Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009222.1 Hibiscus syriacus cultivar Beakdansim tig00112813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 295974
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1159 original size:16 final size:16
Alignment explanation
Indices: 1138--1191 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
1128 TTTTTGGCTC
*
1138 TTTTTTTT-GTTTTTT
1 TTTTTTTTCCTTTTTT
*
1153 TTTTTTTGCCTTTTTT
1 TTTTTTTTCCTTTTTT
1169 TTTTTTTTGCCTTTTTGT
1 TTTTTTTT-CCTTTTT-T
1187 TTTTT
1 TTTTT
1192 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.21
16 13 0.39
17 7 0.21
18 6 0.18
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCCTTTTTT
Found at i:1167 original size:17 final size:17
Alignment explanation
Indices: 1147--1191 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
1137 CTTTTTTTTG
1147 TTTTTTTTTTTTTGCCT
1 TTTTTTTTTTTTTGCCT
1164 TTTTTTTTTTTTTGCCT
1 TTTTTTTTTTTTTGCCT
1181 TTTTGTTTTTT
1 TTTT-TTTTTT
1192 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTTTTTGCCT
Found at i:1173 original size:15 final size:15
Alignment explanation
Indices: 1138--1192 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 15
1128 TTTTTGGCTC
*
1138 TTTTTTTTG-TTTTT
1 TTTTTTTTGCCTTTT
1152 TTTTTTTTGCCTTTTTT
1 TTTTTTTTGCC--TTTT
1169 TTTTTTTTGCCTTTT
1 TTTTTTTTGCCTTTT
*
1184 TGTTTTTTG
1 TTTTTTTTG
1193 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 9 0.25
15 12 0.33
17 15 0.42
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (15 bp):
TTTTTTTTGCCTTTT
Found at i:1183 original size:25 final size:26
Alignment explanation
Indices: 1128--1185 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
1118 AATTTTGGCT
**
1128 TTTTTGGCTCTTTTTTTTGTTTTTTTT
1 TTTTT-GCTCTTTTTTTTGTTTTTTCC
1155 TTTTTGC-CTTTTTTTT-TTTTTTGCC
1 TTTTTGCTCTTTTTTTTGTTTTTT-CC
1180 TTTTTG
1 TTTTTG
1186 TTTTTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 15 0.54
26 2 0.07
27 5 0.18
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (26 bp):
TTTTTGCTCTTTTTTTTGTTTTTTCC
Found at i:6178 original size:2 final size:2
Alignment explanation
Indices: 6171--6195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6161 TAAATAATAA
6171 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
6196 CACAAAACTT
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:7427 original size:15 final size:15
Alignment explanation
Indices: 7409--7443 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7399 AGCTTAAGTT
7409 ATTTTGATATAAATC
1 ATTTTGATATAAATC
* *
7424 ATTTTGATTTAAATT
1 ATTTTGATATAAATC
7439 ATTTT
1 ATTTT
7444 TTATTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
ATTTTGATATAAATC
Found at i:12984 original size:17 final size:18
Alignment explanation
Indices: 12955--12990 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12945 AGTGGATTTA
12955 AATATTATAAATTCAAAT
1 AATATTATAAATTCAAAT
*
12973 AATATT-TAAATTTAAAT
1 AATATTATAAATTCAAAT
12990 A
1 A
12991 CGAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTATAAATTCAAAT
Found at i:21037 original size:21 final size:21
Alignment explanation
Indices: 21013--21054 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21003 GGGGGGGAAG
*
21013 AAAGA-AAGATTACAACAGGGC
1 AAAGACAAGATCAC-ACAGGGC
21034 AAAGACAAGATCACACAGGGC
1 AAAGACAAGATCACACAGGGC
21055 TCAATGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.50, C:0.19, G:0.24, T:0.07
Consensus pattern (21 bp):
AAAGACAAGATCACACAGGGC
Found at i:27464 original size:8 final size:8
Alignment explanation
Indices: 27451--27495 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
27441 ACCTAAATGA
*
27451 ATATATAT
1 ATATATGT
*
27459 ATATATAT
1 ATATATGT
27467 ATATATGT
1 ATATATGT
*
27475 ATGTATGT
1 ATATATGT
*
27483 ATGTATGT
1 ATATATGT
27491 ATATA
1 ATATA
27496 AAAGAGGTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:27468 original size:12 final size:12
Alignment explanation
Indices: 27451--27495 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
27441 ACCTAAATGA
*
27451 ATATATATATAT
1 ATATATATATGT
27463 ATATATATATGT
1 ATATATATATGT
* *
27475 ATGTATGTATGT
1 ATATATATATGT
*
27487 ATGTATATA
1 ATATATATA
27496 AAAGAGGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (12 bp):
ATATATATATGT
Found at i:29467 original size:8 final size:8
Alignment explanation
Indices: 29449--29477 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
29439 TTAATTGATT
29449 AATTTAT-
1 AATTTATG
29456 AATTTATG
1 AATTTATG
29464 AATTTATG
1 AATTTATG
29472 AATTTA
1 AATTTA
29478 AAAAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (8 bp):
AATTTATG
Found at i:33213 original size:20 final size:21
Alignment explanation
Indices: 33184--33227 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
33174 CTTTAATGCC
33184 TCTCCCTCTTCATATCTTC-T
1 TCTCCCTCTTCATATCTTCAT
* *
33204 TCTCCTTCTTCATCTCTTCAT
1 TCTCCCTCTTCATATCTTCAT
33225 TCT
1 TCT
33228 AAATTCCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.09, C:0.39, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTCCCTCTTCATATCTTCAT
Found at i:37472 original size:16 final size:17
Alignment explanation
Indices: 37432--37475 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
37422 CCCTACTTGA
37432 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** *
37449 TTTTATATTT-TTAAAT
1 TTAAATATTTAATAAAT
37465 TTAAATATTTA
1 TTAAATATTTA
37476 TTTTTACATG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:37639 original size:2 final size:2
Alignment explanation
Indices: 37632--37671 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
37622 CAACCCAATC
37632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37672 GTATGATGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46682 original size:16 final size:16
Alignment explanation
Indices: 46661--46698 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46651 CTAAAAACTA
46661 ATATTTT-ATAAATATT
1 ATATTTTAATAAA-ATT
*
46677 ATATTTTAATTAAATT
1 ATATTTTAATAAAATT
46693 ATATTT
1 ATATTT
46699 AGATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTTAATAAAATT
Found at i:49489 original size:182 final size:181
Alignment explanation
Indices: 49142--49505 Score: 658
Period size: 182 Copynumber: 2.0 Consensus size: 181
49132 GGACTTTGTT
49142 TTGTTGAGTATCCGACTATTAAAAGTTACAAAATGATAAAATCTAATTTGAGAATCGTTTGAGTT
1 TTGTTGAGTATCCGACTATTAAAAGTTACAAAATGATAAAATCTAATTTGAGAATCGTTTGAGTT
*
49207 GTATTTTGTGGATTATCTCTCCATTTACATTGTGTCGTTGAGCTAGTGCTTGAAACTTTATGTCG
66 GTATTTTGTGGATTATCTCTCCATTTACATTGTGTCGTTGAGCTAGTGCTTGAAACTTTATATCG
49272 TCTAGTCAGTGCTTAAAAGAAATGACGATATCAATAAACATCATTAAAATA
131 TCTAGTCAGTGCTTAAAAGAAATGACGATATCAATAAACATCATTAAAATA
*
49323 TTGTTGAGTA-CATGACTATTAAAAGTTACAAAATGATAAAATCTAATTTGAGAATCGTTTGAGT
1 TTGTTGAGTATC-CGACTATTAAAAGTTACAAAATGATAAAATCTAATTTGAGAATCGTTTGAGT
* *
49387 TGTATTTTGTGGATTGTCTCTTCATTTTACATTGTGTCGTTGAGCTAGTGCTTGAAACTTTATAT
65 TGTATTTTGTGGATTATCTCTCCA-TTTACATTGTGTCGTTGAGCTAGTGCTTGAAACTTTATAT
*
49452 CGTCTAGTCAGTGCTTAAAAGCAATGACGATATCAATAAACATCATTAAAATA
129 CGTCTAGTCAGTGCTTAAAAGAAATGACGATATCAATAAACATCATTAAAATA
49505 T
1 T
49506 GATTTTATCA
Statistics
Matches: 176, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
180 1 0.01
181 83 0.47
182 92 0.52
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (181 bp):
TTGTTGAGTATCCGACTATTAAAAGTTACAAAATGATAAAATCTAATTTGAGAATCGTTTGAGTT
GTATTTTGTGGATTATCTCTCCATTTACATTGTGTCGTTGAGCTAGTGCTTGAAACTTTATATCG
TCTAGTCAGTGCTTAAAAGAAATGACGATATCAATAAACATCATTAAAATA
Found at i:51022 original size:19 final size:20
Alignment explanation
Indices: 50997--51042 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
50987 GACCAACAAA
* * *
50997 ATCGCAATGCGATCTCTAAT
1 ATCGCAACGCGATATCCAAT
51017 -TCGCAACGCGATATCCAAT
1 ATCGCAACGCGATATCCAAT
51036 ATCGCAA
1 ATCGCAA
51043 ATTCGCGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATATCCAAT
Found at i:51118 original size:21 final size:21
Alignment explanation
Indices: 51045--51110 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
51035 TATCGCAAAT
*
51045 TCGCGTTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
* ** **
51066 TCGCATTGCGAT-TTTCTATT
1 TCGCATTGCGATAGTTGAAAA
51086 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
51107 TCGC
1 TCGC
51111 GTTACGATTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATAGTTGAAAA
Found at i:51154 original size:21 final size:21
Alignment explanation
Indices: 51130--51198 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
51120 TTCCTTTTCG
*
51130 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTTTACAGTGT
* *
51151 CGTTGCGAT--TTTCCA-TTT
1 CGTTGCGATAGTTTACAGTGT
51169 CGCGTTGCGATAGTTTACAGTGT
1 --CGTTGCGATAGTTTACAGTGT
51192 CGTTGCG
1 CGTTGCG
51199 CTAATTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 9 0.24
21 16 0.42
22 5 0.13
23 2 0.05
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (21 bp):
CGTTGCGATAGTTTACAGTGT
Found at i:51176 original size:20 final size:20
Alignment explanation
Indices: 51066--51179 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 20
51056 TAGTTGAAAA
* *
51066 TCGCATTGCGATTTTCTATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
51086 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
* *
51107 TCGCGTTACGATTTTCCTTT
1 TCGCGTTGCGATTTTCCATT
* * *
51127 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
51148 T-GTCGTTGCGATTTTCCATT
1 TCG-CGTTGCGATTTTCCATT
51168 TCGCGTTGCGAT
1 TCGCGTTGCGAT
51180 AGTTTACAGT
Statistics
Matches: 67, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
19 4 0.06
20 36 0.54
21 24 0.36
22 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:51198 original size:41 final size:41
Alignment explanation
Indices: 51044--51183 Score: 185
Period size: 41 Copynumber: 3.4 Consensus size: 41
51034 ATATCGCAAA
* *
51044 TTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCTAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* * *
51085 TTCGCATTGCGATAGTTGAAAATCGCGTTACGATTTTCCTT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* *
51126 TTCGCGTTGCGATAGTCT-ACAGT-GTCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCCAT
51167 TTCGCGTTGCGATAGTT
1 TTCGCGTTGCGATAGTT
51184 TACAGTGTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 84 0.97
42 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:51263 original size:6 final size:6
Alignment explanation
Indices: 51252--51276 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
51242 GACACGTATT
51252 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
51277 GACGAGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:51788 original size:6 final size:6
Alignment explanation
Indices: 51772--51803 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
51762 TCTCGTCTCG
51772 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
51804 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:52566 original size:35 final size:35
Alignment explanation
Indices: 52493--52567 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
52483 CGTCACTAAC
* **
52493 AGTAAGGCCCTGAGCACACAGCTGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
52528 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
52563 AGTAA
1 AGTAA
52568 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:52672 original size:24 final size:24
Alignment explanation
Indices: 52645--52719 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
52635 CATAATTCAA
*
52645 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
52669 GTCATGTATCAGATCAGAATCAAT
1 GTCAAGTATCAGATCAGAATCCAG
52693 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
52716 GTCA
1 GTCA
52720 GGATCATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:52725 original size:23 final size:23
Alignment explanation
Indices: 52649--52725 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
52639 ATTCAAGTCA
*
52649 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* *
52672 ATGTATCAGATCAGAATCAATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
52696 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
52719 AGGATCA
1 AGTATCA
52726 TAATAGAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
23 25 0.56
24 20 0.44
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:52750 original size:47 final size:47
Alignment explanation
Indices: 52628--52752 Score: 139
Period size: 47 Copynumber: 2.6 Consensus size: 47
52618 TATATCAAAA
* * * *
52628 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATTCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
*
52676 ATCAGATCAGAA-TCAATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATTCAA-GTCAATATCAGATCAGAATCCAGGTCATGG
*
52722 ATCATAAT-AGAATTCAAGTCGAAAATCAGAT
1 ATCA-AATCAGAATTCAAGTC-AATATCAGAT
52753 AAAATATTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 12 0.18
47 40 0.61
48 14 0.21
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATTCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:53902 original size:18 final size:18
Alignment explanation
Indices: 53879--53914 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53869 CTTCCATCCG
*
53879 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
53897 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
53915 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:55223 original size:7 final size:7
Alignment explanation
Indices: 55211--55249 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
55201 GGTCAATGAG
55211 GGTCAAC
1 GGTCAAC
55218 GGTCAAC
1 GGTCAAC
55225 GGGTCAAC
1 -GGTCAAC
55233 GGTCAAC
1 GGTCAAC
55240 AGGTCAAC
1 -GGTCAAC
55248 GG
1 GG
55250 GTCGGTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:55230 original size:15 final size:15
Alignment explanation
Indices: 55210--55249 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
55200 TGGTCAATGA
55210 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
55225 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
*
55240 AGGTCAACGG
1 GGGTCAACGG
55250 GTCGGTCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.35, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:55231 original size:8 final size:8
Alignment explanation
Indices: 55210--55282 Score: 66
Period size: 8 Copynumber: 9.6 Consensus size: 8
55200 TGGTCAATGA
55210 GGGTCAAC
1 GGGTCAAC
55218 -GGTCAAC
1 GGGTCAAC
55225 GGGTCAAC
1 GGGTCAAC
55233 -GGTCAAC
1 GGGTCAAC
*
55240 AGGTCAAC
1 GGGTCAAC
**
55248 GGGTCGGTC
1 GGGTC-AAC
55257 GGGTCAAC
1 GGGTCAAC
*
55265 AGGT---C
1 GGGTCAAC
55270 GGGTCAAC
1 GGGTCAAC
55278 GGGTC
1 GGGTC
55283 GGGTCGGGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.08
7 14 0.27
8 28 0.54
9 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GGGTCAAC
Found at i:55271 original size:13 final size:13
Alignment explanation
Indices: 55253--55287 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
55243 TCAACGGGTC
55253 GGTCGGGTCAACA
1 GGTCGGGTCAACA
*
55266 GGTCGGGTCAACG
1 GGTCGGGTCAACA
55279 GGTCGGGTC
1 GGTCGGGTC
55288 GGGTTGTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (13 bp):
GGTCGGGTCAACA
Found at i:56168 original size:41 final size:41
Alignment explanation
Indices: 56093--56359 Score: 331
Period size: 41 Copynumber: 6.4 Consensus size: 41
56083 GAATTTACTA
* *
56093 TAGACTATCGCAA--CGAATTTGGAAAATCGTAACGACACTG
1 TAGACTATCGCAACGCGAA-ATGGAAAATCGCAACGACACTG
56133 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
1 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
* * * * *
56174 TACACGATCGCAATGCGAGATGGAAAATCGCAATGACACTG
1 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
* * *
56215 TACACTATAGTAACGCGAAATGGAAAATCGCAACGATCGCAATGACTG
1 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGA---C----ACTG
*
56263 TACACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
1 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
* *
56304 TAGACTATCGCAACACGAAATGGAAAATCGCAACGATACTG
1 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
56345 TAGACTATCGCAACG
1 TAGACTATCGCAACG
56360 ACACTGTAGA
Statistics
Matches: 199, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
40 13 0.07
41 142 0.71
42 4 0.02
44 1 0.01
45 1 0.01
48 38 0.19
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
TAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTG
Found at i:56286 original size:89 final size:89
Alignment explanation
Indices: 56170--56340 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
56160 TCGCAACGAC
* * * * *
56170 ACTGTACACGATCGCAATGCGAGATGGAAAATCGCAATGACACTGTACACTATAGTAACGCGAAA
1 ACTGTACACGATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATAGCAACACGAAA
56235 TGGAAAATCGCAACGATCGCAATG
66 TGGAAAATCGCAACGATCGCAATG
* * *
56259 ACTGTACACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACACGAAA
1 ACTGTACACGATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATAGCAACACGAAA
56324 TGGAAAATCGCAACGAT
66 TGGAAAATCGCAACGAT
56341 ACTGTAGACT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (89 bp):
ACTGTACACGATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATAGCAACACGAAA
TGGAAAATCGCAACGATCGCAATG
Found at i:56294 original size:20 final size:20
Alignment explanation
Indices: 56269--56338 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
56259 ACTGTACACT
56269 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
56289 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
*
56310 ATCGCAACACGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
56330 ATCGCAACG
1 ATCGCAACG
56339 ATACTGTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 17 0.45
21 9 0.24
22 3 0.08
23 3 0.08
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:56315 original size:21 final size:21
Alignment explanation
Indices: 56289--56380 Score: 109
Period size: 21 Copynumber: 4.4 Consensus size: 21
56279 GAAATGGAAA
56289 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
56310 ATCGCAAC-ACGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
*
56330 ATCGCAACGATACTGTAGACT
1 ATCGCAACGACACTGTAGACT
56351 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
56372 ATCGCAACG
1 ATCGCAACG
56381 CGAAATGCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.05
20 12 0.21
21 40 0.69
22 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:60334 original size:41 final size:41
Alignment explanation
Indices: 60285--60367 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
60275 GGTGTGAATG
60285 TTTTATGGAAAATATTTATTTGTATAAAATTAATATATATA
1 TTTTATGGAAAATATTTATTTGTATAAAATTAATATATATA
*
60326 TTTTATGGAAAATATTTATTTGTGTAAAATTAATATATATA
1 TTTTATGGAAAATATTTATTTGTATAAAATTAATATATATA
60367 T
1 T
60368 ATACACTCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (41 bp):
TTTTATGGAAAATATTTATTTGTATAAAATTAATATATATA
Found at i:60345 original size:18 final size:18
Alignment explanation
Indices: 60285--60346 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
60275 GGTGTGAATG
60285 TTTTATGGAAAATATTTA
1 TTTTATGGAAAATATTTA
**
60303 TTTGTATAAAATTAATATATATA
1 TTT-TATGGAA--AATAT-T-TA
60326 TTTTATGGAAAATATTTA
1 TTTTATGGAAAATATTTA
60344 TTT
1 TTT
60347 GTGTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 5 0.14
21 5 0.14
22 6 0.17
23 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (18 bp):
TTTTATGGAAAATATTTA
Found at i:69697 original size:21 final size:21
Alignment explanation
Indices: 69671--69710 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69661 GAAAAAATCA
*
69671 TTAAAAAAAGTTTTTTTGTAT
1 TTAAAAAAAGGTTTTTTGTAT
*
69692 TTAAAAAAGGGTTTTTTGT
1 TTAAAAAAAGGTTTTTTGT
69711 TTCAGTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
TTAAAAAAAGGTTTTTTGTAT
Found at i:71441 original size:4 final size:4
Alignment explanation
Indices: 71432--71460 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
71422 ATATTATGAC
71432 CATT CATT CATT CATT CATT CATT CATT C
1 CATT CATT CATT CATT CATT CATT CATT C
71461 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:76062 original size:29 final size:29
Alignment explanation
Indices: 76028--76086 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
76018 CCTAAATTAA
76028 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
76057 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
76086 T
1 T
76087 AGGTGGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:78394 original size:61 final size:62
Alignment explanation
Indices: 78299--78422 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 62
78289 GGGAATGTCG
78299 AATACGTCATCAATACACTTGTGCCAACACGCCACAACAG-ATGGTGTAGCGGAAAGAAAAA
1 AATACGTCATCAATACACTTGTGCCAACACGCCACAACAGAATGGTGTAGCGGAAAGAAAAA
78360 AATACGTCATCAATACACTTGTGCCAACACGCCACAACAGAATGGTGTAGCGGAAAGAAAAA
1 AATACGTCATCAATACACTTGTGCCAACACGCCACAACAGAATGGTGTAGCGGAAAGAAAAA
78422 A
1 A
78423 CTGACATCTT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 40 0.65
62 22 0.35
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (62 bp):
AATACGTCATCAATACACTTGTGCCAACACGCCACAACAGAATGGTGTAGCGGAAAGAAAAA
Found at i:80623 original size:28 final size:29
Alignment explanation
Indices: 80581--80638 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
80571 ACCTAAATAA
80581 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
80610 TTTGATG-CATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
80638 T
1 T
80639 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:82096 original size:26 final size:26
Alignment explanation
Indices: 82060--82111 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
82050 GACCTAGTTA
82060 TCACGCTTTTCTGTGATTCGAGACTC
1 TCACGCTTTTCTGTGATTCGAGACTC
82086 TCACGCTTTTCTGTGATTCGAGACTC
1 TCACGCTTTTCTGTGATTCGAGACTC
82112 ACTTCCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.38
Consensus pattern (26 bp):
TCACGCTTTTCTGTGATTCGAGACTC
Found at i:82386 original size:19 final size:20
Alignment explanation
Indices: 82364--82401 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
82354 ATCTAACAAA
*
82364 CTAACAAA-TTAATAACTGC
1 CTAACAAACTAAATAACTGC
82383 CTAACAAACTAAATAACTG
1 CTAACAAACTAAATAACTG
82402 AAATCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAACAAACTAAATAACTGC
Found at i:86865 original size:19 final size:20
Alignment explanation
Indices: 86843--86880 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
86833 ATCTAACAAA
*
86843 CTAACAAA-TTAATAACTGC
1 CTAACAAACTAAATAACTGC
86862 CTAACAAACTAAATAACTG
1 CTAACAAACTAAATAACTG
86881 AAATCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAACAAACTAAATAACTGC
Found at i:91762 original size:22 final size:22
Alignment explanation
Indices: 91734--91786 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
91724 TTATTGGTAG
91734 GGTAAAATTATATAAGTTTATA
1 GGTAAAATTATATAAGTTTATA
91756 GGTAAAATTATATAAGTTTATA
1 GGTAAAATTATATAAGTTTATA
*
91778 GTTAAAATT
1 GGTAAAATT
91787 TAAAAATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
GGTAAAATTATATAAGTTTATA
Found at i:92724 original size:17 final size:16
Alignment explanation
Indices: 92702--92766 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
92692 CCGTGTCTCG
*
92702 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
92719 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
*
92734 ACCCGGATTTTGCGGGT
1 ACCCGGATATT-CGGGT
*
92751 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
92766 A
1 A
92767 TCCGATACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 17 0.43
16 6 0.15
17 17 0.43
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:92734 original size:15 final size:15
Alignment explanation
Indices: 92714--92766 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
92704 CCGGATGTTA
92714 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
92729 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
92745 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
92761 CGGGTA
1 CGGGTA
92767 TCCGATACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 17 0.53
16 4 0.12
17 11 0.34
ACGTcount: A:0.17, C:0.25, G:0.36, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:92738 original size:32 final size:32
Alignment explanation
Indices: 92702--92766 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
92692 CCGTGTCTCG
92702 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
* *
92734 ACCCGGATTTTGCGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
92766 A
1 A
92767 TCCGATACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGGT
Found at i:94552 original size:18 final size:17
Alignment explanation
Indices: 94525--94599 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 17
94515 TCAGTATTCG
*
94525 TCCCGTAGGACTCCTACA
1 TCCCGAAGGACT-CTACA
94543 TCCCGAAGGA--CTACA
1 TCCCGAAGGACTCTACA
*
94558 TCCCGAAGGA--CTACG
1 TCCCGAAGGACTCTACA
*
94573 TCCCGAAGGA--CTACG
1 TCCCGAAGGACTCTACA
94588 TCCCGAAGGACT
1 TCCCGAAGGACT
94600 ATTATACCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
15 44 0.83
18 9 0.17
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.16
Consensus pattern (17 bp):
TCCCGAAGGACTCTACA
Found at i:94558 original size:15 final size:15
Alignment explanation
Indices: 94538--94600 Score: 108
Period size: 15 Copynumber: 4.2 Consensus size: 15
94528 CGTAGGACTC
94538 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
94553 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
94568 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
*
94583 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
94598 CTA
1 CTA
94601 TTATACCCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:94779 original size:12 final size:12
Alignment explanation
Indices: 94745--94779 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
94735 TATCATGTTC
**
94745 TCATATCACAGG
1 TCATATCACATA
94757 TCATATCACATA
1 TCATATCACATA
94769 TCATATCACAT
1 TCATATCACAT
94780 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:95879 original size:22 final size:22
Alignment explanation
Indices: 95838--95904 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
95828 CTCGTATAAA
95838 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
95861 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
95883 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
95905 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:97546 original size:21 final size:21
Alignment explanation
Indices: 97522--97566 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
97512 TCTTGTTCGT
* *
97522 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
97543 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
97564 TTG
1 TTG
97567 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:100738 original size:22 final size:22
Alignment explanation
Indices: 100697--100763 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
100687 CTCGTATAAA
100697 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
100720 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
100742 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
100764 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:102487 original size:20 final size:21
Alignment explanation
Indices: 102447--102490 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
102437 TCTTGTTCGT
*
102447 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
102468 TTGAATGGGTA-CGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
102488 TTG
1 TTG
102491 CCAGAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:103303 original size:64 final size:64
Alignment explanation
Indices: 103187--103331 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 64
103177 GGATGTTACA
* * * *
103187 TTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGGATGCATCGATGGACTAC
1 TTATGCATCGATGCACCAATTACATTCGATGTTTCATTATTAAAGAGATGCATCGATGCACTAC
** *
103251 TTATGCATCGATGCATGAATTACATTCGATGTTTTTATT-TTAAA-AGAGTGCATCGATGCACTA
1 TTATGCATCGATGCACCAATTACATTCGATG-TTTCATTATTAAAGAGA-TGCATCGATGCACTA
103314 C
64 C
** *
103315 CAATGCATCGATACACC
1 TTATGCATCGATGCACC
103332 TTCAAACAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.03
64 59 0.88
65 6 0.09
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (64 bp):
TTATGCATCGATGCACCAATTACATTCGATGTTTCATTATTAAAGAGATGCATCGATGCACTAC
Found at i:107193 original size:30 final size:30
Alignment explanation
Indices: 107157--107226 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
107147 TAGTCGCGAC
107157 CAACTCTATCAATGTTAAATATCATAGAAA
1 CAACTCTATCAATGTTAAATATCATAGAAA
107187 CAACTCTATCAATGTTAAATATCATAGAAA
1 CAACTCTATCAATGTTAAATATCATAGAAA
107217 CAACTCTATC
1 CAACTCTATC
107227 GAGTATTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (30 bp):
CAACTCTATCAATGTTAAATATCATAGAAA
Found at i:107278 original size:102 final size:102
Alignment explanation
Indices: 107097--107288 Score: 375
Period size: 102 Copynumber: 1.9 Consensus size: 102
107087 TAATCTTCGT
107097 TGTTAAATATCATAGAAACAACTCTATCGAGTATTGATAAAGCAGTACCCTAGTCGCGACCAACT
1 TGTTAAATATCATAGAAACAACTCTATCGAGTATTGATAAAGCAGTACCCTAGTCGCGACCAACT
*
107162 CTATCAATGTTAAATATCATAGAAACAACTCTATCAA
66 CTATCAATGCTAAATATCATAGAAACAACTCTATCAA
107199 TGTTAAATATCATAGAAACAACTCTATCGAGTATTGATAAAGCAGTACCCTAGTCGCGACCAACT
1 TGTTAAATATCATAGAAACAACTCTATCGAGTATTGATAAAGCAGTACCCTAGTCGCGACCAACT
107264 CTATCAATGCTAAATATCATAGAAA
66 CTATCAATGCTAAATATCATAGAAA
107289 ATGAATTATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (102 bp):
TGTTAAATATCATAGAAACAACTCTATCGAGTATTGATAAAGCAGTACCCTAGTCGCGACCAACT
CTATCAATGCTAAATATCATAGAAACAACTCTATCAA
Found at i:108129 original size:60 final size:59
Alignment explanation
Indices: 108058--108226 Score: 212
Period size: 60 Copynumber: 2.8 Consensus size: 59
108048 AATGACCATC
* * *
108058 TTATAATTTTTAATAGTCAAGGAACTCAACAAAGCAGCGTCATATAGTCAAGAGATCATT
1 TTATAATTTTTAATAGTCAAGG-ACTCAACAAAGCAACATCATATAGTCAAGAGATCAGT
* * *
108118 TTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCTATAGTCAAGAGATCAGT
1 TTATAATTTTTAATAGTC-AAGGACTCAACAAAGCAACATCATATAGTCAAGAGATCAGT
* * * * *
108178 TTGTAATTTTTAATAGTCAATGGACTCAATAAAACATCATCTTATAGTC
1 TTATAATTTTTAATAGTCAA-GGACTCAACAAAGCAACATCATATAGTC
108227 GGATGACCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 90 0.96
61 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (59 bp):
TTATAATTTTTAATAGTCAAGGACTCAACAAAGCAACATCATATAGTCAAGAGATCAGT
Found at i:110133 original size:342 final size:342
Alignment explanation
Indices: 109454--110292 Score: 1363
Period size: 341 Copynumber: 2.5 Consensus size: 342
109444 TAAATTTTGA
* * *
109454 AAAAATTATTGAATAATAATTCATTTGATCCCTCAATAGAAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
* *
109519 TTATATTTTTAAACAACTAATTTTAAAAGGTAATATTTTTTTCAAAAATATATGAAATTTATAAT
66 TTATATTTTTAAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAAT
* * * *
109584 TTTTTAAGTTATAAAATA-T-TTATCATCATCATCATCATCATTTTGTAAAAGAAATACTAGTTA
131 TTTTAAAATTATAAAATATTATTATTATCATCATCATCATCATCTTGTAAAAGAAATACTAGTTA
109647 TAAAACTTTTATAAAATTATTCATATTTTTAAAATACTTATCCTCAAAGTTTTTATATACTAGAT
196 TAAAACTTTTATAAAATTATTCATATTTTTAAAATACTTATCCTCAAAGTTTTTATATACTAGAT
* **
109712 TATATGTATTGTGTAATTTTAATGCAAAAATTTAAATAATTTTATTAAAAATGAATAAACATTAT
261 TATACGTATTGTGTAATTTTAATGCAAAAATCAAAATAATTTTATTAAAAATGAATAAACATTAT
*
109777 TAACTGTTGTTAAAAATT
326 TAACTATTGTTAAAAA-T
109795 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
109860 TTATATTTTTAAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAAATATATG-AATTTATAA
66 TTATATTTTTAAACAATTAATTTTAAAAGGTAATAATTTTTTC-AAAAATATATGAAATTTATAA
*
109924 -TTATAAAATTATAAAATATTTATTATTATCATCATCATCATCATCTTGTAAAAGAAATACTAGT
130 TTTTTAAAATTATAAAATA-TTATTATTATCATCATCATCATCATCTTGTAAAAGAAATACTAGT
* *
109988 TATAAAACTTTTATAAAATTATTCATA-TTTTAAAATACTTA-CTCTCAAAGTTTTTCTATATTA
194 TATAAAACTTTTATAAAATTATTCATATTTTTAAAATACTTATC-CTCAAAGTTTTTATATACTA
*
110051 TATTATACGTATTGTGTAATTTTAATGCAAAAATCAAAATAATTTTATTAAAAATGAATAAACAT
258 GATTATACGTATTGTGTAATTTTAATGCAAAAATCAAAATAATTTTATTAAAAATGAATAAACAT
110116 TATTAACTATTGTTAAAAAT
323 TATTAACTATTGTTAAAAAT
* * *
110136 AAAAATTAATGAATAATAATTCATTTAATCCCTTAATTATAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
*
110201 TTAAATATTTTTAAACAATTAATTTTAAAA--AAATAATTTTTTC-AAAATATATGAAATTTATA
66 TT--ATATTTTTAAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATA
*
110263 ATTTTTAAAATTATAAAAAATTATTATTAT
129 ATTTTTAAAATTATAAAATATTATTATTAT
110293 TAAAAATAAA
Statistics
Matches: 466, Mismatches: 23, Indels: 19
0.92 0.05 0.04
Matches are distributed among these distances:
339 10 0.02
340 34 0.07
341 206 0.44
342 123 0.26
343 93 0.20
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (342 bp):
AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
TTATATTTTTAAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAAT
TTTTAAAATTATAAAATATTATTATTATCATCATCATCATCATCTTGTAAAAGAAATACTAGTTA
TAAAACTTTTATAAAATTATTCATATTTTTAAAATACTTATCCTCAAAGTTTTTATATACTAGAT
TATACGTATTGTGTAATTTTAATGCAAAAATCAAAATAATTTTATTAAAAATGAATAAACATTAT
TAACTATTGTTAAAAAT
Found at i:111307 original size:16 final size:16
Alignment explanation
Indices: 111282--111326 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
111272 TAATAAATAA
111282 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
111298 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
111314 ACGAACATAAACG
1 ACGAACATAAACG
111327 TTGGAGACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:119347 original size:18 final size:19
Alignment explanation
Indices: 119324--119394 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 19
119314 TGAATATTTT
119324 TCCCGAAAG-ACCACTATG
1 TCCCGAAAGAACCACTATG
* * *
119342 TCCCG-AAGGATCACTGATTA
1 TCCCGAAAGAACCACT-A-TG
*
119362 TTCCG-AAGAACCACTATG
1 TCCCGAAAGAACCACTATG
119380 TCCC-AAAGAACCACT
1 TCCCGAAAGAACCACT
119395 GATAATCCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 3 0.07
18 24 0.57
19 2 0.05
20 13 0.31
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (19 bp):
TCCCGAAAGAACCACTATG
Found at i:120090 original size:64 final size:62
Alignment explanation
Indices: 119968--120101 Score: 148
Period size: 64 Copynumber: 2.1 Consensus size: 62
119958 CCCTTGACGG
* **
119968 GTGCATCGATGCACTTCCTATGCATCAGTGCATAAATCCCATTCGATGTTTGTAATTTAAGCA
1 GTGCATCGATGCACTTCCTATGCATCAGTGCATAAATCCCATTCAATGTTCATAATTTAAG-A
** *
120031 GTTGCATCGATGCAC-TCCTTATGCATC-GATGCACT-AATGGCATTCAATGTTCATTATTTAAG
1 G-TGCATCGATGCACTTCC-TATGCATCAG-TGCA-TAAATCCCATTCAATGTTCATAATTTAAG
120093 A
62 A
120094 GTGCATCG
1 GTGCATCG
120102 GTACACATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
62 7 0.11
63 7 0.11
64 46 0.75
65 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
GTGCATCGATGCACTTCCTATGCATCAGTGCATAAATCCCATTCAATGTTCATAATTTAAGA
Found at i:121154 original size:24 final size:24
Alignment explanation
Indices: 121103--121154 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
121093 GAATGATCAT
* * *
121103 AAACGAACATAACTGGACGAACAT
1 AAACGAACATAACCGAACGAACAC
**
121127 AAACGAACATAACCGAACGTTCAC
1 AAACGAACATAACCGAACGAACAC
121151 AAAC
1 AAAC
121155 ATAAATGAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.25, G:0.13, T:0.12
Consensus pattern (24 bp):
AAACGAACATAACCGAACGAACAC
Found at i:124447 original size:60 final size:60
Alignment explanation
Indices: 124316--124463 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 60
124306 GAACATGATG
* * * * *
124316 AATAGCCAGGTGATTATTTTATAATTTTTAATAGTCGAGGGACTCAACAAAGTAACTTTC
1 AATAGTCAGGGGATTATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGTAACTATC
* * * *
124376 AATAATAAGGGGATTATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGT-AGTATC
1 AATAGTCAGGGGATTATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGTAACTATC
* *
124435 TTATAGTCAGGGGACTATTTGTGT-ACTTT
1 -AATAGTCAGGGGATTATTT-TGTAACTTT
124464 AACCATAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 4 0.05
60 66 0.90
61 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (60 bp):
AATAGTCAGGGGATTATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGTAACTATC
Found at i:137105 original size:14 final size:14
Alignment explanation
Indices: 137088--137114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
137078 AAAAGAAAAA
137088 AAAGGGAAAAGGGC
1 AAAGGGAAAAGGGC
137102 AAAGGGAAAAGGG
1 AAAGGGAAAAGGG
137115 GTTAAAAAAA
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:0.52, C:0.04, G:0.44, T:0.00
Consensus pattern (14 bp):
AAAGGGAAAAGGGC
Found at i:162603 original size:30 final size:30
Alignment explanation
Indices: 162569--162641 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
162559 CTGCGACTAA
162569 CATTCATTTCATTATTTTACTAGAAAGGAC
1 CATTCATTTCATTATTTTACTAGAAAGGAC
*
162599 CATTCATTTCATTATTTTACTAGAAAGGAG
1 CATTCATTTCATTATTTTACTAGAAAGGAC
162629 CATTCATTTCATT
1 CATTCATTTCATT
162642 GTGCCTGAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (30 bp):
CATTCATTTCATTATTTTACTAGAAAGGAC
Found at i:178364 original size:12 final size:12
Alignment explanation
Indices: 178347--178375 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
178337 GTTTTTGACG
178347 GTTGAGTAATCA
1 GTTGAGTAATCA
178359 GTTGAGTAATCA
1 GTTGAGTAATCA
178371 GTTGA
1 GTTGA
178376 AATGGCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (12 bp):
GTTGAGTAATCA
Found at i:187668 original size:2 final size:2
Alignment explanation
Indices: 187661--187687 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
187651 TCACAAATGA
187661 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
187688 CCGAGTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:190881 original size:16 final size:16
Alignment explanation
Indices: 190856--190888 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
190846 TTAGCATTTG
*
190856 ATCTCCTTTATTGAAA
1 ATCTCATTTATTGAAA
190872 ATCTCATTTATTGAAA
1 ATCTCATTTATTGAAA
190888 A
1 A
190889 CTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
ATCTCATTTATTGAAA
Found at i:192117 original size:289 final size:294
Alignment explanation
Indices: 191635--192431 Score: 779
Period size: 289 Copynumber: 2.7 Consensus size: 294
191625 TAATCTTCTA
* * * * * **
191635 ATATATATGTTTAAACTCAATCGACTAAATCATCTAATATATAAATATTTTTTTATAAATGGTTG
1 ATATATATATTTAAACTCAATCGACTGAATCATCTAATATATAAACA-TTCTTTATAAAAGAATG
* * *
191700 CGCATGTGACGTTAATTTTATCGATTTATGCAATTATCTAATAAAATTATGTTTAAAAGTCAAAT
65 CACAT-TGACGTTAATTTAATCGATTTATGCAATTATCTAATAAAAATAT-TTTAAAAGTCAAAT
* * *
191765 ATTTAATGAATATATTTAAACTTAGCATTTGACATCCTTTATTAAAAACTTATATAAACATTCTT
128 ATTTAAT-AATATATCTAAACTTAGCATTTGACATCCTTTACTAAAAACTTACATAAACATTCTT
* * * * *
191830 TACT-AAGAAGTGTATATGTGTTGTCGGTATTTATCTAAGAAATCTATAGCTAAAATTCAATTCG
192 TA-TAAAGAAGTGTATATGTATCGTCGGTATTCATCTAAGAAATCTATAGCTAAAATTCAACTCA
**
191894 ATCAATTAATATAATATTCTA-AAAACATGCTTAAATTT
256 ATCAATTAATATAATATTCTATAAAACATGCTTAAAGAT
* * *
191932 ATATATATATATAAACTCAATCGACTGAATCATCTAACATATAAACATTCTTTATAAAAAAATGC
1 ATATATATATTTAAACTCAATCGACTGAATCATCTAATATATAAACATTCTTTATAAAAGAATGC
*
191997 ACATTGACGTTAATTTAATCGA-TTATGCAATTATCTAATAAAAATATTTTGAAAAGTCAAGTA-
66 ACATTGACGTTAATTTAATCGATTTATGCAATTATCTAATAAAAATATTTT-AAAAGTCAAATAT
* * * *
192060 TTAAT-ATAT-TCT-AATTTAGCATTTGATC-TCCTTTACTGAAAACTTACGTAGACATTCTTTA
130 TTAATAATATATCTAAACTTAGCATTTGA-CATCCTTTACTAAAAACTTACATAAACATTCTTTA
* * * * * *
192121 TAAAGATGTGTATATGTATCGTCTGTGTTCATCTAAGAAATCTATAGTTAGAATTTAACTCAATC
194 TAAAGAAGTGTATATGTATCGTCGGTATTCATCTAAGAAATCTATAGCTAAAATTCAACTCAATC
** * * ** *
192186 GGTTAATATAATCTTCTATTAAGTATGTTTAAAGAT
259 AATTAATATAATATTCTATAAAACATGCTTAAAGAT
* * ***
192222 AAACATATATGGTTAAACTCAATCGTA-TGAATCATC-AATATATAAACATTCTTTATAGGGGAA
1 ATATATATAT--TTAAACTCAATCG-ACTGAATCATCTAATATATAAACATTCTTTATAAAAGAA
* ** ** ** *
192285 TGCACATTTGACATTAATTTAATTAATTTATATAATTATCTAATAAAATATATTCAAAAAATCAA
63 TGCACA-TTGACGTTAATTTAATCGATTTATGCAATTATCTAATAAAA-ATATTTTAAAAGTCAA
* * * * * * * * ** * *
192350 GTATTTAATGAAGATGT-TGTAACATAGCATTTGACCTCTTTTATTGAAAATTTTATATAAACGT
126 ATATTTAAT-AATATATCT-AAACTTAGCATTTGACATCCTTTACT-AAAAACTTACATAAACAT
*
192414 TCTTTATAAAGAACTGTA
188 TCTTTATAAAGAAGTGTA
192432 CGTGTATTGT
Statistics
Matches: 411, Mismatches: 71, Indels: 34
0.80 0.14 0.07
Matches are distributed among these distances:
288 1 0.00
289 108 0.26
290 22 0.05
291 32 0.08
292 37 0.09
293 39 0.09
294 45 0.11
295 17 0.04
296 20 0.05
297 44 0.11
298 19 0.05
299 27 0.07
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (294 bp):
ATATATATATTTAAACTCAATCGACTGAATCATCTAATATATAAACATTCTTTATAAAAGAATGC
ACATTGACGTTAATTTAATCGATTTATGCAATTATCTAATAAAAATATTTTAAAAGTCAAATATT
TAATAATATATCTAAACTTAGCATTTGACATCCTTTACTAAAAACTTACATAAACATTCTTTATA
AAGAAGTGTATATGTATCGTCGGTATTCATCTAAGAAATCTATAGCTAAAATTCAACTCAATCAA
TTAATATAATATTCTATAAAACATGCTTAAAGAT
Found at i:192598 original size:38 final size:36
Alignment explanation
Indices: 192513--192604 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 36
192503 AAATATGTTT
* * * **
192513 AAAAAGTGCACTTATGAATATATAACTTTCTTTATA
1 AAAAAATGCACGTGTGAATATATAACACTCTTTATA
*
192549 AAACAATTGCACGTGTGAATATATAACCACTCTTTATTA
1 AAA-AAATGCACGTGTGAATATATAA-CACTCTTTA-TA
192588 AAAAAATGCACGTGTGA
1 AAAAAATGCACGTGTGA
192605 CGTTAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 3 0.06
37 19 0.40
38 20 0.43
39 5 0.11
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (36 bp):
AAAAAATGCACGTGTGAATATATAACACTCTTTATA
Found at i:196706 original size:33 final size:32
Alignment explanation
Indices: 196669--196756 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 32
196659 TGGAAATTTC
*
196669 ATCTTGGTTGGTAGCCAACTTATTGAAAAATT
1 ATCTTGGTTGGTGGCCAACTTATTGAAAAATT
* * * *
196701 AATCTTGATTGATGGCCAACTCATTGGAAAATT
1 -ATCTTGGTTGGTGGCCAACTTATTGAAAAATT
* *
196734 CT-TTGGTAGGTGGCCAACTTATT
1 ATCTTGGTTGGTGGCCAACTTATT
196757 TTTCATGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
31 17 0.38
32 1 0.02
33 27 0.60
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (32 bp):
ATCTTGGTTGGTGGCCAACTTATTGAAAAATT
Found at i:200644 original size:22 final size:22
Alignment explanation
Indices: 200616--200705 Score: 155
Period size: 22 Copynumber: 4.1 Consensus size: 22
200606 ATTGTCCAAA
*
200616 GCTGAAGAAGAAAGAAAAAGCT
1 GCTGAAGAAGAAAGGAAAAGCT
200638 GCTGAAGAAGAAAGGAAAAGCT
1 GCTGAAGAAGAAAGGAAAAGCT
200660 GCTGAAGAAGAAA-GAAAAGCT
1 GCTGAAGAAGAAAGGAAAAGCT
*
200681 GCTGAAGAAAAAAGGAAAAGCT
1 GCTGAAGAAGAAAGGAAAAGCT
200703 GCT
1 GCT
200706 CTAGATGTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 20 0.31
22 45 0.69
ACGTcount: A:0.51, C:0.10, G:0.29, T:0.10
Consensus pattern (22 bp):
GCTGAAGAAGAAAGGAAAAGCT
Found at i:200695 original size:43 final size:44
Alignment explanation
Indices: 200616--200705 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 44
200606 ATTGTCCAAA
*
200616 GCTGAAGAAGAAAGAAAAAGCTGCTGAAGAAGAAAGGAAAAGCT
1 GCTGAAGAAGAAAGAAAAAGCTGCTGAAGAAAAAAGGAAAAGCT
200660 GCTGAAGAAGAAAG-AAAAGCTGCTGAAGAAAAAAGGAAAAGCT
1 GCTGAAGAAGAAAGAAAAAGCTGCTGAAGAAAAAAGGAAAAGCT
200703 GCT
1 GCT
200706 CTAGATGTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 31 0.69
44 14 0.31
ACGTcount: A:0.51, C:0.10, G:0.29, T:0.10
Consensus pattern (44 bp):
GCTGAAGAAGAAAGAAAAAGCTGCTGAAGAAAAAAGGAAAAGCT
Found at i:203458 original size:23 final size:23
Alignment explanation
Indices: 203432--203500 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
203422 CACCACAGCT
* *
203432 CATATAAATGTACCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* * *
203455 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
* * *
203478 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
203501 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:203687 original size:103 final size:103
Alignment explanation
Indices: 203516--203733 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
203506 TAATGTCCAT
* *
203516 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
203581 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
*
203619 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
203684 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
203722 AAGGACCACATA
1 AAGGACCACATA
203734 GACCCTCGAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
Found at i:206958 original size:33 final size:33
Alignment explanation
Indices: 206910--207009 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 33
206900 GTTTGACAAG
* *
206910 ATTGGAAATTTAATCTTGGTTGGTGGCCAACTT
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACTT
* * *
206943 ATTGAAAAATTAATCTTGGTCGGTGGCCAACTC
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACTT
206976 ATTGGAAAATT-AT-TTGGTAGGTGGCCAACTT
1 ATTGGAAAATTAATCTTGGTAGGTGGCCAACTT
207007 ATT
1 ATT
207010 TTTCATGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.32
32 2 0.03
33 39 0.65
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (33 bp):
ATTGGAAAATTAATCTTGGTAGGTGGCCAACTT
Found at i:212488 original size:64 final size:63
Alignment explanation
Indices: 212420--212647 Score: 201
Period size: 64 Copynumber: 3.6 Consensus size: 63
212410 TTGAAGGTGT
* * *
212420 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAAAATAAATACATCGAATGTAATTCGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCA-TACTTTTAAAATAAA-ACATCGAATGCAATTAGTGC
* * ** ** *
212484 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCAAATGCAATTAGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATACTTTTAA-AATAAAACATCGAATGCAATTAGTGC
* * ** * * * *
212548 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTGATAATACAACATCGAATGCATTTTA-TG
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT-ACTTTTAAAATAAAACATCGAATGCA-ATTAGTG
212611 C
63 C
* *
212612 ACCGATGCATCGGTAGTGCATCGATGCATACTTTTA
1 ATCGATGCATAGGTAGTGCATCGATGCATACTTTTA
212648 TTGAAAGATG
Statistics
Matches: 131, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
63 7 0.05
64 110 0.84
65 14 0.11
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (63 bp):
ATCGATGCATAGGTAGTGCATCGATGCATACTTTTAAAATAAAACATCGAATGCAATTAGTGC
Found at i:213868 original size:31 final size:32
Alignment explanation
Indices: 213815--213932 Score: 145
Period size: 32 Copynumber: 3.8 Consensus size: 32
213805 GTTCTACGGA
* *
213815 ACATATCGACAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGTATTACCTATGTCTTTCGAG
***
213847 ACATATGGACAGTA-TACCTATGTTCTAAGGA-
1 ACATATGGACAGTATTACCTATG-TCTTTCGAG
213878 ACATATGGACA-TAATTACCTATGTCTTTCGAG
1 ACATATGGACAGT-ATTACCTATGTCTTTCGAG
213910 ACATATGGACAGTA-TACCTATGT
1 ACATATGGACAGTATTACCTATGT
213933 TCTAAGGAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
30 1 0.01
31 34 0.47
32 37 0.51
33 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (32 bp):
ACATATGGACAGTATTACCTATGTCTTTCGAG
Found at i:213894 original size:63 final size:63
Alignment explanation
Indices: 213795--213960 Score: 280
Period size: 63 Copynumber: 2.7 Consensus size: 63
213785 AGAGTCGAGG
* *
213795 GTATACCTATGTTCTACGGAACATATCGACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATAGACAGAATTACCTATGTCTTTCGAGACATATGGACA
* *
213858 GTATACCTATGTTCTAAGGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATAGACAGAATTACCTATGTCTTTCGAGACATATGGACA
*
213921 GTATACCTATGTTCTAAGGAACATATAGACAG-TTTACCTA
1 GTATACCTATGTTCTAAGGAACATATAGACAGAATTACCTA
213961 GGTTCTTCGG
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 7 0.07
63 90 0.93
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTAAGGAACATATAGACAGAATTACCTATGTCTTTCGAGACATATGGACA
Found at i:213945 original size:31 final size:31
Alignment explanation
Indices: 213795--213984 Score: 179
Period size: 31 Copynumber: 6.1 Consensus size: 31
213785 AGAGTCGAGG
* *
213795 GTATACCTATGTTCTACGGAACATATCGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* ***
213826 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAAGGA-ACATATGGACA
213858 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
***
213889 -TAATTACCTATG-TCTTTCGAGACATATGGACA
1 GT-A-TACCTATGTTCTAAGGA-ACATATGGACA
*
213921 GTATACCTATGTTCTAAGGAACATATAGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* * ** *
213952 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
213983 GT
1 GT
213985 TGCCGAGGAT
Statistics
Matches: 129, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
30 1 0.01
31 77 0.60
32 50 0.39
33 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTAAGGAACATATGGACA
Found at i:214032 original size:30 final size:30
Alignment explanation
Indices: 213972--214043 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
213962 GTTCTTCGGA
* * * *
213972 ACCTATGGACAGTTGCCGAGGATTTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
*
214002 ACCTCTGGATAGTTACCGATGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
214032 ACCTCTGGATAG
1 ACCTCTGGATAG
214044 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:222143 original size:22 final size:20
Alignment explanation
Indices: 222093--222137 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
222083 ATTTAATACA
*
222093 ATATTAGTGTATAAATCTAT
1 ATATAAGTGTATAAATCTAT
222113 ATATAAGTGTATAAATCTAT
1 ATATAAGTGTATAAATCTAT
222133 ATATA
1 ATATA
222138 TAAGTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (20 bp):
ATATAAGTGTATAAATCTAT
Found at i:230309 original size:2 final size:2
Alignment explanation
Indices: 230302--230328 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
230292 ATAATAAAAT
230302 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
230329 TTCTTACTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:230392 original size:16 final size:15
Alignment explanation
Indices: 230357--230397 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
230347 TAATCACTTG
*
230357 ATAAAAATACTTTTT
1 ATAAAAATATTTTTT
*
230372 ATAAATATATTTTTAT
1 ATAAAAATATTTTT-T
230388 ATAAAAATAT
1 ATAAAAATAT
230398 GTTTGATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAAAAATATTTTTT
Found at i:233517 original size:117 final size:117
Alignment explanation
Indices: 233306--233531 Score: 362
Period size: 117 Copynumber: 1.9 Consensus size: 117
233296 CTTGTTGTAA
* *
233306 AATAATGAATTCTATTATTGATCAATGAAATATTAATCTATCTTGTTATTTATAACTATTAATTT
1 AATAACGAATTCTATTATTGATCAATGAAATATTAATCTATCTAGTTATTTATAACTATTAATTT
* * **
233371 TAAATGACCAGACCTCTGTATTCGGTAAGTATAGTGTTACACCACTGTATTT
66 TAAACGACCAGACCACTGTATTCAATAAGTATAGTGTTACACCACTGTATTT
* * *
233423 AATAACGAATTCTATTATTGATCAATTAAATGTTAATCTATCTAGTTATTTATAGCTATTAATTT
1 AATAACGAATTCTATTATTGATCAATGAAATATTAATCTATCTAGTTATTTATAACTATTAATTT
*
233488 TAAACGGCCAGACCACTGTATTCAATAAGTATAGTGTTACACCA
66 TAAACGACCAGACCACTGTATTCAATAAGTATAGTGTTACACCA
233532 GGTTATATGC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 99 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (117 bp):
AATAACGAATTCTATTATTGATCAATGAAATATTAATCTATCTAGTTATTTATAACTATTAATTT
TAAACGACCAGACCACTGTATTCAATAAGTATAGTGTTACACCACTGTATTT
Found at i:238228 original size:69 final size:69
Alignment explanation
Indices: 238140--238576 Score: 481
Period size: 69 Copynumber: 6.3 Consensus size: 69
238130 AATTGTTTTT
* * ** * * *
238140 GATTCTGTTCCGAGCACCCCTGCAAATGCAGGTGACATGTTCAATGGGAAGAGCTT-ATCTATTT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCATCT-TTT
238204 TTGCA
65 TTGCA
* * * * *
238209 GACTCTGTTCCAAGCACCCCTGCTTTTGCAGATAACATGTTCAAGGGGAAGGGC-TCATCTGTTT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCATCT-TTT
238273 TTGCA
65 TTGCA
** * ** *
238278 GATTCTGTTCCAAGCACTCCTGCCTACACGGATAACATGTTCAAGGGTCAGAG-TTCATCCTTGT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCAT-CTTTT
238342 TTGCA
65 TTGCA
* * * ** *
238347 GATTCTGTTCCAAGCACTCCTGCCTATGCGGATAACACGTTCAAGAGTCAGAG-TTCATCCTTGT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCAT-CTTTT
238411 TTGCA
65 TTGCA
* * *
238416 GATTCTGTTCCAAGTACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGA-CTTCATCCATAT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCAT-CTTTT
238480 TTGCA
65 TTGCA
* *
238485 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGCAGAGC-TCGTCTCTTT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCATCT-TTT
*
238549 TTGCG
65 TTGCA
* * *
238554 GACTCTGTTCCGAGCACCCCTGC
1 GATTCTGTTCCAAGCACTCCTGC
238577 TTATCATCAT
Statistics
Matches: 320, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.01
69 315 0.98
70 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (69 bp):
GATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCTTCATCTTTTT
TGCA
Found at i:238495 original size:207 final size:207
Alignment explanation
Indices: 238203--238576 Score: 545
Period size: 207 Copynumber: 1.8 Consensus size: 207
238193 CTTATCTATT
* * *
238203 TTTGCAGACTCTGTTCCAAGCACCCCTGCTTTTGCAGATAACATGTTCAAGGGGAAGGGCTCATC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGGGAAGGACTCATC
** * * * *
238268 TGTTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTACACGGATAACATGTTCAAGGGTCAGAGTT
66 CATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTACACAGATAACATGTTCAAGGGGCAGAGCT
* *
238333 CATC-CTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCGGATAACACGTTCAAGAGTCA
131 CATCTCTT-TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACACGTTCAAGAGTCA
238397 GAGTTCATCCTTG
195 GAGTTCATCCTTG
* * *
238410 TTTGCAGATTCTGTTCCAAGTACTCCTGCCTATGCAGATAACATGTTCAAGGGGAA-GACTTCAT
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGGGAAGGAC-TCAT
**
238474 CCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGCAGAGC
65 CCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTACACAGATAACATGTTCAAGGGGCAGAGC
* * *
238539 TCGTCTCTTTTTGCGGACTCTGTTCCGAGCACCCCTGC
130 TCATCTCTTTTTGCAGACTCTGTTCCAAGCACCCCTGC
238577 TTATCATCAT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
206 2 0.01
207 141 0.97
208 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (207 bp):
TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGGGAAGGACTCATC
CATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTACACAGATAACATGTTCAAGGGGCAGAGCT
CATCTCTTTTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACACGTTCAAGAGTCAG
AGTTCATCCTTG
Found at i:249022 original size:16 final size:16
Alignment explanation
Indices: 249001--249045 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
248991 GGGTCTCCAA
249001 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
249017 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
249033 CGTTTATGTTCGT
1 CGTTTATGTTCGT
249046 TTATTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:253407 original size:125 final size:126
Alignment explanation
Indices: 253078--253799 Score: 1279
Period size: 125 Copynumber: 5.8 Consensus size: 126
253068 ATATAATCGG
*
253078 TTCACTATTCACATGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA--T
253143 TATCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
253205 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
253270 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
253331 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
253395 TCATTGCCCTATTATGTCATTCAT-TCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
253455 TTCACTATTC-CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
253519 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGACATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
253580 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG-CTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
253644 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGA-ATATCAGTACCTATTA-
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
253703 TTCACTATTCACATGAAGGCGCGTT-CC-GGGACGCGCCTTCCATTATTTCGTCAGAGAATAGTT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TT
253766 ATCATTGCCCTA-T-TGTCACTCATGTCCC-CGGGGA
65 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
253800 ATAACTTAAA
Statistics
Matches: 584, Mismatches: 5, Indels: 19
0.96 0.01 0.03
Matches are distributed among these distances:
120 6 0.01
121 22 0.04
122 27 0.05
123 90 0.15
124 88 0.15
125 173 0.30
126 117 0.20
127 61 0.10
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:253520 original size:249 final size:252
Alignment explanation
Indices: 253078--253799 Score: 1288
Period size: 249 Copynumber: 2.9 Consensus size: 252
253068 ATATAATCGG
*
253078 TTCACTATTCACATGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA--T
253143 TATCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTT
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTT
253207 CACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATC
129 CACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATC
*
253272 ATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
194 ATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGACATATCAGTACCTATTAT
253331 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
253395 TCATTGCCCTATTATGTCATTCAT-TCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
253459 CTATTC-CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
253523 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGACATATCAGTACCTATTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGACATATCAGTACCTATTAT
253580 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG-CTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
253644 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGA-ATATCAGTACCTATTA-TTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
*
253707 CTATTCACATGAAGGCGCGTT-CC-GGGACGCGCCTTCCATTATTTCGTCAGAGAATAGTTATCA
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TTATCA
*
253770 TTGCCCTA-T-TGTCACTCATGTCCC-CGGGGA
195 TTGCCCTATTATGTCATTCATGTCCCTCGGGGA
253800 ATAACTTAAA
Statistics
Matches: 458, Mismatches: 6, Indels: 18
0.95 0.01 0.04
Matches are distributed among these distances:
245 6 0.01
246 14 0.03
247 33 0.07
248 50 0.11
249 212 0.46
250 82 0.18
253 61 0.13
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGACATATCAGTACCTATTAT
Found at i:254863 original size:20 final size:20
Alignment explanation
Indices: 254796--254863 Score: 100
Period size: 21 Copynumber: 3.3 Consensus size: 20
254786 GGTATAAAAC
*
254796 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
254816 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
254837 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
254858 CCTGCG
1 CCTGCG
254864 AAGATGGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.20
21 32 0.73
22 3 0.07
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:255652 original size:207 final size:210
Alignment explanation
Indices: 255291--255707 Score: 797
Period size: 207 Copynumber: 2.0 Consensus size: 210
255281 TTATATCTAA
255291 ATTTTAAATTAAAATATTAATAATAAACAAATTTAAAAACATACCTCAGACCCAGCTTTCGTATC
1 ATTTTAAATTAAAATATTAATAATAAACAAATTTAAAAACATACCTCAGACCCAGCTTTCGTATC
255356 AATAAGTAAACGAATTTCCTCTAACCCAGTAGGTATACTTTTATGGTCCTTTCTTTTCATCGACC
66 AATAAGTAAACGAATTTCCTCTAACCCAGTAGGTATACTTTTATGGTCCTTTCTTTTCATCGACC
255421 ACCTATGAAATATAATATAAACTAAATATCACCCTATTTAATTGAAAATA-TTAAATTAAAATTT
131 ACCTATGAAATATAATATAAACTAAATATCACCCTATTTAATTGAAAATATTTAAATTAAAATTT
255485 AGTTCG-AAATTACC
196 AGTTCGAAAATTACC
255499 ATTTT-AATTAAAATATTAATAATTAAACAAA-TTAAAAACATACCTCAGACCCAGCTTTCGTAT
1 ATTTTAAATTAAAATATTAATAA-TAAACAAATTTAAAAACATACCTCAGACCCAGCTTTCGTAT
255562 CAATAAGTAAACGAATTTCCTCTAACCCAGTAGGTATACTTTTATGGTCCTTTCTTTTCATCGAC
65 CAATAAGTAAACGAATTTCCTCTAACCCAGTAGGTATACTTTTATGGTCCTTTCTTTTCATCGAC
255627 CACCTATGAAATATAATATAAACTAAATATCACCCTATTTAATTGAAAATATTTAAATTAAAATT
130 CACCTATGAAATATAATATAAACTAAATATCACCCTATTTAATTGAAAATATTTAAATTAAAATT
255692 TAGTTCGAAAATTACC
195 TAGTTCGAAAATTACC
255708 TCAACAATAA
Statistics
Matches: 206, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
207 165 0.80
208 33 0.16
209 8 0.04
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (210 bp):
ATTTTAAATTAAAATATTAATAATAAACAAATTTAAAAACATACCTCAGACCCAGCTTTCGTATC
AATAAGTAAACGAATTTCCTCTAACCCAGTAGGTATACTTTTATGGTCCTTTCTTTTCATCGACC
ACCTATGAAATATAATATAAACTAAATATCACCCTATTTAATTGAAAATATTTAAATTAAAATTT
AGTTCGAAAATTACC
Found at i:256522 original size:34 final size:30
Alignment explanation
Indices: 256478--256554 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 30
256468 TTATAATTTC
* *
256478 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAAT-ATTACATAAATA-TA--TTAA
256512 TAAAAAAATAAT-TTACATAAATATATTAA
1 TAAAAAAATAATATTACATAAATATATTAA
256541 TATAAAAAATAATA
1 TA-AAAAAATAATA
256555 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 6 0.15
30 10 0.26
31 2 0.05
32 10 0.26
34 11 0.28
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAAAAAATAATATTACATAAATATATTAA
Found at i:256523 original size:31 final size:29
Alignment explanation
Indices: 256481--256553 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 29
256471 TAATTTCTAA
* *
256481 ATAAATAATAATTATATAAATATTATTTTAAT
1 ATAAAAAATAATTACATAAATA-TA--TTAAT
256513 A-AAAAAATAATTTACATAAATATATTAAT
1 ATAAAAAATAA-TTACATAAATATATTAAT
256542 ATAAAAAATAAT
1 ATAAAAAATAAT
256554 ACTATTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 7 0.19
30 9 0.24
31 10 0.27
32 11 0.30
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
ATAAAAAATAATTACATAAATATATTAAT
Found at i:265824 original size:13 final size:13
Alignment explanation
Indices: 265806--265832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
265796 TTACATACGC
265806 GCATATGAAGACT
1 GCATATGAAGACT
265819 GCATATGAAGACT
1 GCATATGAAGACT
265832 G
1 G
265833 TTCAACTATG
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:266240 original size:10 final size:10
Alignment explanation
Indices: 266225--266251 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
266215 TTTTTGAAGG
266225 TGTTCGTGTT
1 TGTTCGTGTT
266235 TGTTCGTGTT
1 TGTTCGTGTT
266245 TGTTCGT
1 TGTTCGT
266252 TTAGCATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.30, T:0.59
Consensus pattern (10 bp):
TGTTCGTGTT
Found at i:267588 original size:18 final size:18
Alignment explanation
Indices: 267565--267613 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
267555 CTTTGTGGCC
267565 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
267583 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
267601 GAAGCGTGAGATT
1 GAAGCGTGAGATT
267614 TGTTGTATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:271044 original size:8 final size:8
Alignment explanation
Indices: 271020--271695 Score: 176
Period size: 8 Copynumber: 89.5 Consensus size: 8
271010 ATATTAATAA
271020 TAATTATT
1 TAATTATT
271028 TAA--ATT
1 TAATTATT
271034 TAATTATT
1 TAATTATT
*
271042 TAA--CTT
1 TAATTATT
*
271048 TAATGATT
1 TAATTATT
*
271056 TAA-TA-A
1 TAATTATT
271062 TAATTATT
1 TAATTATT
*
271070 TAA--CTT
1 TAATTATT
*
271076 TAATGATT
1 TAATTATT
*
271084 TAA-TA-A
1 TAATTATT
271090 TAATTACTT
1 TAATTA-TT
*
271099 TAATGATT
1 TAATTATT
*
271107 TAA--CTT
1 TAATTATT
*
271113 TAATGATT
1 TAATTATT
*
271121 TAA-TA-A
1 TAATTATT
271127 TAATTACTT
1 TAATTA-TT
*
271136 TAATGATT
1 TAATTATT
271144 TAA-T-TT
1 TAATTATT
*
271150 TAATGATT
1 TAATTATT
*
271158 TAA-TA-A
1 TAATTATT
271164 TAATTACTT
1 TAATTA-TT
*
271173 TAATGATT
1 TAATTATT
271181 TAA-T-TT
1 TAATTATT
*
271187 TAATGATT
1 TAATTATT
*
271195 TAATGATT
1 TAATTATT
*
271203 TAA--CTT
1 TAATTATT
271209 TAATTATT
1 TAATTATT
*
271217 TAA-TA-A
1 TAATTATT
271223 TAATTACTT
1 TAATTA-TT
*
271232 TAATGATT
1 TAATTATT
*
271240 TAATGATT
1 TAATTATT
*
271248 TAATGATT
1 TAATTATT
*
271256 TAA-TA-A
1 TAATTATT
271262 TAATTACTT
1 TAATTA-TT
*
271271 TAATGATT
1 TAATTATT
*
271279 TAA--CTT
1 TAATTATT
*
271285 TAATGATT
1 TAATTATT
*
271293 TAA-TA-A
1 TAATTATT
271299 TAATTATT
1 TAATTATT
*
271307 TAA--CTT
1 TAATTATT
*
271313 TAATGA-T
1 TAATTATT
*
271320 TAA-TA-A
1 TAATTATT
271326 TAATTACTT
1 TAATTA-TT
*
271335 TAATGATT
1 TAATTATT
271343 TAA-T-TT
1 TAATTATT
*
271349 TAATGATT
1 TAATTATT
*
271357 TAA-TA-A
1 TAATTATT
271363 TAATTACTT
1 TAATTA-TT
*
271372 TAATGATT
1 TAATTATT
271380 TAA-T-TT
1 TAATTATT
*
271386 TAATGATT
1 TAATTATT
*
271394 TAA-TA-A
1 TAATTATT
271400 TAATTACTT
1 TAATTA-TT
*
271409 TAATGATT
1 TAATTATT
271417 TAA-T-TT
1 TAATTATT
*
271423 TAATGATT
1 TAATTATT
*
271431 TAATGATT
1 TAATTATT
*
271439 TAA--CTT
1 TAATTATT
*
271445 TAATGATT
1 TAATTATT
*
271453 TAA-TA-A
1 TAATTATT
*
271459 TAATTACT
1 TAATTATT
*
271467 TAATGATT
1 TAATTATT
*
271475 TAATGATT
1 TAATTATT
*
271483 TAATGATT
1 TAATTATT
*
271491 TAA-TA-A
1 TAATTATT
271497 TAATTACTT
1 TAATTA-TT
*
271506 TAATGATT
1 TAATTATT
*
271514 TAATGATT
1 TAATTATT
*
271522 TAATGATT
1 TAATTATT
*
271530 TAATGATT
1 TAATTATT
*
271538 TAA-TA-A
1 TAATTATT
271544 TAATTACTT
1 TAATTA-TT
*
271553 TAATGATT
1 TAATTATT
271561 TAACTTTAATGCT
1 TAA--TT-AT--T
* *
271574 TAAATA-A
1 TAATTATT
271581 TAATTACTT
1 TAATTA-TT
*
271590 TAATGATT
1 TAATTATT
*
271598 TAATGATT
1 TAATTATT
*
271606 TAATGATT
1 TAATTATT
*
271614 TAA-TA-A
1 TAATTATT
271620 TAATTACTT
1 TAATTA-TT
*
271629 TAATGATT
1 TAATTATT
271637 TAA-T-TT
1 TAATTATT
*
271643 TAATAATT
1 TAATTATT
*
271651 TAATAATAAT
1 TAAT--TATT
*
271661 TACTTAATT
1 TAATT-ATT
*
271670 TAATGATT
1 TAATTATT
271678 TAA-T-TT
1 TAATTATT
*
271684 TAATGATT
1 TAATTATT
271692 TAAT
1 TAAT
271696 AATAATTACT
Statistics
Matches: 495, Mismatches: 94, Indels: 158
0.66 0.13 0.21
Matches are distributed among these distances:
6 119 0.24
7 51 0.10
8 246 0.50
9 65 0.13
10 7 0.01
11 3 0.01
13 4 0.01
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (8 bp):
TAATTATT
Found at i:271109 original size:37 final size:37
Alignment explanation
Indices: 271062--271533 Score: 368
Period size: 37 Copynumber: 12.7 Consensus size: 37
271052 GATTTAATAA
*
271062 TAATTATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
271099 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
*
271136 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
* *
271173 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATT-ACTT
* * * * *
271209 TAATTATTTAA-TAATAATTACTTTAATGATTTAATGA-TT
1 TAATGATTTAACT-TTAATGA-TTTAAT-A-ATAATTACTT
* * *
271248 TAATGATTTAA-TAATAATTACTTTAATGAT--TTAACTT
1 TAATGATTTAACT-TTAATGA-TTTAATAATAATT-ACTT
* * * *
271285 TAATGATTTAA-TAATAATTATTTAACTTTAATGATTA--A
1 TAATGATTTAACT-TTAATGATTTAA---TAATAATTACTT
* ** *
271323 TAAT-AATT-ACTTTAATGATTTAATTTTAATGA-TT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
* ** *
271357 TAATAATAATT-ACTTTAATGATTTAATTTTAATGA-TT
1 TAATGAT--TTAACTTTAATGATTTAATAATAATTACTT
* ** *
271394 TAATAATAATT-ACTTTAATGATTTAATTTTAATGA-TT
1 TAATGAT--TTAACTTTAATGATTTAATAATAATTACTT
271431 TAATGATTTAACTTTAATGATTTAATAATAATTAC-T
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
*
271467 TAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAA--CTTTAATGATTTAATAATAATTACTT
*
271506 TAATGATTTAATGATTTAATGATTTAAT
1 TAATGATTTAA--CTTTAATGATTTAAT
271534 GATTTAATAA
Statistics
Matches: 382, Mismatches: 29, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
33 5 0.01
34 4 0.01
35 7 0.02
36 69 0.18
37 204 0.53
38 27 0.07
39 61 0.16
40 2 0.01
41 3 0.01
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATGATTTAACTTTAATGATTTAATAATAATTACTT
Found at i:271511 original size:23 final size:22
Alignment explanation
Indices: 271111--271541 Score: 85
Period size: 23 Copynumber: 18.3 Consensus size: 22
271101 ATGATTTAAC
*
271111 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATAATAATGA
**
271133 CTTTAATGATTTAATTTTAATGA
1 -TTTAATGATTTAATAATAATGA
* * *
271156 TTTAATAATAATTACT-TTAATGA
1 TTTAATGAT--TTAATAATAATGA
*
271179 TTTAAT--TTTAATGATTTAATGATTTAA
1 TTTAATGATTTAAT-A-ATAATG-----A
* *
271206 CTTTAATTATTTAATAATAATTA
1 -TTTAATGATTTAATAATAATGA
*
271229 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT-A-ATAATGA
* * * *
271254 TTTAATAATAATTACTTTAATGATTTAA
1 TTTAATGAT--TTA--ATAAT-A-ATGA
*
271282 CTTTAATGATTTAATAATAATTA
1 -TTTAATGATTTAATAATAATGA
* *
271305 TTTAACTTTAATGATTAATAATAATTA
1 TTTAA---TGAT--TTAATAATAATGA
**
271332 CTTTAATGATTTAATTTTAATGA
1 -TTTAATGATTTAATAATAATGA
* * *
271355 TTTAATAATAATTACT-TTAATGA
1 TTTAATGAT--TTAATAATAATGA
*
271378 TTTAAT--TTTAATGATTTAAT-A
1 TTTAATGATTTAAT-A-ATAATGA
* * *
271399 -ATAATTACTTTAATGATTTAAT--
1 TTTAATGA-TTTAAT-A-ATAATGA
* * *
271421 TTTAATGATTTAATGAT-TTAA
1 TTTAATGATTTAATAATAATGA
*
271442 CTTTAATGATTTAATAATAATTA
1 -TTTAATGATTTAATAATAATGA
* *
271465 CTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-ATAATGA
* * *
271489 TTTAATAATAATTACT-TTAATGA
1 TTTAATGAT--TTAATAATAATGA
*
271512 TTTAATGATTTAATGATTTAATGA
1 TTTAATGATTTAAT-A-ATAATGA
271536 TTTAAT
1 TTTAAT
271542 AATAATTACT
Statistics
Matches: 315, Mismatches: 45, Indels: 95
0.69 0.10 0.21
Matches are distributed among these distances:
19 9 0.03
20 5 0.02
21 7 0.02
22 67 0.21
23 109 0.35
24 43 0.14
25 15 0.05
26 8 0.03
27 19 0.06
28 18 0.06
29 9 0.03
30 6 0.02
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (22 bp):
TTTAATGATTTAATAATAATGA
Found at i:271580 original size:37 final size:37
Alignment explanation
Indices: 271299--271706 Score: 494
Period size: 37 Copynumber: 11.0 Consensus size: 37
271289 GATTTAATAA
* *
271299 TAATTATTTAACTTTAATGA-TTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
271335 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
271372 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
271409 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATT-ACTT
** * * * *
271445 TAATGATTTAATAATAATTACTTAATGATTTAATGA-TT
1 TAATGATTTAATTTTAATGATTTAAT-A-ATAATTACTT
* * * *
271483 TAATGATTTAA---TAAT-AATTACT-TTAATGA-TT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
271514 TAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
* * *
271553 TAATGATTTAACTTTAATGCTTAAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
271590 TAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
*
271629 TAATGATTTAATTTTAATAATTTAATAATAATTACTTAATT
1 TAATGATTTAATTTTAATGATTTAATAATAATTAC----TT
271670 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
271707 GACTTTAATG
Statistics
Matches: 328, Mismatches: 24, Indels: 39
0.84 0.06 0.10
Matches are distributed among these distances:
31 20 0.06
34 5 0.02
35 6 0.02
36 48 0.15
37 144 0.44
38 19 0.06
39 49 0.15
40 1 0.00
41 36 0.11
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATGATTTAATTTTAATGATTTAATAATAATTACTT
Found at i:271646 original size:23 final size:23
Alignment explanation
Indices: 271044--271360 Score: 83
Period size: 23 Copynumber: 13.3 Consensus size: 23
271034 TAATTATTTA
*
271044 ACTTTAATGATTTAATAATAATTATTT
1 ACTTTAATGATTTAAT--T--TTAATT
**
271071 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
* *
271095 ACTTTAATGATTTAACTTTAATG
1 ACTTTAATGATTTAATTTTAATT
* * *
271118 A-TTTAATAATAATT-ACTTTAATG
1 ACTTTAATGAT--TTAATTTTAATT
271141 A-TTTAAT--TTTAATGATTTAA-T
1 ACTTTAATGATTTAAT--TTTAATT
* *
271162 A--ATAATTACTTTAATGATTTAA-T
1 ACTTTAATGA-TTTAAT--TTTAATT
271185 --TTTAATGATTTAATGATTT-A--
1 ACTTTAATGATTTAAT--TTTAATT
* **
271205 ACTTTAATTATTTAATAATAATT
1 ACTTTAATGATTTAATTTTAATT
*
271228 ACTTTAATGATTTAATGATTTAATG
1 ACTTTAATGATTTAAT--TTTAATT
* * *
271253 A-TTTAATAATAATTACTTTAATGATTT
1 ACTTTAATGAT--TTAATTT--T-AATT
*
271280 AACTTTAATGATTTAATAATAATTATTT
1 -ACTTTAATGATTTAAT--T--TTAATT
**
271308 AACTTTAATGA-TTAATAATAATT
1 -ACTTTAATGATTTAATTTTAATT
*
271331 ACTTTAATGATTTAATTTTAATG
1 ACTTTAATGATTTAATTTTAATT
271354 A-TTTAAT
1 ACTTTAAT
271361 AATAATTACT
Statistics
Matches: 229, Mismatches: 32, Indels: 62
0.71 0.10 0.19
Matches are distributed among these distances:
19 2 0.01
20 6 0.03
21 4 0.02
22 53 0.23
23 84 0.37
24 16 0.07
25 5 0.02
26 5 0.02
27 11 0.05
28 32 0.14
29 10 0.04
31 1 0.00
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (23 bp):
ACTTTAATGATTTAATTTTAATT
Found at i:271727 original size:14 final size:13
Alignment explanation
Indices: 271020--271737 Score: 344
Period size: 14 Copynumber: 55.9 Consensus size: 13
271010 ATATTAATAA
*
271020 TAATTATTTAAATT
1 TAATGATTT-AATT
*
271034 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
271048 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
271062 TAATTATTTAACTT
1 TAATGATTTAA-TT
271076 TAATGATTTAA--
1 TAATGATTTAATT
* *
271087 TAAT-AATTACTT
1 TAATGATTTAATT
271099 TAATGATTTAACTT
1 TAATGATTTAA-TT
271113 TAATGATTTAA--
1 TAATGATTTAATT
* *
271124 TAAT-AATTACTT
1 TAATGATTTAATT
271136 TAATGATTTAATTT
1 TAATGATTTAA-TT
271150 TAATGATTTAA--
1 TAATGATTTAATT
* *
271161 TAAT-AATTACTT
1 TAATGATTTAATT
271173 TAATGATTTAATTT
1 TAATGATTTAA-TT
271187 TAATG-----ATT
1 TAATGATTTAATT
271195 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
271209 TAATTATTTAA--
1 TAATGATTTAATT
* *
271220 TAAT-AATTACTT
1 TAATGATTTAATT
271232 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
271248 TAATGATTTAA--
1 TAATGATTTAATT
* *
271259 TAAT-AATTACTT
1 TAATGATTTAATT
271271 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
271285 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
271299 TAATTATTTAACTT
1 TAATGATTTAA-TT
271313 TAATGA-TTAA--
1 TAATGATTTAATT
* *
271323 TAAT-AATTACTT
1 TAATGATTTAATT
271335 TAATGATTTAATTT
1 TAATGATTTAA-TT
271349 TAATGATTTAA--
1 TAATGATTTAATT
* *
271360 TAAT-AATTACTT
1 TAATGATTTAATT
271372 TAATGATTTAATTT
1 TAATGATTTAA-TT
271386 TAATGATTTAA--
1 TAATGATTTAATT
* *
271397 TAAT-AATTACTT
1 TAATGATTTAATT
271409 TAATGATTTAATTT
1 TAATGATTTAA-TT
271423 TAATG-----ATT
1 TAATGATTTAATT
271431 TAATGATTTAACTT
1 TAATGATTTAA-TT
271445 TAATGATTTAA--
1 TAATGATTTAATT
* *
271456 TAAT-AATT-ACT
1 TAATGATTTAATT
271467 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
*
271483 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
271497 TAATTACTTTAATGATT
1 TAATGA-TTT-A--ATT
271514 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
271530 TAATGATTTAA--
1 TAATGATTTAATT
* *
271541 TAAT-AATTACTT
1 TAATGATTTAATT
271553 TAATGATTTAACTT
1 TAATGATTTAA-TT
* *
271567 TAATG-CTTAA-A
1 TAATGATTTAATT
* *
271578 TAAT-AATTACTT
1 TAATGATTTAATT
271590 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
271606 TAATGATTTAA--
1 TAATGATTTAATT
* *
271617 TAAT-AATTACTT
1 TAATGATTTAATT
271629 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
271643 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
271657 TAATTACTTAATT
1 TAATGATTTAATT
271670 TAATGATTTAATTT
1 TAATGATTTAA-TT
*
271684 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
271698 TAATTACTTGACTT
1 TAATGA-TTTAATT
271712 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
271726 TACTGATATAAT
1 TAATGATTTAAT
271738 AATAGTAAAT
Statistics
Matches: 541, Mismatches: 80, Indels: 167
0.69 0.10 0.21
Matches are distributed among these distances:
8 14 0.03
9 4 0.01
10 46 0.09
11 51 0.09
12 47 0.09
13 77 0.14
14 229 0.42
15 13 0.02
16 53 0.10
17 5 0.01
18 2 0.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:274249 original size:171 final size:172
Alignment explanation
Indices: 273946--274302 Score: 549
Period size: 171 Copynumber: 2.1 Consensus size: 172
273936 CATCAAATAT
* *
273946 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
274011 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* *
274076 TTTTTATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTGC
131 TTTTAATAA-TTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
274119 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * * *
274183 TT-T-AATTCTTTCTAATTTAACCAATTAAGCCTACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
274246 CTTTTAATAATTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
274289 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
274303 AACTTTACAA
Statistics
Matches: 169, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
170 43 0.25
171 64 0.38
172 2 0.01
173 60 0.36
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (172 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:274785 original size:23 final size:23
Alignment explanation
Indices: 274759--274802 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
274749 AGTTGCATGC
274759 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
274782 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
274803 CCTGCAGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:274859 original size:22 final size:22
Alignment explanation
Indices: 274831--274884 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
274821 CGTGATTTCT
274831 GTGCTTTCTCCTTGCAGAACCC
1 GTGCTTTCTCCTTGCAGAACCC
274853 GTGCTTTCTCCTTGCAGAACCC
1 GTGCTTTCTCCTTGCAGAACCC
*
274875 GTGATTTCTC
1 GTGCTTTCTC
274885 ACGTCCAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.13, C:0.33, G:0.19, T:0.35
Consensus pattern (22 bp):
GTGCTTTCTCCTTGCAGAACCC
Found at i:274949 original size:34 final size:34
Alignment explanation
Indices: 274906--274990 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
274896 CATGCACAGC
*
274906 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
*
274940 ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
*
274974 ACTGAAGACACCGAGAG
1 ACTGAAGACGCCGAGAG
274991 ATCAATCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (34 bp):
ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
Found at i:275264 original size:88 final size:89
Alignment explanation
Indices: 275111--275288 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 89
275101 TATTTCCTAT
* *
275111 AGCAATCACCCCATTTGGGGAAATAATAATTAAAGTGCATTATTTGGTGAATTAAACCTCTCCGT
1 AGCAATCACCCCATTTGGGGAAATAATAATTAAAGTGCATTATTTGGGGAATTAAACCTCCCCGT
275176 ATGCATTATTCCGGC-AAATAGCC
66 ATGCATTATTCCGGCAAAATAGCC
275199 AGCAATCACCCCATTTGGGGAAATAATAATTAAAGTGCATTATTTGGGGAATTAAACCTCCCCGT
1 AGCAATCACCCCATTTGGGGAAATAATAATTAAAGTGCATTATTTGGGGAATTAAACCTCCCCGT
275264 ATGCATTATTCCGGCAAAATAGCC
66 ATGCATTATTCCGGCAAAATAGCC
275288 A
1 A
275289 ATTTTAGAGA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 78 0.90
89 9 0.10
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (89 bp):
AGCAATCACCCCATTTGGGGAAATAATAATTAAAGTGCATTATTTGGGGAATTAAACCTCCCCGT
ATGCATTATTCCGGCAAAATAGCC
Found at i:276598 original size:5 final size:5
Alignment explanation
Indices: 276588--276619 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
276578 GACCACGACC
276588 ACGAG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG
276620 GCGGTGCGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.38, C:0.22, G:0.41, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:276715 original size:24 final size:25
Alignment explanation
Indices: 276683--276739 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
276673 CCAAGCCTTA
*
276683 AATACTATTCTCAATAGTG-TTTCC
1 AATACTATTCCCAATAGTGTTTTCC
*
276707 AATACTATTCCCAATAGTGTTTTTC
1 AATACTATTCCCAATAGTGTTTTCC
276732 AATACTAT
1 AATACTAT
276740 GTGAGATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (25 bp):
AATACTATTCCCAATAGTGTTTTCC
Found at i:277257 original size:22 final size:22
Alignment explanation
Indices: 277225--277301 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
277215 AACGAATTTG
*
277225 GAAAATCGCAACGATAACTGTA
1 GAAAATCGCAACGACAACTGTA
**
277247 GACTATCGCAACGACAACTGTA
1 GAAAATCGCAACGACAACTGTA
*
277269 GAAAATCGCAACG-CGAAATG--
1 GAAAATCGCAACGAC-AACTGTA
277289 GAAAATCGCAACG
1 GAAAATCGCAACG
277302 CGAAATGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.27
21 1 0.02
22 34 0.71
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (22 bp):
GAAAATCGCAACGACAACTGTA
Found at i:277324 original size:20 final size:20
Alignment explanation
Indices: 277269--277317 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
277259 GACAACTGTA
277269 GAAAATCGCAACGCGAAATG
1 GAAAATCGCAACGCGAAATG
277289 GAAAATCGCAACGCGAAATG
1 GAAAATCGCAACGCGAAATG
277309 GAAAATCGC
1 GAAAATCGC
277318 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (20 bp):
GAAAATCGCAACGCGAAATG
Found at i:278954 original size:3 final size:3
Alignment explanation
Indices: 278946--278973 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
278936 ACTTTCTTAG
278946 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
278974 CGAATCTCTA
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:288430 original size:24 final size:24
Alignment explanation
Indices: 288380--288437 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
288370 AACTTGAAGG
* *
288380 TTATTTAATTTTTAAAAATAAGTAA
1 TTATTTAA-ATTTAAAAATAAGAAA
288405 TTATTTAAATTTAAAATATAA-AAA
1 TTATTTAAATTTAAAA-ATAAGAAA
288429 TTATTTAAA
1 TTATTTAAA
288438 AAAAACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATTTAAATTTAAAAATAAGAAA
Done.