720865 original size:14 final size:14
Alignment explanation
Indices: 1720831--1720857 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1720821 CGCTGAGGTA
1720831 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
1720845 TTTTCAATTTCTG
1 TTTTCAATTTCTG
1720858 TTTGTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:1720897 original size:88 final size:88
Alignment explanation
Indices: 1720562--1720930 Score: 442
Period size: 89 Copynumber: 4.1 Consensus size: 88
1720552 CAATTTCTGC
* * * *
1720562 TTTTCAATTTCTACTTTTCAATTTATATTCTTCAAAAAAAAATCAACTCTTATTGCGAAAGGTGA
1 TTTTCAATTTCTGCTTTTCAATTTATGTT-TTC--AAAAAAATCAACTCATATTGCGAGAGGTGA
*
1720627 GTTGAGCCTC-GGGTCATATG-TCGAGGTA
63 GTTGAGCCTCAGGG-C--ACGCT-GAGGTA
** * * * *
1720655 TTTTCAAAGTCTGCTTTTCAAATTAAG-TTTCAAAAAAATCAACTCATATTACAAGAGGTGAGTT
1 TTTTCAATTTCTGCTTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
1720719 GAGCCTCAGGACACGCTGAGGTA
66 GAGCCTCAGGGCACGCTGAGGTA
* *
1720742 TTTTCAATTTCTGTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
1 TTTTCAATTTCTG-CTTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAG
1720806 TTGAGCCTCAGGGCACGCTGAGGTA
64 TTGAGCCTCAGGGCACGCTGAGGTA
*
1720831 TTTTCAATTTCTGCTTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGCTTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
1720895 TGAGCCTCAGGTCACATGCCGAGGTA
65 TGAGCCTCAGGGCAC--GCTGAGGTA
1720921 TTTTCAATTT
1 TTTTCAATTT
1720931 ATGTTTCAAA
Statistics
Matches: 243, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
87 19 0.08
88 74 0.30
89 103 0.42
90 22 0.09
91 3 0.01
92 1 0.00
93 21 0.09
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTTCAATTTCTGCTTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGGCACGCTGAGGTA
Found at i:1720969 original size:75 final size:75
Alignment explanation
Indices: 1720845--1721397 Score: 415
Period size: 76 Copynumber: 7.1 Consensus size: 75
1720835 CAATTTCTGC
*
1720845 TTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATG-TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
1720909 CATGCCGAGGTA
64 CACGCCGAGGTA
*
1720921 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1720986 CGCCGAGGTA
66 CGCCGAGGTA
* * **
1720996 TTTTCAATTAATATTTTTTTCAATTTATGCTTTTCAAAAATCAACTTATATTTTGAGAGGTGAGT
1 TTTTCAATT--TA--TGTTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGT
*
1721061 TGAGCCTCAGGTCACACGTCGAGGTA
50 TGAGCCTCAGGTCACACGCCGAGGTA
* * *
1721087 TTTTCAATTAATGTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTAAGTTG
1 TTTTCAATTTATG--TTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
1721152 AGCCTC-GG-GACACGCTGAGGTA
52 AGCCTCAGGTCACACGCCGAGGTA
*
1721174 TTGTCAATTTTTCGTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TTTTCAA---TT--TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
1721237 --ACGCGCTGAGGTA
61 TCACACGCCGAGGTA
* *
1721250 TTTTC-A---A------AAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGG--ACA
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
1721303 CGCTGAGGTA
66 CGCCGAGGTA
* * * **
1721313 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTATGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
1721378 ACGCCGAGGTA
65 ACGCCGAGGTA
1721389 TTTTCAATT
1 TTTTCAATT
1721398 CCCATTTTTC
Statistics
Matches: 404, Mismatches: 33, Indels: 80
0.78 0.06 0.15
Matches are distributed among these distances:
63 55 0.14
64 1 0.00
67 1 0.00
74 42 0.10
75 67 0.17
76 84 0.21
77 4 0.01
79 5 0.01
80 1 0.00
83 1 0.00
87 18 0.04
88 2 0.00
89 53 0.13
90 6 0.01
91 61 0.15
92 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCCGAGGTA
Found at i:1721076 original size:91 final size:89
Alignment explanation
Indices: 1720921--1721182 Score: 379
Period size: 91 Copynumber: 2.9 Consensus size: 89
1720911 TGCCGAGGTA
1720921 TTTTCAATTTATG--TTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATGCTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCA
*
1720984 CACGCCGAGGTATTTTCAATTAATATTT
64 CACGCCGAGGTATTTTCAATT-A-ATGT
* **
1721012 TTTTCAATTTATGCTTTTCAAAAATCAACTTATATTTTGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACA
*
1721077 CGTCGAGGTATTTTCAATTAATGT
66 CGCCGAGGTATTTTCAATTAATGT
* *
1721101 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTC-GG-GACA
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACA
* *
1721164 CGCTGAGGTATTGTCAATT
66 CGCCGAGGTATTTTCAATT
1721183 TTTCGTATGT
Statistics
Matches: 156, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
87 19 0.12
88 2 0.01
89 56 0.36
90 1 0.01
91 74 0.47
93 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCCGAGGTATTTTCAATTAATGT
Found at i:1721106 original size:14 final size:14
Alignment explanation
Indices: 1721087--1721121 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1721077 CGTCGAGGTA
*
1721087 TTTTCAATTAATGT
1 TTTTCAATTAATGC
*
1721101 TTTTCAATTTATGC
1 TTTTCAATTAATGC
1721115 TTTTCAA
1 TTTTCAA
1721122 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTAATGC
Found at i:1721289 original size:63 final size:63
Alignment explanation
Indices: 1721196--1721319 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
1721186 CGTATGTTTC
* * * *
1721196 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAA
1721259 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1721320 TTTCTGTTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (63 bp):
AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAA
Found at i:1721291 original size:139 final size:138
Alignment explanation
Indices: 1721120--1721395 Score: 376
Period size: 139 Copynumber: 2.0 Consensus size: 138
1721110 TATGCTTTTC
* * *
1721120 AAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCGGGACACGCTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTACGAAAGGCAAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTT
* *** ** * *
1721184 TTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACGCGCTGAGG
65 CT-GT-TGTCAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGG
1721248 TATTTTCAAAA
128 TATTTTCAAAA
* *
1721259 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAAAGGCAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
1721324 TGTTGTCAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTA
66 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTA
1721389 TTTTCAA
130 TTTTCAA
1721396 TTCCCATTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
137 41 0.34
138 2 0.02
139 74 0.62
140 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (138 bp):
AAAAATCAACTCATATTACGAAAGGCAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTGTCAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAT
TTTCAAAA
Found at i:1721339 original size:74 final size:75
Alignment explanation
Indices: 1721257--1721397 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 75
1721247 GTATTTTCAA
* *
1721257 AAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
1721321 TTCTGTTGTC
66 TTCTGTTGTC
* * *
1721331 AAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
1721396 TT
65 TT
1721398 CCCATTTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.67
76 20 0.33
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAAAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:1721534 original size:74 final size:75
Alignment explanation
Indices: 1721424--1721566 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
1721414 TGCCTTTCAA
* * *
1721424 AAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAG-GACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGCTGAGCCTCAGACACACGCCGAGGTAATTTCAAT
1721488 TTCTGTTGTC
66 TTCTGTTGTC
* * * *
1721498 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGCTGAGCCTCAGA-CACACGCCGAGGTAATTTCAA
1721563 TTTC
65 TTTC
1721567 CGTTTTTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 38 0.63
76 22 0.37
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGCTGAGCCTCAGACACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:1721700 original size:75 final size:76
Alignment explanation
Indices: 1721591--1721736 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 76
1721581 TGCCTTTCAA
* * *
1721591 AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTAATTTCA
1 AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGCACACGCCGAGGTAATTTCA
1721655 ATTTCTGTTGT
66 ATTTCTGTTGT
* * * *
1721666 AAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAG-CACACGCCGAGGTAATTTC
1721731 AATTTC
65 AATTTC
1721737 CATTTTTCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 40 0.65
77 22 0.35
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (76 bp):
AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGCACACGCCGAGGTAATTTCA
ATTTCTGTTGT
Found at i:1721765 original size:169 final size:167
Alignment explanation
Indices: 1721251--1722066 Score: 1190
Period size: 167 Copynumber: 4.9 Consensus size: 167
1721241 GCTGAGGTAT
* *
1721251 TTTCAAAAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
1721316 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
*
1721381 CCGAGGTATTTTCAATTCCCATTTTTCAATTTCTGCC
131 CCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
*
1721418 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
1721483 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGATCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
*
1721548 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
131 CCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
* *
1721585 TTTCAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
1 TTTC--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
1721650 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
64 TTTCAATTTCTGTTGT-CAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCAC
1721715 ACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
128 ACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
* * * *
1721755 TTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGTTGAGCTA
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGC--TGAGGTA
* * * * *
1721819 TTTTCAATTTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
63 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCAC
* *
1721883 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAAGTTCTGCC
128 ACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
* * * * *
1721923 TTT-AAAAAAAAAACGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTA
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* * * * *
1721986 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
63 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCA
* *
1722051 CACACTGAGGTATTTT
127 CACGCCGAGGTATTTT
1722067 TTTTTCAATT
Statistics
Matches: 601, Mismatches: 38, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
167 226 0.38
168 129 0.21
169 139 0.23
170 107 0.18
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (167 bp):
TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
CCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCC
Found at i:1721821 original size:93 final size:91
Alignment explanation
Indices: 1721650--1721828 Score: 227
Period size: 93 Copynumber: 1.9 Consensus size: 91
1721640 GCTGAGGTAA
* *
1721650 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
*
1721715 ACGCCGAGGTATTTTCAATTTCCATT
66 ACGCCGAGCTATTTTCAATTTCCATT
* * *
1721741 TTTCAATTTCTGCCTT-TCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTCAATTTCTG--TTGT-AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-
* **
1721804 TCACGCGTTGAGCTATTTTCAATTT
62 TCACACGCCGAGCTATTTTCAATTT
1721829 GTCTTTCAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 12 0.16
92 3 0.04
93 60 0.80
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (91 bp):
TTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
ACGCCGAGCTATTTTCAATTTCCATT
Found at i:1721896 original size:75 final size:75
Alignment explanation
Indices: 1721761--1721903 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 75
1721751 TGCCTTTCAA
* ** * * **
1721761 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGTTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
1721826 TTTGTCTTTC
66 TTTGTCTTTC
*
1721836 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
1721901 TTT
66 TTT
1721904 CCGTTTTTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
TTTGTCTTTC
Found at i:1721932 original size:337 final size:335
Alignment explanation
Indices: 1721251--1722066 Score: 1212
Period size: 337 Copynumber: 2.4 Consensus size: 335
1721241 GCTGAGGTAT
* * *
1721251 TTTC-AAAAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
*
1721315 TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACAC
66 TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1721380 GCCGAGGTATTTTCAATTCCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGC
131 GCCGAGGTATTTTCAATTCCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGC
* *
1721445 GAGAGGTGAGCTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAAC
196 GAGAGGTGAGCTGAGCCTCAGGACACGCTGAGCTAATTTCAATTTCTCTTGTCAAAAAAATCAAC
* *
1721510 TCGTATTGCGAGCGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTC
261 TCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTC
*
1721575 AATTTCTGCC
326 AAGTTCTGCC
*
1721585 TTTCAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
1 TTTC-AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
* *
1721650 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
65 TTTCAATTTCTGTTGT-CAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
* *
1721715 ACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATT
129 ACGCCGAGGTATTTTCAATTCCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATT
* * * * *
1721780 GCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGTTGAGCTATTTTCAATTTGTCTT-TCAAAAAAA
194 GCGAGAGGTGAGCTGAGCCTCAGG-ACACGC--TGAGCTAATTTCAATTTCTCTTGTCAAAAAAA
*
1721843 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGT
256 TCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGT
1721908 TTTTCAAGTTCTGCC
321 TTTTCAAGTTCTGCC
* ** * *
1721923 TTT-AAAAAAAAAA-CGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCT
1 TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGT
* * * * * *
1721985 ATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
63 AATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTC
* *
1722050 ACACACTGAGGTATTTT
127 ACACGCCGAGGTATTTT
1722067 TTTTTCAATT
Statistics
Matches: 436, Mismatches: 36, Indels: 17
0.89 0.07 0.03
Matches are distributed among these distances:
334 4 0.01
335 28 0.06
336 84 0.19
337 211 0.48
338 91 0.21
339 18 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (335 bp):
TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
GCCGAGGTATTTTCAATTCCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGC
GAGAGGTGAGCTGAGCCTCAGGACACGCTGAGCTAATTTCAATTTCTCTTGTCAAAAAAATCAAC
TCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTC
AAGTTCTGCC
Found at i:1721988 original size:92 final size:92
Alignment explanation
Indices: 1721836--1722006 Score: 252
Period size: 92 Copynumber: 1.9 Consensus size: 92
1721826 TTTGTCTTTC
* *
1721836 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 AAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
*
1721901 TTTCCGTTTTTCAAGTTCTGCCTTTAA
66 TTTCCGTCTTTCAAGTTCTGCCTTTAA
* ** * * *
1721928 AAAAAAAACGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
*
1721993 TTTCTGTCTTTCAA
66 TTTCCGTCTTTCAA
1722007 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (92 bp):
AAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAAGTTCTGCCTTTAA
Found at i:1722038 original size:244 final size:241
Alignment explanation
Indices: 1721740--1722243 Score: 620
Period size: 244 Copynumber: 2.1 Consensus size: 241
1721730 CAATTTCCAT
* * * *
1721740 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
1 TTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
* ** * * *
1721804 TCACGCGTTGAGCTA-TTTTCAATTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
64 TCACACACTGAGCTATTTTTCAATTTATATTTCAAAAAAATCAAATCATATTGCGAGAGGTGAGT
* ** * **
1721868 TGAGCCTCAGA-TCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAAGTTCTGCCTTTAAAAAA
129 TGAGCCT-AGAGTCACACACCGAGGTATTTTCAAAATCCGCTTTTCAAGTTAAG--TTT---AAA
*
1721932 AAAACGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
188 AAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
1721986 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* ***
1722050 ACACACTGAGGTATTTTTTTTTCAATTTATATTTTTCAAAAATCAAATCATATTGCGAGAGGTGA
66 ACACACTGAGCTA----TTTTTCAATTTATATTTCAAAAAAATCAAATCATATTGCGAGAGGTGA
* * * * * *
1722115 GTTGAGCCTTGAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAT
127 GTTGAGCCTAGAGTCACACACCGAGGTATTTTCAAAATCCGCTTTTCAAGTTAAGTTTAAAAAAA
*
1722180 CAACTCATATTGCGGGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
192 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
1722230 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1722244 TTTTAATGTC
Statistics
Matches: 223, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
243 3 0.01
244 114 0.51
246 18 0.08
247 3 0.01
248 2 0.01
249 83 0.37
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (241 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGCTATTTTTCAATTTATATTTCAAAAAAATCAAATCATATTGCGAGAGGTGAGTTG
AGCCTAGAGTCACACACCGAGGTATTTTCAAAATCCGCTTTTCAAGTTAAGTTTAAAAAAACAAC
TCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
Found at i:1723250 original size:17 final size:17
Alignment explanation
Indices: 1723228--1723266 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1723218 CCTAAAGGTG
*
1723228 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
1723245 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
1723262 ATTTT
1 ATTTT
1723267 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:1724035 original size:11 final size:11
Alignment explanation
Indices: 1724011--1724055 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
1724001 TTCTAATACG
*
1724011 TATATATATAT
1 TATATATATTT
*
1724022 TATATGTATTT
1 TATATATATTT
*
1724033 TATATATATTA
1 TATATATATTT
*
1724044 TGTATATATTT
1 TATATATATTT
1724055 T
1 T
1724056 TTAATGCCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:1724236 original size:15 final size:15
Alignment explanation
Indices: 1724186--1724242 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
1724176 TATTGTGTAT
*
1724186 ATATTATTATTACAA
1 ATATTATTATTACTA
* *
1724201 ATTATTACTATTGCTA
1 A-TATTATTATTACTA
* *
1724217 GTATTATTATAACTA
1 ATATTATTATTACTA
1724232 ATATTA-TATTA
1 ATATTATTATTA
1724243 TTGTATATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 4 0.12
15 17 0.53
16 11 0.34
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (15 bp):
ATATTATTATTACTA
Found at i:1725664 original size:2 final size:2
Alignment explanation
Indices: 1725657--1725681 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1725647 CCTTATATTA
1725657 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
1725682 ATTTTTAAAT
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:1726044 original size:34 final size:35
Alignment explanation
Indices: 1726006--1726076 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
1725996 CTAAACCATT
* *
1726006 AACCCCAAA-CCCAAACTCTAAACTTTCAATCTCA
1 AACCCCAAACCCCAAACCCTAAACCTTCAATCTCA
* *
1726040 AA-CCCAAACCCCAAACCCTGAACCTTGAATCTCA
1 AACCCCAAACCCCAAACCCTAAACCTTCAATCTCA
1726074 AAC
1 AAC
1726077 TCGAACACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 6 0.19
34 25 0.81
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (35 bp):
AACCCCAAACCCCAAACCCTAAACCTTCAATCTCA
Found at i:1726199 original size:7 final size:7
Alignment explanation
Indices: 1726189--1726226 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
1726179 ATGGATTGAT
*
1726189 GTTCAAT
1 GTTCAAG
1726196 GTTCAAG
1 GTTCAAG
*
1726203 GTTTAAG
1 GTTCAAG
1726210 GTTCAAG
1 GTTCAAG
1726217 GTTCAAG
1 GTTCAAG
1726224 GTT
1 GTT
1726227 TAGGTTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (7 bp):
GTTCAAG
Found at i:1726213 original size:21 final size:20
Alignment explanation
Indices: 1726189--1726268 Score: 74
Period size: 19 Copynumber: 4.0 Consensus size: 20
1726179 ATGGATTGAT
*
1726189 GTTCAATGTTCAAGGTTTAAG
1 GTTCAAGGTTCAAGGTTT-AG
1726210 GTTCAAGGTTCAAGGTTTAG
1 GTTCAAGGTTCAAGGTTTAG
* * * *
1726230 GTT-TAGGTTTAGGGTTTAA
1 GTTCAAGGTTCAAGGTTTAG
* *
1726249 GTTCGAGGTTTAA-GTTTAG
1 GTTCAAGGTTCAAGGTTTAG
1726268 G
1 G
1726269 GTTTAGGATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 21 0.42
20 12 0.24
21 17 0.34
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.40
Consensus pattern (20 bp):
GTTCAAGGTTCAAGGTTTAG
Found at i:1726215 original size:14 final size:14
Alignment explanation
Indices: 1726196--1726262 Score: 68
Period size: 13 Copynumber: 5.0 Consensus size: 14
1726186 GATGTTCAAT
1726196 GTTCAAGGTTTAAG
1 GTTCAAGGTTTAAG
*
1726210 GTTCAAGGTTCAAG
1 GTTCAAGGTTTAAG
*
1726224 GTT-TAGGTTT-AG
1 GTTCAAGGTTTAAG
* *
1726236 GTTTAGGGTTTAA-
1 GTTCAAGGTTTAAG
*
1726249 GTTCGAGGTTTAAG
1 GTTCAAGGTTTAAG
1726263 TTTAGGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
12 5 0.12
13 20 0.48
14 17 0.40
ACGTcount: A:0.24, C:0.06, G:0.31, T:0.39
Consensus pattern (14 bp):
GTTCAAGGTTTAAG
Found at i:1726245 original size:7 final size:6
Alignment explanation
Indices: 1726222--1726275 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
1726212 TCAAGGTTCA
* * *
1726222 AGGTTT AGGTTT AGGTTT AGGGTTT AAGTTCG AGGTTT AAGTTT AGGGTTT
1 AGGTTT AGGTTT AGGTTT A-GGTTT AGGTT-T AGGTTT AGGTTT A-GGTTT
1726273 AGG
1 AGG
1726276 ATTCGAGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 24 0.62
7 15 0.38
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (6 bp):
AGGTTT
Found at i:1726245 original size:13 final size:13
Alignment explanation
Indices: 1726222--1726275 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1726212 TCAAGGTTCA
1726222 AGGTTTA-GGTTT
1 AGGTTTAGGGTTT
1726234 AGGTTTAGGGTTT
1 AGGTTTAGGGTTT
* *
1726247 AAG-TTCGAGGTTT
1 AGGTTTAG-GGTTT
*
1726260 AAGTTTAGGGTTT
1 AGGTTTAGGGTTT
1726273 AGG
1 AGG
1726276 ATTCGAGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.29
13 22 0.63
14 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (13 bp):
AGGTTTAGGGTTT
Found at i:1726245 original size:26 final size:26
Alignment explanation
Indices: 1726189--1726271 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
1726179 ATGGATTGAT
* * *
1726189 GTTCAATGTTCAAGGTTTAAGGTTCAAG
1 GTTCAA-GTTCGAGGTTT-AGGTTTAGG
*
1726217 GTTCAAGGTT-TAGGTTTAGGTTTAGG
1 GTTCAA-GTTCGAGGTTTAGGTTTAGG
* *
1726243 GTTTAAGTTCGAGGTTTAAGTTTAGG
1 GTTCAAGTTCGAGGTTTAGGTTTAGG
1726269 GTT
1 GTT
1726272 TAGGATTCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.06
26 29 0.62
27 6 0.13
28 9 0.19
ACGTcount: A:0.23, C:0.06, G:0.30, T:0.41
Consensus pattern (26 bp):
GTTCAAGTTCGAGGTTTAGGTTTAGG
Found at i:1726272 original size:26 final size:27
Alignment explanation
Indices: 1726228--1726283 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
1726218 TTCAAGGTTT
*
1726228 AGGTTTAGGTTTAGGGTTTAAG-TTCG
1 AGGTTTAAGTTTAGGGTTTAAGATTCG
*
1726254 AGGTTTAAGTTTAGGGTTTAGGATTCG
1 AGGTTTAAGTTTAGGGTTTAAGATTCG
1726281 AGG
1 AGG
1726284 CTTAGTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.39
Consensus pattern (27 bp):
AGGTTTAAGTTTAGGGTTTAAGATTCG
Found at i:1730262 original size:29 final size:30
Alignment explanation
Indices: 1730186--1730263 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
1730176 GATCGAATCA
* *
1730186 AAATTAAAGTTTCATGTATATATTTAAACC
1 AAATCAAAGTTTCATGTATATAATTAAACC
**
1730216 ACAATCAAAGTTTCATGTATATAATTGCACC
1 A-AATCAAAGTTTCATGTATATAATTAAACC
1730247 AAATCAAAGTTT-ATGTA
1 AAATCAAAGTTTCATGTA
1730264 GACCCCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.12
30 12 0.28
31 26 0.60
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATCAAAGTTTCATGTATATAATTAAACC
Found at i:1741765 original size:18 final size:18
Alignment explanation
Indices: 1741723--1741766 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1741713 TCAATTCAGT
* *
1741723 TTTATGTTTTATTATATA
1 TTTATTTTTTATTATAGA
* *
1741741 TTAATTTTTTATTTTAGA
1 TTTATTTTTTATTATAGA
1741759 TTTATTTT
1 TTTATTTT
1741767 GACAACATGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTTTTTATTATAGA
Found at i:1741961 original size:29 final size:27
Alignment explanation
Indices: 1741909--1741969 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
1741899 ATATTTTAAG
* *
1741909 TTATTTTCACTATTTTAAATATAAGATAT
1 TTATTTTCACTATTTAAAAAATAA-A-AT
1741938 TTATTTTCAC-ATTGTAAAAAATAAAAT
1 TTATTTTCACTATT-TAAAAAATAAAAT
1741965 TTATT
1 TTATT
1741970 ATAAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.24
28 4 0.14
29 18 0.62
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (27 bp):
TTATTTTCACTATTTAAAAAATAAAAT
Found at i:1747322 original size:16 final size:15
Alignment explanation
Indices: 1747295--1747325 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1747285 CACTTCGTGG
1747295 GTCAAATCAAATCAA
1 GTCAAATCAAATCAA
1747310 GTCAAATTCAAATCAA
1 GTCAAA-TCAAATCAA
1747326 AAGTAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (15 bp):
GTCAAATCAAATCAA
Found at i:1747564 original size:22 final size:24
Alignment explanation
Indices: 1747516--1747565 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
1747506 ATTATATACA
*
1747516 AAATATTATAAAATAAAACATTAT
1 AAATATTATAAAATAAAACAATAT
* *
1747540 AAAT-TTA-AAAATAAATCAATCT
1 AAATATTATAAAATAAAACAATAT
1747562 AAAT
1 AAAT
1747566 CAAACCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 3 0.13
24 4 0.17
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATATTATAAAATAAAACAATAT
Found at i:1748872 original size:16 final size:16
Alignment explanation
Indices: 1748851--1748886 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1748841 TTTTTATGAG
1748851 AAATTAAATCACTTTA
1 AAATTAAATCACTTTA
*
1748867 AAATTAAATCATTTTA
1 AAATTAAATCACTTTA
1748883 AAAT
1 AAAT
1748887 ATTTATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTAAATCACTTTA
Found at i:1749418 original size:31 final size:30
Alignment explanation
Indices: 1749359--1749424 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
1749349 TTAATGGGTA
*
1749359 AATATTAAATTTATATATGAATTATGATTT
1 AATATTAAATTTATATATAAATTATGATTT
* * *
1749389 AATATGTAATTTTATATGTAAATTTTGATTT
1 AATAT-TAAATTTATATATAAATTATGATTT
*
1749420 GATAT
1 AATAT
1749425 AATTATATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (30 bp):
AATATTAAATTTATATATAAATTATGATTT
Found at i:1749427 original size:29 final size:30
Alignment explanation
Indices: 1749359--1749439 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 30
1749349 TTAATGGGTA
* * * *
1749359 AATATTAAATTTATATATGAATTATGATTT
1 AATAGTAATTTTATATGTAAATTATGATTT
*
1749389 AATATGTAATTTTATATGTAAATTTTGATTT
1 AATA-GTAATTTTATATGTAAATTATGATTT
* * *
1749420 GATA-TAATTATATACGTAAA
1 AATAGTAATTTTATATGTAAA
1749440 CTTGAATTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 14 0.33
30 4 0.10
31 24 0.57
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (30 bp):
AATAGTAATTTTATATGTAAATTATGATTT
Found at i:1750470 original size:20 final size:20
Alignment explanation
Indices: 1750445--1750484 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1750435 TTATCTTAAT
*
1750445 TTTAAAGTGACTAACATAAA
1 TTTAAAGTGACTAAAATAAA
1750465 TTTAAAGTGACTAAAATAAA
1 TTTAAAGTGACTAAAATAAA
1750485 AAGGATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (20 bp):
TTTAAAGTGACTAAAATAAA
Found at i:1756110 original size:11 final size:11
Alignment explanation
Indices: 1756094--1756118 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1756084 TGACAAACTT
1756094 TAATAATTTTA
1 TAATAATTTTA
1756105 TAATAATTTTA
1 TAATAATTTTA
1756116 TAA
1 TAA
1756119 CTTTTCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATAATTTTA
Found at i:1758678 original size:14 final size:14
Alignment explanation
Indices: 1758661--1758687 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1758651 TTTTTTTTTT
1758661 AAATATTTTATAAA
1 AAATATTTTATAAA
1758675 AAATATTTTATAA
1 AAATATTTTATAA
1758688 TTTATGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTTATAAA
Found at i:1764510 original size:44 final size:46
Alignment explanation
Indices: 1764457--1764567 Score: 111
Period size: 46 Copynumber: 2.4 Consensus size: 46
1764447 TTTTATTTTT
* *
1764457 TATATTTTTATACTATAATA-AATATTA-AT-ATAAATTTTATTATCA
1 TATA-TTTTATACTATAATATAATATTATATAAAAAATATTA-TATCA
* * * *
1764502 TATATTTTAAATTATAATATAATTTTATATAAAAAATATTATATTA
1 TATATTTTATACTATAATATAATATTATATAAAAAATATTATATCA
* *
1764548 TATATTATATACTAAAATAT
1 TATATTTTATACTATAATAT
1764568 TAGGACGGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
44 13 0.25
45 10 0.19
46 22 0.42
47 8 0.15
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (46 bp):
TATATTTTATACTATAATATAATATTATATAAAAAATATTATATCA
Found at i:1764515 original size:17 final size:18
Alignment explanation
Indices: 1764482--1764528 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
1764472 TAATAAATAT
1764482 TAATATAAATTTT--ATTA
1 TAATAT-AATTTTAAATTA
*
1764499 TCATAT-ATTTTAAATTA
1 TAATATAATTTTAAATTA
1764516 TAATATAATTTTA
1 TAATATAATTTTA
1764529 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATAATTTTAAATTA
Found at i:1764542 original size:27 final size:27
Alignment explanation
Indices: 1764512--1764569 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1764502 TATATTTTAA
*
1764512 ATTATAATATAATTTTATATA-AAAAAT
1 ATTATAATAT-ATATTATATACAAAAAT
* *
1764539 ATTATATTATATATTATATACTAAAAT
1 ATTATAATATATATTATATACAAAAAT
1764566 ATTA
1 ATTA
1764570 GGACGGTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTATAATATATATTATATACAAAAAT
Done.